Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 65 of 153
Found at i:20800095 original size:16 final size:16
Alignment explanation
Indices: 20800074--20800106 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20800064 TGTTAGTTAA
20800074 ACTATT-TTATTATTTT
1 ACTATTATT-TTATTTT
20800090 ACTATTATTTTATTTT
1 ACTATTATTTTATTTT
20800106 A
1 A
20800107 AGATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
ACTATTATTTTATTTT
Found at i:20800347 original size:35 final size:35
Alignment explanation
Indices: 20800308--20800378 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
20800298 AGTGAACTTA
20800308 GATTTCAAGAAGGAAGATTGTAAGTTCATGTTGGT
1 GATTTCAAGAAGGAAGATTGTAAGTTCATGTTGGT
*
20800343 GATTTCAAGAAGGAAGATTGTATGTTCATGTTGGT
1 GATTTCAAGAAGGAAGATTGTAAGTTCATGTTGGT
20800378 G
1 G
20800379 GAGAGCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.35
Consensus pattern (35 bp):
GATTTCAAGAAGGAAGATTGTAAGTTCATGTTGGT
Found at i:20804361 original size:19 final size:19
Alignment explanation
Indices: 20804337--20804382 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20804327 CTTTCTTTCC
20804337 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
20804356 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
20804375 TTTGCATT
1 TTTGCATT
20804383 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:20808328 original size:45 final size:45
Alignment explanation
Indices: 20808259--20808865 Score: 219
Period size: 45 Copynumber: 13.7 Consensus size: 45
20808249 GATTCTACAG
* * * *
20808259 ATCTTGTCTCCCTAAAATTACAGTGGAGCAGATCAAAGACGGTGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * **
20808304 ATCTTGTCTTCCTGAAGTTGCAGTGAAGTAGATTTAAG-C--T-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * * * ***
20808345 CCATCTTATCTCCCTAAAGTTGTAGTGGAGTAG-GCTGAAGATTAT-A
1 --ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACGGTGA
* *
20808391 GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* ** * * ****
20808437 ATCTTATCTTTC-GAAAGTTACAGTGAAGCAGATTC-AAG-C-CACC
1 ATCTTGTCTCCCTG-AAGTTGCAGTGGAGCAGA-TCGAAGACGGTGA
* * * * * * * ** *
20808480 ATCCTATCTCCCTAAAGTTGTAGTGGAGTAG-GCTGAAAATTGTAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACGGTGA
* * *
20808525 ATCTTGTCTCCCTGAAGTTGCAATGGAGCAAATCGAAGACGGCGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * * ** ****
20808570 ATCTTGTCTACCTGAAATTGTAGTGAAGCAGATTTAAG-C-CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * * * * * * **
20808613 ATCCTATCCCCCTAAAGTTGTAGTAGAGTAG-GCTGAAGATTGT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACGGTGA
* *
20808657 GATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGTGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * * ** ** *
20808703 ATTTTGTCTTCCTGAAGTTGCAGTGAAACAGATTTAAG-CCAT-C
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * * * * **
20808746 ATCCTATCTCCCTAAAGTTGTAGTGGAGTATG-TTGAA-A-ATTGAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCA-GATCGAAGACGGTG-A
*
20808790 GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* *
20808836 ATTTTGTCTCCCTGAAGTTGCAGTGAAGCA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCA
20808866 AATTTAAGCC
Statistics
Matches: 392, Mismatches: 140, Indels: 60
0.66 0.24 0.10
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 103 0.26
44 8 0.02
45 265 0.68
46 11 0.03
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
Found at i:20808495 original size:133 final size:133
Alignment explanation
Indices: 20808257--20808934 Score: 962
Period size: 133 Copynumber: 5.1 Consensus size: 133
20808247 CCGATTCTAC
* * * * *
20808257 AGATCTTGTCTCCCTAAAATTACAGTGGAGCAGATCAAAGACGGTGAATCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * *
20808322 TGCAGTGAAGTAGATTTAAGCTACCATCTTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
*
20808387 TAT
131 TGT
* * *
20808390 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTTC-GAAAG
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTG-AAG
* * *
20808454 TTACAGTGAAGCAGATTCAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAAA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
20808519 TTGT
130 TTGT
* * * * *
20808523 AAATCTTGTCTCCCTGAAGTTGCAATGGAGCAAATCGAAGACGGCGAATCTTGTCTACCTGAAAT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * *
20808588 TGTAGTGAAGCAGATTTAAGCCACCATCCTATCCCCCTAAAGTTGTAGTAGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
20808653 TGT
131 TGT
* * * *
20808656 AGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGTGAATTTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * * * *
20808721 TGCAGTGAAACAGATTTAAGCCATCATCCTATCTCCCTAAAGTTGTAGTGGAGTATGTTGAAAAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
*
20808786 TGA
131 TGT
* *
20808789 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATTTTGTCTCCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* ** * * *
20808854 TGCAGTGAAGCAAATTTAAGCCACCATTTTATCTCTCTAAAGTTGTAATGGAATAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
20808919 TGT
131 TGT
*
20808922 AAATCTTGTCTCC
1 AGATCTTGTCTCC
20808935 ATAAACAGTA
Statistics
Matches: 481, Mismatches: 62, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
132 1 0.00
133 479 1.00
134 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:20811609 original size:56 final size:56
Alignment explanation
Indices: 20811522--20811632 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
20811512 TTCTAAATTT
* * *
20811522 TAAAGCAAGGCAATGTTCAATGTTTGAAAATCTGAGGAATCGTGCCCTATCGTGCC
1 TAAAGCAAGGCAATGGTCAATGTTTGAAAATCCGAGGAATCGTGCCCTACCGTGCC
* *
20811578 TAAAGCAAGGCTATGGTCAATGTTTGGAAATCCGAGGAATCGTGCCCTACCGTGC
1 TAAAGCAAGGCAATGGTCAATGTTTGAAAATCCGAGGAATCGTGCCCTACCGTGC
20811633 TGGGTTTCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (56 bp):
TAAAGCAAGGCAATGGTCAATGTTTGAAAATCCGAGGAATCGTGCCCTACCGTGCC
Found at i:20813798 original size:20 final size:22
Alignment explanation
Indices: 20813754--20813809 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
20813744 TTGAGTTTTA
*
20813754 TCTCAAGACATATGTTGCTTTG
1 TCTCAAGACATATGTTGCATTG
20813776 TCTCAAGACATA-GTT-CATTG
1 TCTCAAGACATATGTTGCATTG
*
20813796 TCTTAAGAC-TATGT
1 TCTCAAGACATATGT
20813810 ATTGAGACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.45
21 3 0.10
22 12 0.39
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (22 bp):
TCTCAAGACATATGTTGCATTG
Found at i:20816090 original size:67 final size:67
Alignment explanation
Indices: 20816017--20816225 Score: 251
Period size: 67 Copynumber: 3.1 Consensus size: 67
20816007 GCTAACCTAA
*
20816017 GGTCTTACTCGTCAGGTTCCATGTTTAATATCCTGAC-AAGCTCCATTGGTTACCATAGTC-AAG
1 GGTCTTACTCGTCAGGTTCCATGTTTAATGTCCTGACGAA-CTCCATTGGTTACCATAGTCGAA-
20816080 CTAT
64 CTAT
* * * * *
20816084 GGTCTTACCCGTCATGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTGCCATAGTCGAACT
1 GGTCTTACTCGTCAGGTTCCATGTTTAATGTCCTGACGAACTCCATTGGTTACCATAGTCGAACT
20816149 AT
66 AT
** * * * * * *
20816151 GGTCTTACTAATTAGGTTCCATGTTTAATGTCCTGATGGATTCCATTGGTTATCATAGTTGAACT
1 GGTCTTACTCGTCAGGTTCCATGTTTAATGTCCTGACGAACTCCATTGGTTACCATAGTCGAACT
20816216 AT
66 AT
*
20816218 GGCCTTAC
1 GGTCTTAC
20816226 CCCCATAATC
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
67 116 0.97
68 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (67 bp):
GGTCTTACTCGTCAGGTTCCATGTTTAATGTCCTGACGAACTCCATTGGTTACCATAGTCGAACT
AT
Found at i:20816502 original size:45 final size:45
Alignment explanation
Indices: 20816430--20816556 Score: 173
Period size: 45 Copynumber: 2.8 Consensus size: 45
20816420 GTTTCACATA
20816430 ATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTCTATCATG
1 ATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTCTATCATG
* * * *
20816475 ATGTCATAACATCTTTTAGCTACGGTCTTACTCGTTTTTATCATG
1 ATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTCTATCATG
* * * * *
20816520 ATGCCATAGCGTCTTTCAGGTTTGGTCTTACTCATTT
1 ATGCCATAACATCTTTTAGCTATGGTCTTACTCATTT
20816557 TAGGCATATT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (45 bp):
ATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTCTATCATG
Found at i:20817899 original size:61 final size:60
Alignment explanation
Indices: 20817796--20817915 Score: 159
Period size: 61 Copynumber: 2.0 Consensus size: 60
20817786 CAACACGACC
* * *
20817796 TGGATTCCTTACACGGGTAGACTACACACCCGTGTCTGTTTAGCATACTCTAACATGGCT
1 TGGATTCCTTACACGGGTAGACCACACACCCGTGTCTATTTAGCAGACTCTAACATGGCT
* ** * *
20817856 TGGACTTCCTTACACGGGTAGACCATATGCCCTTGTCTATTTAGTAGACTCTAACATGGC
1 TGGA-TTCCTTACACGGGTAGACCACACACCCGTGTCTATTTAGCAGACTCTAACATGGC
20817916 CTAAGCCACT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 4 0.08
61 47 0.92
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (60 bp):
TGGATTCCTTACACGGGTAGACCACACACCCGTGTCTATTTAGCAGACTCTAACATGGCT
Found at i:20826507 original size:61 final size:61
Alignment explanation
Indices: 20826412--20826543 Score: 228
Period size: 61 Copynumber: 2.2 Consensus size: 61
20826402 GTGGGAAATC
20826412 AACACGGCCTGGACTTCCTTACACAGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCT
1 AACACGGCCTGGACTTCCTTACACAGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCT
* * **
20826473 AACACAGCCTGGACTTCCTTACACGGGTAGACCACACGCCTTTGTCTATTTAGCAGACTCT
1 AACACGGCCTGGACTTCCTTACACAGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCT
20826534 AACACGGCCT
1 AACACGGCCT
20826544 AAGCCACCCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (61 bp):
AACACGGCCTGGACTTCCTTACACAGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCT
Found at i:20826558 original size:61 final size:61
Alignment explanation
Indices: 20826432--20826560 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 61
20826422 GGACTTCCTT
* * ** **
20826432 ACACAGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCTAACACAGCCTGGACTTCCTT
1 ACACGGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCTAACACAGCCTAGACCACCCC
** *
20826493 ACACGGGTAGACCACACGCCTTTGTCTATTTAGCAGACTCTAACACGGCCTA-AGCCACCCC
1 ACACGGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCTAACACAGCCTAGA-CCACCCC
20826554 ACACGGG
1 ACACGGG
20826561 CGTGTCACTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.20
Consensus pattern (61 bp):
ACACGGGTAGACCACACGCCCGTGTCTATTTAGCAGACTCTAACACAGCCTAGACCACCCC
Found at i:20827900 original size:3 final size:3
Alignment explanation
Indices: 20827894--20827951 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
20827884 GATGATGATG
20827894 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20827942 ATA ATA ATA A
1 ATA ATA ATA A
20827952 GTCATGAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20828018 original size:10 final size:10
Alignment explanation
Indices: 20827999--20828094 Score: 95
Period size: 10 Copynumber: 9.7 Consensus size: 10
20827989 ATAATTAATT
20827999 TATA-ATATA
1 TATATATATA
*
20828008 TATACATATA
1 TATATATATA
*
20828018 TATATGTATA
1 TATATATATA
* *
20828028 CATATATATG
1 TATATATATA
*
20828038 TATATTTATA
1 TATATATATA
*
20828048 TATATGTATA
1 TATATATATA
* *
20828058 CATATATATG
1 TATATATATA
*
20828068 TATATATATG
1 TATATATATA
*
20828078 TATACATATA
1 TATATATATA
20828088 TATATAT
1 TATATAT
20828095 GTAAGCACGA
Statistics
Matches: 70, Mismatches: 16, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
9 4 0.06
10 66 0.94
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (10 bp):
TATATATATA
Found at i:20828022 original size:14 final size:14
Alignment explanation
Indices: 20828003--20828094 Score: 80
Period size: 14 Copynumber: 6.6 Consensus size: 14
20827993 TTAATTTATA
20828003 ATATATATACATAT
1 ATATATATACATAT
20828017 ATATATGTATACATAT
1 ATATA--TATACATAT
* *
20828033 ATATGTAT--ATTT
1 ATATATATACATAT
** *
20828045 ATATATATGTATAC
1 ATATATATACATAT
**
20828059 ATATATATGTATAT
1 ATATATATACATAT
*
20828073 ATATGTATACATAT
1 ATATATATACATAT
20828087 ATATATAT
1 ATATATAT
20828095 GTAAGCACGA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
12 10 0.16
14 41 0.64
16 13 0.20
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:20828032 original size:24 final size:24
Alignment explanation
Indices: 20828005--20828094 Score: 108
Period size: 24 Copynumber: 3.5 Consensus size: 24
20827995 AATTTATAAT
*
20828005 ATATATACATATATATATGTATAC
1 ATATATATATATATATATGTATAC
20828029 ATATATATGTATATTTATATATATGTATAC
1 --ATATA--TATA--TATATATATGTATAC
*
20828059 ATATATATGTATATATATGTATAC
1 ATATATATATATATATATGTATAC
20828083 ATATATATATAT
1 ATATATATATAT
20828095 GTAAGCACGA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
24 26 0.46
26 8 0.14
28 8 0.14
30 15 0.26
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
ATATATATATATATATATGTATAC
Found at i:20828050 original size:30 final size:28
Alignment explanation
Indices: 20828003--20828097 Score: 118
Period size: 28 Copynumber: 3.3 Consensus size: 28
20827993 TTAATTTATA
* *
20828003 ATATATATACATATATATATGTATACAT
1 ATATATGTATATATATATATGTATACAT
20828031 ATATATGTATATTTATATATATGTATACAT
1 ATATATGTATA--TATATATATGTATACAT
* ** *
20828061 ATATATGTATATATATGTATACATATAT
1 ATATATGTATATATATATATGTATACAT
20828089 ATATATGTA
1 ATATATGTA
20828098 AGCACGAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
28 31 0.53
30 28 0.47
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (28 bp):
ATATATGTATATATATATATGTATACAT
Found at i:20828248 original size:26 final size:27
Alignment explanation
Indices: 20828219--20828269 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
20828209 TGTTACAAAA
* *
20828219 TAATTATAA-TTTAATAAGAATTGTGG
1 TAATTACAAGTTTAAAAAGAATTGTGG
*
20828245 TAATTACAAGTTTAAAAATAATTGT
1 TAATTACAAGTTTAAAAAGAATTGT
20828270 AATTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (27 bp):
TAATTACAAGTTTAAAAAGAATTGTGG
Found at i:20832250 original size:18 final size:17
Alignment explanation
Indices: 20832198--20832257 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
20832188 CTCATTTGCC
* *
20832198 AGCTCATTTGAAGCTACA
1 AGCTCA-TTAAAGCTACG
* *
20832216 AGCTCATCTACACCTACG
1 AGCTCAT-TAAAGCTACG
20832234 AGCTCACTTAAAGCTACG
1 AGCTCA-TTAAAGCTACG
20832252 AGCTCA
1 AGCTCA
20832258 ACCTAAACTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (17 bp):
AGCTCATTAAAGCTACG
Found at i:20842122 original size:21 final size:21
Alignment explanation
Indices: 20842098--20842185 Score: 56
Period size: 21 Copynumber: 4.1 Consensus size: 21
20842088 TTCACATGGC
20842098 CGTGTCCCTACT-TCACACAGG
1 CGTGTCCCT-CTGTCACACAGG
* *
20842119 CGTGTGCCTTTGTCACACAGG
1 CGTGTCCCTCTGTCACACAGG
* *
20842140 CATGTGCCT-TAGTCACAC-GG
1 CGTGTCCCTCT-GTCACACAGG
** *
20842160 CCGTGTGCTATCTTTCACACAGG
1 -CGTGT-CCCTCTGTCACACAGG
20842183 CGT
1 CGT
20842186 TTGGACCCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.08
21 36 0.68
22 10 0.19
23 3 0.06
ACGTcount: A:0.17, C:0.32, G:0.24, T:0.27
Consensus pattern (21 bp):
CGTGTCCCTCTGTCACACAGG
Found at i:20842137 original size:23 final size:21
Alignment explanation
Indices: 20842110--20842157 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
20842100 TGTCCCTACT
* *
20842110 TCACACAGGCGTGTGCCTTTG
1 TCACACAGGCATGTGCCTTAG
20842131 TCACACAGGCATGTGCCTTAG
1 TCACACAGGCATGTGCCTTAG
20842152 TCACAC
1 TCACAC
20842158 GGCCGTGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (21 bp):
TCACACAGGCATGTGCCTTAG
Found at i:20843158 original size:22 final size:20
Alignment explanation
Indices: 20843133--20843172 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20843123 TGAATCTGAT
20843133 TGAATGGATGTTTTTCTGTGAC
1 TGAATGGA--TTTTTCTGTGAC
*
20843155 TGAATTGATTTTTCTGTG
1 TGAATGGATTTTTCTGTG
20843173 GCCTGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.17, C:0.07, G:0.25, T:0.50
Consensus pattern (20 bp):
TGAATGGATTTTTCTGTGAC
Found at i:20847306 original size:3 final size:3
Alignment explanation
Indices: 20847300--20847374 Score: 125
Period size: 3 Copynumber: 25.3 Consensus size: 3
20847290 GATGATGATG
* *
20847300 ATA ATA ATA ATA ACA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20847348 ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20847375 GGGTAAAAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:20848406 original size:18 final size:18
Alignment explanation
Indices: 20848362--20848443 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
20848352 GCGAACTCAT
* *
20848362 CTGCGAGCTCACTTGAAG
1 CTGCGAGCTCATTTAAAG
*
20848380 CTGCAAGCTCATTTAAAG
1 CTGCGAGCTCATTTAAAG
* **
20848398 CTGTGAGCTCATCCAAAG
1 CTGCGAGCTCATTTAAAG
*
20848416 AC-GCGAGCTCA-TCAAAG
1 -CTGCGAGCTCATTTAAAG
20848433 CTGCGAGCTCA
1 CTGCGAGCTCA
20848444 ACCTAAGTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
16 1 0.02
17 14 0.26
18 37 0.70
19 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (18 bp):
CTGCGAGCTCATTTAAAG
Found at i:20848464 original size:35 final size:35
Alignment explanation
Indices: 20848362--20848465 Score: 93
Period size: 35 Copynumber: 2.9 Consensus size: 35
20848352 GCGAACTCAT
* * *
20848362 CTGCGAGCTC-ACTTGAAGCTGCAAGCTCATTTAAAG
1 CTGCGAGCTCAACCT-AAGATGCAAGCTCA-TCAAAG
* * * * *
20848398 CTGTGAGCTCATCCAAAGACGCGAGCTCATCAAAG
1 CTGCGAGCTCAACCTAAGATGCAAGCTCATCAAAG
* *
20848433 CTGCGAGCTCAACCTAAGTTGCAAGCACATCAA
1 CTGCGAGCTCAACCTAAGATGCAAGCTCATCAA
20848466 GTGTGACCTA
Statistics
Matches: 52, Mismatches: 15, Indels: 3
0.74 0.21 0.04
Matches are distributed among these distances:
35 31 0.60
36 20 0.38
37 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (35 bp):
CTGCGAGCTCAACCTAAGATGCAAGCTCATCAAAG
Found at i:20866580 original size:11 final size:11
Alignment explanation
Indices: 20866564--20866588 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20866554 AAAATTATAA
20866564 AAACTAAAATT
1 AAACTAAAATT
20866575 AAACTAAAATT
1 AAACTAAAATT
20866586 AAA
1 AAA
20866589 GGGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACTAAAATT
Found at i:20899917 original size:20 final size:20
Alignment explanation
Indices: 20899892--20899958 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
20899882 ATTTTGATAT
*
20899892 ACATGAT-TGATATGACATGC
1 ACATGATATG-TATGATATGC
*
20899912 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
*
20899932 ACATGTTATGTATGATATGC
1 ACATGATATGTATGATATGC
20899952 ACATGAT
1 ACATGAT
20899959 GTATTCATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:20900076 original size:26 final size:27
Alignment explanation
Indices: 20900008--20900081 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
20899998 GAGGAAGTGC
* * *
20900008 AAAAGGGCTTACGCCCTAGTTTACTGA
1 AAAAGGGCTTATGCCCCAGTTTACCGA
*
20900035 AAAATGGCTTATGCCCCAGTTTACCG-
1 AAAAGGGCTTATGCCCCAGTTTACCGA
*
20900061 AGAAGGGCTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20900082 ATTAAAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAGTTTACCGA
Found at i:20900343 original size:31 final size:31
Alignment explanation
Indices: 20900308--20900371 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
20900298 CATTTACAGT
20900308 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
20900339 AAAGGCTTCGGCCCAGTATTATGAAATGTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
20900370 AA
1 AA
20900372 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:20901538 original size:15 final size:15
Alignment explanation
Indices: 20901489--20901543 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
20901479 CGATCACCCC
20901489 TCTTTCTTT-TCTCT
1 TCTTTCTTTCTCTCT
* *
20901503 TCTTTTCTTCCT-TTT
1 TC-TTTCTTTCTCTCT
20901518 TCTTTCTTTCTCTCT
1 TCTTTCTTTCTCTCT
*
20901533 TCTTTCCTTCT
1 TCTTTCTTTCT
20901544 TTCCTTTCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 10 0.30
15 22 0.67
16 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TCTTTCTTTCTCTCT
Found at i:20901555 original size:11 final size:10
Alignment explanation
Indices: 20901488--20901556 Score: 61
Period size: 10 Copynumber: 6.6 Consensus size: 10
20901478 CCGATCACCC
20901488 CTCTTTCTTT
1 CTCTTTCTTT
20901498 -TCTCTTCTTT
1 CTCT-TTCTTT
*
20901508 -TCTTCCTTT
1 CTCTTTCTTT
*
20901517 TTCTTTCTTT
1 CTCTTTCTTT
20901527 CTCTCTTCTTT
1 CTCT-TTCTTT
20901538 CCTTCTTTCCTTT
1 -C-TCTTT-CTTT
20901551 CTCTTT
1 CTCTTT
20901557 AACTTTCTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
9 8 0.16
10 20 0.40
11 11 0.22
12 4 0.08
13 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CTCTTTCTTT
Found at i:20901555 original size:19 final size:18
Alignment explanation
Indices: 20901489--20901556 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
20901479 CGATCACCCC
20901489 TCTTTCT-TTTCTCTTCTTT
1 TCTTTCTCTTTC-CTTC-TT
* * *
20901508 TCTTCCTTTTTCTTTCTT
1 TCTTTCTCTTTCCTTCTT
*
20901526 TCTCTCTTCTTTCCTTCTT
1 TCTTTC-TCTTTCCTTCTT
20901545 TCCTTTCTCTTT
1 T-CTTTCTCTTT
20901557 AACTTTCTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 6 0.15
19 25 0.64
20 8 0.21
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTCTCTTTCCTTCTT
Found at i:20901556 original size:30 final size:30
Alignment explanation
Indices: 20901489--20901556 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 30
20901479 CGATCACCCC
*
20901489 TCTTTCT-TTTCTCTTCTTTTCTTCCTTTT
1 TCTTTCTCTTTCTCTTCTTCTCTTCCTTTT
20901518 TC-TT-TCTTTCTC-TCTTCT-TTCCTTCTT
1 TCTTTCTCTTTCTCTTCTTCTCTTCCTT-TT
20901545 TCCTTTCTCTTT
1 T-CTTTCTCTTT
20901557 AACTTTCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
26 6 0.18
27 9 0.27
28 9 0.27
29 4 0.12
30 5 0.15
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (30 bp):
TCTTTCTCTTTCTCTTCTTCTCTTCCTTTT
Found at i:20901879 original size:22 final size:22
Alignment explanation
Indices: 20901844--20901888 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20901834 TATTTTTCAT
*
20901844 TTTATTTCTATTCTGTTC-TTTA
1 TTTATTTATATTCT-TTCATTTA
*
20901866 TTTATTTATTTTCTTTCATTTA
1 TTTATTTATATTCTTTCATTTA
20901888 T
1 T
20901889 GTTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTATTTATATTCTTTCATTTA
Found at i:20904531 original size:4 final size:4
Alignment explanation
Indices: 20904522--20904548 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20904512 AAAAACAAAA
20904522 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
20904549 TTGGTAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:20907330 original size:40 final size:40
Alignment explanation
Indices: 20907300--20907549 Score: 367
Period size: 40 Copynumber: 6.3 Consensus size: 40
20907290 GGACTAAGAT
* * * *
20907300 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
20907340 CCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
20907380 TCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
20907420 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
20907460 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
20907500 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
20907539 CCGAAGGCATT
1 CCGAAGGCATT
20907550 TGAACGAGGA
Statistics
Matches: 193, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 34 0.18
40 159 0.82
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:20907385 original size:80 final size:80
Alignment explanation
Indices: 20907247--20907549 Score: 378
Period size: 80 Copynumber: 3.8 Consensus size: 80
20907237 TTGAATGCTG
* * * * * * *
20907247 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-AAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * **
20907310 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTGTTAAA
* *
20907327 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTCTCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
20907392 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* *
20907407 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
20907472 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* ** * * *
20907487 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
20907550 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 35 0.17
80 159 0.80
81 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:20907460 original size:120 final size:119
Alignment explanation
Indices: 20907247--20907549 Score: 374
Period size: 120 Copynumber: 2.5 Consensus size: 119
20907237 TTGAATGCTG
* * * * * * * * *
20907247 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
20907311 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAA
* ** * *
20907367 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* * * *
20907432 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAA
* * *
20907487 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
20907550 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 34 0.22
120 119 0.76
121 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAA
Found at i:20913817 original size:58 final size:59
Alignment explanation
Indices: 20913741--20913857 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 59
20913731 CAAAAATCAA
**
20913741 CTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTG
1 CTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
* * *
20913799 CTCATATTGCGATG-GGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTG
1 CTCATATTGC-AAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
20913858 TTGTTAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 36 0.69
59 16 0.31
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (59 bp):
CTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
Found at i:20913974 original size:72 final size:72
Alignment explanation
Indices: 20913815--20914162 Score: 437
Period size: 72 Copynumber: 4.7 Consensus size: 72
20913805 TTGCGATGGG
* *
20913815 TGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTTAAAAAAAATCAACTCAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTT-TT--CAAAAATCAACTCAT
20913880 ATTGCGAGAAA
62 ATTGCGAGAAA
* *
20913891 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATATTG
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTG
20913956 CGAGAAA
66 CGAGAAA
* * * *
20913963 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAAAAATCAACTC
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-----AAAAATCAACTC
**
20914028 ATATTGCGAGAGG
60 ATATTGCGAGAAA
*
20914041 TGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTG
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTG
**
20914106 CGAGAGG
66 CGAGAAA
* * *
20914113 TGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAATTTTTGTGTTTCAA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTTCTGT-TTTCAA
20914163 TCTATTTTTC
Statistics
Matches: 246, Mismatches: 18, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
71 3 0.01
72 124 0.50
73 11 0.04
74 2 0.01
75 13 0.05
76 29 0.12
77 5 0.02
78 59 0.24
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (72 bp):
TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTG
CGAGAAA
Found at i:20914059 original size:150 final size:148
Alignment explanation
Indices: 20913799--20914672 Score: 926
Period size: 150 Copynumber: 5.7 Consensus size: 148
20913789 TCAATTTCTG
* *
20913799 CTCATATTGCGATG-GGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTT
1 CTCATATTGCGA-GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTTTTT
*
20913863 -AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
64 CAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
* *
20913927 TTTATGTTTTCAAAATTCAA
129 TTTCTGTTTTCAAAAATCAA
** * * * *
20913947 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC-
** **
20914012 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
65 -AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
20914077 TTTCTGTTTTCAAAAATCAA
129 TTTCTGTTTTCAAAAATCAA
* * *
20914097 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAATTTTTGTGTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTTCTGT-TTT-
* * *
20914161 AATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGATG
63 --TC-A-----AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
20914226 TAATTTCAATTTCTGTTTGTCAAAAATCAA
120 TAATTTCAATTTCTGTTT-TCAAAAATCAA
* * *
20914256 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGCTAATTTCACTTTCTGCTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTTCTG------
* ** * *
20914320 AATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGTT
59 --------TTTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* *
20914385 GAGGTAATTTTCAATTTCTGTTGTTAAAAAAAACCAA
116 GAGGTAA-TTTCAATTTCTGTT-TT--CAAAAATCAA
**
20914422 CTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTCA
* * *
20914485 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
66 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
*
20914548 TTTGTTTTTCAAAAAAAAAATCAA
131 TCTG-TTTTC-----AAAAATCAA
*
20914572 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTCA
* **
20914635 --AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
20914673 NNNNNNNNNN
Statistics
Matches: 622, Mismatches: 62, Indels: 82
0.81 0.08 0.11
Matches are distributed among these distances:
147 29 0.05
148 89 0.14
149 2 0.00
150 232 0.37
151 8 0.01
153 1 0.00
154 2 0.00
158 65 0.10
159 57 0.09
160 5 0.01
163 49 0.08
164 15 0.02
165 4 0.01
166 57 0.09
168 1 0.00
169 2 0.00
172 3 0.00
173 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (148 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTCA
AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
TCTGTTTTCAAAAATCAA
Found at i:20914303 original size:73 final size:72
Alignment explanation
Indices: 20914168--20914672 Score: 427
Period size: 72 Copynumber: 6.6 Consensus size: 72
20914158 TTCAATCTAT
* ** *
20914168 TTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGATGTAATTTC
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
20914233 AATTTCTG
65 AATTTCTG
* * *
20914241 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGCTAATTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
20914306 ACTTTCTG
65 AATTTCTG
* ** * * * * * * *
20914314 CTTTTCAATTTATATTTTTCAA-AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATG
1 -TTTTCAA---A-A---ATCAACTCATATT--GC-GAGA--G-GTGAGTTGAG-----CCTCAAG
*
20914378 ACACGTTGAGGTAATTTTCAATTTCTG
47 ACACGCTGAGGTAA-TTTCAATTTCTG
* * ** *
20914405 TTGTTAAAAAAAACCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TT-TT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
20914470 TCAATTTCTG
63 TCAATTTCTG
* ** * *
20914480 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
*
20914545 ATTTTTG
66 ATTTCTG
**
20914552 TTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
1 -TTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
20914617 ATTTCAATTTCTG
60 ATTTCAATTTCTG
*
20914630 TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
20914673 NNNNNNNNNN
Statistics
Matches: 349, Mismatches: 52, Indels: 63
0.75 0.11 0.14
Matches are distributed among these distances:
72 98 0.28
73 71 0.20
74 7 0.02
75 14 0.04
76 20 0.06
77 6 0.02
78 59 0.17
79 4 0.01
80 4 0.01
81 8 0.02
82 2 0.01
84 3 0.01
85 9 0.03
86 3 0.01
87 4 0.01
89 1 0.00
90 21 0.06
91 13 0.04
93 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
ATTTCTG
Found at i:20914521 original size:72 final size:72
Alignment explanation
Indices: 20914337--20914672 Score: 447
Period size: 72 Copynumber: 4.5 Consensus size: 72
20914327 ATTTTTCAAA
* *
20914337 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGTTGAGGTAATTTTCAATTT
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTT
*
20914402 CTGTTGTTAAA
65 CTGTT-TT--C
** **
20914413 AAAAACCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
20914478 TGTTTTC
66 TGTTTTC
** * * * *
20914485 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
20914550 TGTTTTTC
66 TG-TTTTC
* *
20914558 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCA
1 -----AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
20914623 ATTTCTGTTTTC
61 ATTTCTGTTTTC
20914635 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
20914673 NNNNNNNNNN
Statistics
Matches: 232, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
72 98 0.42
73 5 0.02
74 2 0.01
75 14 0.06
76 49 0.21
77 5 0.02
78 59 0.25
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:20917179 original size:18 final size:18
Alignment explanation
Indices: 20917158--20917202 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
20917148 AAAAATTAGG
20917158 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
20917176 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
20917193 TTT-AAAAATT
1 TTTCAAAAATT
20917203 CTTATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:20918830 original size:18 final size:20
Alignment explanation
Indices: 20918809--20918850 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
20918799 TGAAAAAACT
20918809 AAAATTATTTCAAA-AT-TAA
1 AAAATTATTT-AAATATATAA
*
20918828 AAAAATATTTAAATATATAA
1 AAAATTATTTAAATATATAA
20918848 AAA
1 AAA
20918851 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 11 0.55
20 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTATTTAAATATATAA
Found at i:20919041 original size:16 final size:16
Alignment explanation
Indices: 20919017--20919048 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20919007 TTAAATTGAG
20919017 TTTTATATTTTTTAAC
1 TTTTATATTTTTTAAC
*
20919033 TTTTTTATTTTTTAAC
1 TTTTATATTTTTTAAC
20919049 AATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATATTTTTTAAC
Found at i:20922742 original size:27 final size:27
Alignment explanation
Indices: 20922710--20922763 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
20922700 TAAGAAAATT
*
20922710 TGTGCAATTTTTCCCCCTAAAATTGTC
1 TGTGCAATTTTCCCCCCTAAAATTGTC
20922737 TGTGCAATTTTCCCCCCTAAAATTGTC
1 TGTGCAATTTTCCCCCCTAAAATTGTC
20922764 GACTATCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (27 bp):
TGTGCAATTTTCCCCCCTAAAATTGTC
Found at i:20924747 original size:18 final size:19
Alignment explanation
Indices: 20924724--20924762 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
20924714 CTGTTTAGCT
20924724 CTCATA-AGCTTCAGTTAA
1 CTCATAGAGCTTCAGTTAA
*
20924742 CTCATATGAGTTTCAGTTAA
1 CTCATA-GAGCTTCAGTTAA
20924762 C
1 C
20924763 CCTATTGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (19 bp):
CTCATAGAGCTTCAGTTAA
Found at i:20924758 original size:20 final size:20
Alignment explanation
Indices: 20924733--20924800 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
20924723 TCTCATAAGC
20924733 TTCAGTTAACTCATATGAGT
1 TTCAGTTAACTCATATGAGT
* *
20924753 TTCAGTTAAC-CCTATTGGGT
1 TTCAGTTAACTCATA-TGAGT
* *
20924773 TTCAGTTCAACTCTTACGAGT
1 TTCAGTT-AACTCATATGAGT
*
20924794 TTTAGTT
1 TTCAGTT
20924801 TAACCCTACT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.08
20 21 0.54
21 12 0.31
22 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (20 bp):
TTCAGTTAACTCATATGAGT
Found at i:20924827 original size:42 final size:43
Alignment explanation
Indices: 20924733--20924858 Score: 136
Period size: 42 Copynumber: 3.0 Consensus size: 43
20924723 TCTCATAAGC
* * * *
20924733 TTCAGTT-AACTCATATGAGTTTCAG-TTAACCCTATTGG-GT
1 TTCAGTTAAACTCTTATGAGTTTTAGTTTAACCCTACTGGTTT
* *
20924773 TTCAGTTCAACTCTTACGAGTTTTAGTTTAACCCTACTGGTTT
1 TTCAGTTAAACTCTTATGAGTTTTAGTTTAACCCTACTGGTTT
*
20924816 TTCA-TTAAACTCTTATGAGCTTTTA-TTTAACCTTTACTGGTTT
1 TTCAGTTAAACTCTTATGAG-TTTTAGTTTAACC-CTACTGGTTT
20924859 CCGTTAGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
40 7 0.10
41 15 0.21
42 32 0.44
43 19 0.26
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.45
Consensus pattern (43 bp):
TTCAGTTAAACTCTTATGAGTTTTAGTTTAACCCTACTGGTTT
Found at i:20933777 original size:16 final size:16
Alignment explanation
Indices: 20933756--20933807 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
20933746 TGAATTACTG
20933756 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
20933772 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
20933788 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
20933804 ATTA
1 ATTA
20933808 TAGCCAACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:20934031 original size:75 final size:75
Alignment explanation
Indices: 20933906--20934051 Score: 265
Period size: 75 Copynumber: 1.9 Consensus size: 75
20933896 CAAAATTGGC
*
20933906 AAGTATATCATTTTTATTTGATAAATGGTAAGTATATTATTAGTTAACTATTTATGGTTATAATA
1 AAGTATATCATTTTTATTTGATAAACGGTAAGTATATTATTAGTTAACTATTTATGGTTATAATA
20933971 TTAGGTGGGA
66 TTAGGTGGGA
* *
20933981 AAGTATATCATTTTTATTTGATAAACGGTAAGTATATTATTAGTTCACTATTTATGGTTTTAATA
1 AAGTATATCATTTTTATTTGATAAACGGTAAGTATATTATTAGTTAACTATTTATGGTTATAATA
20934046 TTAGGT
66 TTAGGT
20934052 TAGTAAAACT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.47
Consensus pattern (75 bp):
AAGTATATCATTTTTATTTGATAAACGGTAAGTATATTATTAGTTAACTATTTATGGTTATAATA
TTAGGTGGGA
Found at i:20937856 original size:18 final size:20
Alignment explanation
Indices: 20937829--20937867 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
20937819 AAGCAGAAAT
20937829 AACTCAAAAG-AGA-AAAAG
1 AACTCAAAAGAAGAGAAAAG
*
20937847 AACTCGAAAGAAGAGAAAAG
1 AACTCAAAAGAAGAGAAAAG
20937867 A
1 A
20937868 CAAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.64, C:0.10, G:0.21, T:0.05
Consensus pattern (20 bp):
AACTCAAAAGAAGAGAAAAG
Found at i:20938068 original size:23 final size:22
Alignment explanation
Indices: 20938034--20938086 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
20938024 AAAAGCAATC
*
20938034 TACAAATTAAATC-TCTAAGATT
1 TACAAATCAAATCTTCTAAGA-T
20938056 TACATAATCAAATCTTCTAAGAT
1 TACA-AATCAAATCTTCTAAGAT
20938079 TACAAATC
1 TACAAATC
20938087 TTCTAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.29
23 13 0.46
24 7 0.25
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (22 bp):
TACAAATCAAATCTTCTAAGAT
Found at i:20938086 original size:17 final size:17
Alignment explanation
Indices: 20938064--20938115 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
20938054 TTTACATAAT
20938064 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
* *
20938081 CAAATCTTCTAAAATTG
1 CAAATCTTCTAAGATTA
*
20938098 CATATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
20938115 C
1 C
20938116 TTCTCATACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:20940076 original size:19 final size:20
Alignment explanation
Indices: 20940054--20940100 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
20940044 ATAAAGTCGT
20940054 AAGAAAATTATAAAA-TGTA
1 AAGAAAATTATAAAATTGTA
20940073 AAG-AAA-TATAAAATTTGTA
1 AAGAAAATTATAAAA-TTGTA
*
20940092 AAAAAAATT
1 AAGAAAATT
20940101 TCTAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 7 0.30
18 3 0.13
19 9 0.39
20 3 0.13
21 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (20 bp):
AAGAAAATTATAAAATTGTA
Found at i:20940316 original size:9 final size:9
Alignment explanation
Indices: 20940291--20940442 Score: 69
Period size: 10 Copynumber: 15.7 Consensus size: 9
20940281 TTTTTGATGC
20940291 ATTTTATATA
1 ATTTT-TATA
20940301 TATTTTTATA
1 -ATTTTTATA
20940311 ATTTTTATAA
1 ATTTTTAT-A
* *
20940321 AATTTTACA
1 ATTTTTATA
*
20940330 ATTCTTTTACA
1 A-T-TTTTATA
20940341 ATTTTTTATA
1 A-TTTTTATA
*
20940351 ATTTCTTTTATG
1 A--T-TTTTATA
*
20940363 ATTTTTATG
1 ATTTTTATA
*
20940372 ATTATTTCTA
1 ATT-TTTATA
20940382 ATTTTTA-A
1 ATTTTTATA
20940390 TATATTTTATTAA
1 -AT-TTTTA-T-A
*
20940403 ATTTTAATA
1 ATTTTTATA
*
20940412 ATTTTTATTG
1 ATTTTTA-TA
20940422 ATTTTTAT-
1 ATTTTTATA
20940430 -TTTTTAT-
1 ATTTTTATA
20940437 ATTTTT
1 ATTTTT
20940443 TGCCCCATGT
Statistics
Matches: 117, Mismatches: 11, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.06
8 6 0.05
9 33 0.28
10 40 0.34
11 21 0.18
12 9 0.08
13 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:20940326 original size:19 final size:19
Alignment explanation
Indices: 20940304--20940345 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20940294 TTATATATAT
*
20940304 TTTTATAATT-TTTATAAAA
1 TTTTACAATTCTTT-TAAAA
*
20940323 TTTTACAATTCTTTTACAA
1 TTTTACAATTCTTTTAAAA
20940342 TTTT
1 TTTT
20940346 TTATAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTACAATTCTTTTAAAA
Found at i:20940337 original size:11 final size:11
Alignment explanation
Indices: 20940323--20940360 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20940313 TTTTATAAAA
20940323 TTTTACAATTC
1 TTTTACAATTC
20940334 TTTTACAATT-
1 TTTTACAATTC
*
20940344 TTTTATAATTTC
1 TTTTACAA-TTC
20940356 TTTTA
1 TTTTA
20940361 TGATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 7 0.29
11 12 0.50
12 5 0.21
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTACAATTC
Found at i:20940793 original size:90 final size:89
Alignment explanation
Indices: 20940626--20940793 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
20940616 GAAGCAATGG
*
20940626 CTTAATTGCTTTTTTTGAAAAAGTTTGAGGACCGTTTTGATGCATTTTGAAAGTTCAAGTACCTA
1 CTTAATTACTTTTTTTGAAAAAGTTTGAGGACCGTTTTGATGCATTTTGAAAGTTCAAGTACCTA
***
20940691 ATTGAGTGAAAAAGGAAGTAGAGT
66 ATTGAAAAAAAAAGGAAGTAGAGT
* *
20940715 CTTAATTATTTTTCTTTGAAAAAGTTTGA-GAGCCTTTTTGATGCATTTTGAAAGTTCAAGTA-C
1 CTTAATTACTTTT-TTTGAAAAAGTTTGAGGA-CCGTTTTGATGCATTTTGAAAGTTCAAGTACC
20940778 TCAATTGAAAAAAAAA
64 T-AATTGAAAAAAAAA
20940794 TTAACGACTT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
89 15 0.21
90 55 0.79
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (89 bp):
CTTAATTACTTTTTTTGAAAAAGTTTGAGGACCGTTTTGATGCATTTTGAAAGTTCAAGTACCTA
ATTGAAAAAAAAAGGAAGTAGAGT
Found at i:20940817 original size:90 final size:87
Alignment explanation
Indices: 20940626--20940832 Score: 228
Period size: 90 Copynumber: 2.4 Consensus size: 87
20940616 GAAGCAATGG
**
20940626 CTTAATTGCTTTTTTTGAAAAAGTTTGAGGACCGTTTTGATGCATTTTGAAAGTTCAAGTACCTA
1 CTTAATTATTTTTTTTGAAAAAGTTTGAGGACCGTTTTGATGCATTTTGAAAGTTCAAGTACCTA
* *
20940691 ATTGAGTGAAAAAGGAAGTAGAGT
66 ATTGA--GAAAAAGAAAGTAGAGA
*
20940715 CTTAATTATTTTTCTTTGAAAAAGTTTGA-GAGCCTTTTTGATGCATTTTGAAAGTTCAAGTA-C
1 CTTAATTATTTTT-TTTGAAAAAGTTTGAGGA-CCGTTTTGATGCATTTTGAAAGTTCAAGTACC
*
20940778 TCAATTGA-AAAAA-AAATTA-ACGA
64 T-AATTGAGAAAAAGAAAGTAGA-GA
** *
20940801 CTTAATTGCGTTTTTTT-AAAAAGTTTGGGGAC
1 CTTAATT-ATTTTTTTTGAAAAAGTTTGAGGAC
20940833 TTTTTACATC
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
85 12 0.12
86 17 0.17
87 9 0.09
89 15 0.15
90 50 0.49
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (87 bp):
CTTAATTATTTTTTTTGAAAAAGTTTGAGGACCGTTTTGATGCATTTTGAAAGTTCAAGTACCTA
ATTGAGAAAAAGAAAGTAGAGA
Found at i:20941730 original size:16 final size:16
Alignment explanation
Indices: 20941685--20941736 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
20941675 AAAACACTTA
* *
20941685 TAATGGAATAGAGTTA
1 TAATGGAATAGAGCTG
*
20941701 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTG
20941717 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
20941733 TAAT
1 TAAT
20941737 AAGTAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:20941811 original size:44 final size:46
Alignment explanation
Indices: 20941718--20941811 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
20941708 ATAGAGCTGT
*
20941718 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
*
20941764 AATGGAATAGAACTGTAAT-AGT-ATTCTTA-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTC-AACTGTTTGGTTGAATGG
20941808 AATG
1 AATG
20941812 ATGATGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.51
45 4 0.09
46 18 0.40
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:20942185 original size:19 final size:20
Alignment explanation
Indices: 20942161--20942203 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
20942151 CGGAAAATAA
20942161 TTTTTGGA-AAATGATTTAC
1 TTTTTGGAGAAATGATTTAC
*
20942180 TTTTTGTAGAAATGATTTAC
1 TTTTTGGAGAAATGATTTAC
20942200 TTTT
1 TTTT
20942204 CTGGTGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (20 bp):
TTTTTGGAGAAATGATTTAC
Found at i:20942555 original size:18 final size:18
Alignment explanation
Indices: 20942532--20942566 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20942522 ACGTGACAGT
*
20942532 CCAACTAGATTTTAAGTG
1 CCAACTAGATCTTAAGTG
20942550 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
20942567 ATATCGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:20942623 original size:30 final size:30
Alignment explanation
Indices: 20942589--20942649 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
20942579 CATACTTCAT
*
20942589 CCGGATAAATTATATAGGTTTCTGTTAATA
1 CCGGATAAATTATAGAGGTTTCTGTTAATA
*
20942619 CCGGATAAATTATAGAGTTTTCTGTTAATA
1 CCGGATAAATTATAGAGGTTTCTGTTAATA
20942649 C
1 C
20942650 ATACTTCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (30 bp):
CCGGATAAATTATAGAGGTTTCTGTTAATA
Found at i:20949358 original size:17 final size:17
Alignment explanation
Indices: 20949326--20949357 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20949316 TAAATTTTAT
20949326 ATAAAAATCTAAAAAAG
1 ATAAAAATCTAAAAAAG
20949343 ATAAAAAT-TAAAAAA
1 ATAAAAATCTAAAAAA
20949358 ACAATTACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
ATAAAAATCTAAAAAAG
Found at i:20963263 original size:19 final size:19
Alignment explanation
Indices: 20963247--20963285 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
20963237 GGATTATTTT
*
20963247 AGATGATCTAAAATATTGC
1 AGATGACCTAAAATATTGC
20963266 AGATGACCTAAAATATTGC
1 AGATGACCTAAAATATTGC
20963285 A
1 A
20963286 TTCATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (19 bp):
AGATGACCTAAAATATTGC
Found at i:20979006 original size:8 final size:8
Alignment explanation
Indices: 20978964--20978988 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20978954 ATATAGACTA
20978964 AATAAAAT
1 AATAAAAT
20978972 AATAAAAT
1 AATAAAAT
20978980 AATAAAAT
1 AATAAAAT
20978988 A
1 A
20978989 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:20979012 original size:29 final size:31
Alignment explanation
Indices: 20978961--20979033 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
20978951 TATATATAGA
*
20978961 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
20978990 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
20979021 CTAATT-AAATAAT
1 CTAATTAAAATAAT
20979034 TATAAAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:20979038 original size:29 final size:30
Alignment explanation
Indices: 20978968--20979039 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
20978958 AGACTAAATA
*
20978968 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
20978996 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
20979027 AAATAATTATAAA
1 AAATAATTATAAA
20979040 ATGTCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:20980869 original size:13 final size:13
Alignment explanation
Indices: 20980851--20980875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20980841 AATATTTCAT
20980851 GAAAATTTTTATA
1 GAAAATTTTTATA
20980864 GAAAATTTTTAT
1 GAAAATTTTTAT
20980876 CAAATATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:20982092 original size:33 final size:33
Alignment explanation
Indices: 20982055--20982168 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
20982045 TACCCAAATG
* * *
20982055 GTACAACTTGAAAAAGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTTATGTATACTTTGTGT
* *
20982088 GTA-CACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTTATGTATACTTTGTGT
* **
20982120 ATACCA-TATGAAAAGGAAATGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTTATGTATACTTTGTGT
*
20982153 GTACCAGTTGAAAAGG
1 GTACCACTTGAAAAGG
20982169 AACGTACACC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 27 0.40
33 39 0.58
34 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTTATGTATACTTTGTGT
Found at i:20990433 original size:25 final size:25
Alignment explanation
Indices: 20990405--20990456 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
20990395 TGTTTAGTTA
20990405 GTTTACCTTAAATGTGAAATAAATG
1 GTTTACCTTAAATGTGAAATAAATG
20990430 GTTTACCTTAAATGTGAAATAAATG
1 GTTTACCTTAAATGTGAAATAAATG
20990455 GT
1 GT
20990457 AAGTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (25 bp):
GTTTACCTTAAATGTGAAATAAATG
Found at i:21005264 original size:44 final size:44
Alignment explanation
Indices: 21005163--21005280 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 44
21005153 TTATTTAGAT
* ** *
21005163 TTTTATTTTAATTAATTTGTAAATATGCAATTATTACAACTTTTA
1 TTTTATTTTAATT-ATTTTTAAATATATAATTATCACAACTTTTA
** * *
21005208 TTAAATTATAATTATTTTTAAATATATAATTATCACGACTTTTA
1 TTTTATTTTAATTATTTTTAAATATATAATTATCACAACTTTTA
21005252 TTTTATTTTAA-T-TTTTTAAAT-TAATAATT
1 TTTTATTTTAATTATTTTTAAATAT-ATAATT
21005281 TTAAATTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 15 0.25
43 1 0.02
44 34 0.56
45 10 0.16
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (44 bp):
TTTTATTTTAATTATTTTTAAATATATAATTATCACAACTTTTA
Found at i:21014482 original size:13 final size:13
Alignment explanation
Indices: 21014464--21014488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21014454 AATATTGCAT
21014464 GAAAATTTTTATA
1 GAAAATTTTTATA
21014477 GAAAATTTTTAT
1 GAAAATTTTTAT
21014489 CAAATATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:21015687 original size:33 final size:33
Alignment explanation
Indices: 21015650--21015772 Score: 126
Period size: 33 Copynumber: 3.8 Consensus size: 33
21015640 TACCCAAATG
* *
21015650 GTACAACTTGGAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGGAAAGGTAATGTACACTTTGTGT
* * * *
21015683 GTA-CACTTGGAAAGGTTAGGTATACTTAGTGT
1 GTACCACTTGGAAAGGTAATGTACACTTTGTGT
* * * *
21015715 ATACCA-TATGAAAAGGAAATGTATACTTTGTGT
1 GTACCACT-TGGAAAGGTAATGTACACTTTGTGT
21015748 GTACCACTTGGAAAGG-AATGTACAC
1 GTACCACTTGGAAAGGTAATGTACAC
21015773 CTCAAGTGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
32 36 0.49
33 37 0.50
34 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (33 bp):
GTACCACTTGGAAAGGTAATGTACACTTTGTGT
Found at i:21015696 original size:32 final size:32
Alignment explanation
Indices: 21015650--21015772 Score: 115
Period size: 32 Copynumber: 3.8 Consensus size: 32
21015640 TACCCAAATG
*
21015650 GTACAACTTGGAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTGGAAAGGTAATGTACACTTTGTGT
* * * *
21015683 GTACACTTGGAAAGGTTAGGTATACTTAGTGT
1 GTACACTTGGAAAGGTAATGTACACTTTGTGT
* * * *
21015715 ATAC-CATATGAAAAGGAAATGTATACTTTGTGT
1 GTACAC-T-TGGAAAGGTAATGTACACTTTGTGT
21015748 GTACCACTTGGAAAGG-AATGTACAC
1 GTA-CACTTGGAAAGGTAATGTACAC
21015773 CTCAAGTGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
31 1 0.01
32 37 0.50
33 33 0.45
34 2 0.03
35 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (32 bp):
GTACACTTGGAAAGGTAATGTACACTTTGTGT
Found at i:21017253 original size:16 final size:15
Alignment explanation
Indices: 21017232--21017285 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
21017222 CTTTTGGAGC
21017232 AATAATGCTTGTTTAG
1 AATAATG-TTGTTTAG
*
21017248 AATAATTGTTGTTCAG
1 AATAA-TGTTGTTTAG
*
21017264 AATAGCTGTTGTTTGAG
1 AATA-ATGTTGTTT-AG
21017281 AATAA
1 AATAA
21017286 CTATGTCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 23 0.74
17 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (15 bp):
AATAATGTTGTTTAG
Found at i:21017441 original size:16 final size:16
Alignment explanation
Indices: 21017420--21017461 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
21017410 AAAAACTATG
21017420 TTTAGAACAACCAT-TA
1 TTTAGAACAA-CATGTA
*
21017436 TTTAGAACAACTTGTA
1 TTTAGAACAACATGTA
21017452 TTTAGAACAA
1 TTTAGAACAA
21017462 TTGTGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (16 bp):
TTTAGAACAACATGTA
Found at i:21020780 original size:34 final size:34
Alignment explanation
Indices: 21020685--21020781 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 34
21020675 TGCATTTATC
*
21020685 TTAGTATTATTTAAGTATA-TATATTTTTAATTTTT
1 TTAGT-TTATTTAA-TATATTATATTTTTAATGTTT
* *
21020720 TTCA-TTTGTTGGGAA-ATATT-TA-TTTTAATGTTT
1 TT-AGTTTATT--TAATATATTATATTTTTAATGTTT
21020753 TTAGTTTATTTAATATATTATATTTTTAA
1 TTAGTTTATTTAATATATTATATTTTTAA
21020782 ATTTATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
31 2 0.04
32 6 0.12
33 19 0.39
34 15 0.31
35 4 0.08
36 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (34 bp):
TTAGTTTATTTAATATATTATATTTTTAATGTTT
Found at i:21025243 original size:5 final size:5
Alignment explanation
Indices: 21025233--21025257 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21025223 TTTGTTTTTT
21025233 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
21025258 GAATTTCATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:21029293 original size:14 final size:14
Alignment explanation
Indices: 21029274--21029309 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
21029264 CATAAATGTT
*
21029274 TTTTTTTTCACTTCT
1 TTTTTTTTCA-TTCA
21029289 TTTTTTTTCATTCA
1 TTTTTTTTCATTCA
21029303 TTTTTTT
1 TTTTTTT
21029310 AGAACAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTTTCATTCA
Found at i:21029293 original size:15 final size:15
Alignment explanation
Indices: 21029273--21029309 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
21029263 ACATAAATGT
21029273 TTTTTTTTTCACTTC-
1 TTTTTTTTTCA-TTCA
21029288 TTTTTTTTTCATTCA
1 TTTTTTTTTCATTCA
21029303 TTTTTTT
1 TTTTTTT
21029310 AGAACAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTCATTCA
Found at i:21034803 original size:30 final size:30
Alignment explanation
Indices: 21034747--21034805 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
21034737 CAGAGGCTGG
* ** *
21034747 CACATGGGCGTGTGGCCTGCCTGTGTGGAT
1 CACATGGGCGTGTGCCCAACCCGTGTGGAT
21034777 CACATGGGCGTGTGCCCAACCCGTGTGGA
1 CACATGGGCGTGTGCCCAACCCGTGTGGA
21034806 AAATGCCCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.27, G:0.37, T:0.22
Consensus pattern (30 bp):
CACATGGGCGTGTGCCCAACCCGTGTGGAT
Found at i:21035460 original size:13 final size:13
Alignment explanation
Indices: 21035438--21035470 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21035428 AAGGGTTTGT
21035438 TTAT-TAAACTAA
1 TTATCTAAACTAA
21035450 TTATCTAAACTAA
1 TTATCTAAACTAA
*
21035463 TTAACTAA
1 TTATCTAA
21035471 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:21037097 original size:15 final size:16
Alignment explanation
Indices: 21037061--21037100 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
21037051 ATAATCAACA
21037061 TAATTTTTTTTTCACT
1 TAATTTTTTTTTCACT
*
21037077 T-CTTTTTTTTTCA-T
1 TAATTTTTTTTTCACT
21037091 TAATTTTTTT
1 TAATTTTTTT
21037101 AGAACAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TAATTTTTTTTTCACT
Found at i:21039829 original size:43 final size:43
Alignment explanation
Indices: 21039626--21039834 Score: 181
Period size: 43 Copynumber: 4.9 Consensus size: 43
21039616 TTATGTAAAA
* * * * *
21039626 AAACGCCGCTAAAGAACATGACTTTTAA-GGCGTTTTTGAGA-
1 AAACGCCGCTAAAGAACGTGACCTTTAACGGCGCTTTTCATAC
* * * * * *
21039667 AAGCGTCTCTAAAGAACGTGACCTTTAGCCGCACTTTTCATAC
1 AAACGCCGCTAAAGAACGTGACCTTTAACGGCGCTTTTCATAC
* * * * * *
21039710 AAACGCAGCTAAAGAACGTGACCTTTAGCGACACTTCTCAAAC
1 AAACGCCGCTAAAGAACGTGACCTTTAACGGCGCTTTTCATAC
* *
21039753 AAACGCCGCCAAAGAACGGGACCTTTAGA-GGCGCTTTTCATAC
1 AAACGCCGCTAAAGAACGTGACCTTTA-ACGGCGCTTTTCATAC
* * * *
21039796 AAACCCCGCTAAAGAACTTGACTTTTAACGGCGCATTTC
1 AAACGCCGCTAAAGAACGTGACCTTTAACGGCGCTTTTC
21039835 TCAAAAAAGC
Statistics
Matches: 131, Mismatches: 33, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
41 22 0.17
42 9 0.07
43 100 0.76
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACGTGACCTTTAACGGCGCTTTTCATAC
Found at i:21040562 original size:14 final size:14
Alignment explanation
Indices: 21040543--21040585 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
21040533 ACTAACGATG
21040543 AATTAAACCATTAT
1 AATTAAACCATTAT
21040557 AATTAAACCATTAT
1 AATTAAACCATTAT
*
21040571 GATTAAA-CATTAT
1 AATTAAACCATTAT
21040584 AA
1 AA
21040586 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:21046471 original size:20 final size:22
Alignment explanation
Indices: 21046417--21046471 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 22
21046407 ATTTTAATCC
21046417 TTTTATATATACATTTTACATATA
1 TTTTATATAT--ATTTTACATATA
*
21046441 ATTTAT-T-TATTTTA-A-ATA
1 TTTTATATATATTTTACATATA
21046459 TTTTATATATATT
1 TTTTATATATATT
21046472 ATTTATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 8 0.30
19 2 0.07
20 10 0.37
22 1 0.04
23 1 0.04
24 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATATATATTTTACATATA
Found at i:21046573 original size:21 final size:21
Alignment explanation
Indices: 21046555--21046597 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21046545 TCGTATTACT
*
21046555 TATATTTCATTGTATATTATA
1 TATATTTCATTATATATTATA
*
21046576 TATATTTTATTATATATTATA
1 TATATTTCATTATATATTATA
21046597 T
1 T
21046598 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TATATTTCATTATATATTATA
Found at i:21046588 original size:14 final size:14
Alignment explanation
Indices: 21046569--21046666 Score: 58
Period size: 14 Copynumber: 6.4 Consensus size: 14
21046559 TTTCATTGTA
21046569 TATTATATATATTT
1 TATTATATATATTT
21046583 TATTATATATTATATTT
1 TA-T-TATA-TATATTT
21046600 TATTATATAT-TGTT
1 TATTATATATAT-TT
21046614 CT-TTATATTATCTTCATTT
1 -TATTATA-TA---T-ATTT
21046633 TATTATATATTATTT
1 TATTATATA-TATTT
*
21046648 TATTATTTAT-TATT
1 TATTATATATAT-TT
21046662 TATTA
1 TATTA
21046667 GCATATATAT
Statistics
Matches: 70, Mismatches: 1, Indels: 26
0.72 0.01 0.27
Matches are distributed among these distances:
13 2 0.03
14 20 0.29
15 20 0.29
16 7 0.10
17 9 0.13
18 4 0.06
19 7 0.10
20 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (14 bp):
TATTATATATATTT
Found at i:21046592 original size:33 final size:31
Alignment explanation
Indices: 21046555--21046658 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 31
21046545 TCGTATTACT
21046555 TATATTTCATTGTATATTATATATATTTTATTA
1 TATATTTCATT-T-TATTATATATATTTTATTA
21046588 TATATTAT-ATTTTATTATATAT-TGTTCT-TTA
1 TATATT-TCATTTTATTATATATAT-TT-TATTA
21046619 TATTATCTTCATTTTATTATATATTATTTTATTA
1 TA-TAT-TTCATTTTATTATATA-TATTTTATTA
*
21046653 TTTATT
1 TATATT
21046659 ATTTATTAGC
Statistics
Matches: 61, Mismatches: 1, Indels: 19
0.75 0.01 0.23
Matches are distributed among these distances:
30 1 0.02
31 17 0.28
32 7 0.11
33 27 0.44
34 8 0.13
35 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (31 bp):
TATATTTCATTTTATTATATATATTTTATTA
Found at i:21046598 original size:17 final size:17
Alignment explanation
Indices: 21046572--21046660 Score: 84
Period size: 17 Copynumber: 5.5 Consensus size: 17
21046562 CATTGTATAT
21046572 TATA-TATATTTTATTA
1 TATATTATATTTTATTA
21046588 TATATTATATTTTATTA
1 TATATTATATTTTATTA
*
21046605 TATATTGT-TCTTTA-TA
1 TATATTATAT-TTTATTA
21046621 T-TATCT-TCATTTTATTA
1 TATAT-TAT-ATTTTATTA
21046638 TATA-T-TATTTTATTA
1 TATATTATATTTTATTA
*
21046653 TTTATTAT
1 TATATTAT
21046661 TTATTAGCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
15 16 0.26
16 16 0.26
17 28 0.45
18 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (17 bp):
TATATTATATTTTATTA
Found at i:21046645 original size:7 final size:7
Alignment explanation
Indices: 21046631--21046666 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
21046621 TTATCTTCAT
21046631 TTTATTA
1 TTTATTA
*
21046638 TATATTA
1 TTTATTA
21046645 TTTTATTA
1 -TTTATTA
21046653 TTTATTA
1 TTTATTA
21046660 TTTATTA
1 TTTATTA
21046667 GCATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:21046657 original size:19 final size:19
Alignment explanation
Indices: 21046509--21046661 Score: 52
Period size: 21 Copynumber: 7.7 Consensus size: 19
21046499 ATGTAAAAAA
21046509 ATTA-TTATAT-TTATTTT
1 ATTATTTATATATTATTTT
*
21046526 -TTATTTATGTGATTATTTATCGT
1 ATTATTTATAT-ATTA-TT-T--T
* *
21046549 ATTACTTATAT-TTCATTGT
1 ATTATTTATATATT-ATTTT
21046568 A-TA-TTATATA-TATTTT
1 ATTATTTATATATTATTTT
*
21046584 ATTATATATTATATTTTATTATAT
1 A-T-TAT-TTATATATTATT-T-T
* * *
21046608 ATTGTTCTTTATATTATCTTC
1 ATTATT-TATATATTAT-TTT
*
21046629 ATTTTATTATATATTATTTT
1 ATTAT-TTATATATTATTTT
21046649 ATTATTTAT-TATT
1 ATTATTTATATATT
21046662 TATTAGCATA
Statistics
Matches: 101, Mismatches: 14, Indels: 41
0.65 0.09 0.26
Matches are distributed among these distances:
16 8 0.08
17 12 0.12
18 6 0.06
19 11 0.11
20 8 0.08
21 21 0.21
22 20 0.20
23 5 0.05
24 10 0.10
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTATTTATATATTATTTT
Found at i:21052600 original size:20 final size:20
Alignment explanation
Indices: 21052562--21052600 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21052552 CTCAAGTTTC
* *
21052562 AAAGAAGAAAAAGGGTTTAA
1 AAAGAAAAAAAAGGCTTTAA
*
21052582 AAAGAAAAAAAATGCTTTA
1 AAAGAAAAAAAAGGCTTTA
21052601 CCTACTGAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAGAAAAAAAAGGCTTTAA
Found at i:21053209 original size:20 final size:20
Alignment explanation
Indices: 21053184--21053223 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21053174 CGATAAGAAA
21053184 TTAGAAATGCTTTTTAGATG
1 TTAGAAATGCTTTTTAGATG
21053204 TTAGAAATGCTTTTTAGATG
1 TTAGAAATGCTTTTTAGATG
21053224 AGGAAAATTA
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:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (20 bp):
TTAGAAATGCTTTTTAGATG
Found at i:21057193 original size:17 final size:17
Alignment explanation
Indices: 21057171--21057203 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21057161 ATCCAAGAGA
21057171 TAAACACCATTGGATAG
1 TAAACACCATTGGATAG
21057188 TAAACACCATTGGATA
1 TAAACACCATTGGATA
21057204 ACCTTACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
TAAACACCATTGGATAG
Found at i:21057446 original size:95 final size:95
Alignment explanation
Indices: 21057283--21057473 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
21057273 ATGAGACAAA
*
21057283 TATGTATTGTCATCATGGCTTAATTATGTTAAAACAAGTAGTTGGTAAGTTATGGTGAAAAAGAT
1 TATGTATAGTCATCATGGCTTAATTATGTTAAAACAAGTAGTTGGTAAGTTATGGTGAAAAAGAT
*
21057348 TAGTTATGAGATGCCATATATTATGAAATT
66 TAGTTATAAGATGCCATATATTATGAAATT
21057378 TATGTATAGTCATCATGGCTTAATTATGTTAAAACAAGTAGTTGGTAAGTTATGGTGAAAAAGAT
1 TATGTATAGTCATCATGGCTTAATTATGTTAAAACAAGTAGTTGGTAAGTTATGGTGAAAAAGAT
21057443 TAGTTATAAGATGCCATATATTATGAAATT
66 TAGTTATAAGATGCCATATATTATGAAATT
21057473 T
1 T
21057474 TTTAGGGCAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (95 bp):
TATGTATAGTCATCATGGCTTAATTATGTTAAAACAAGTAGTTGGTAAGTTATGGTGAAAAAGAT
TAGTTATAAGATGCCATATATTATGAAATT
Found at i:21063889 original size:79 final size:79
Alignment explanation
Indices: 21063751--21063909 Score: 264
Period size: 79 Copynumber: 2.0 Consensus size: 79
21063741 AGTTCCTCAA
* * * *
21063751 CAGATAGAAGAGTAAAGCTTTAATCTACAAGGTTGATCTTTTTGTTGGGGACGCTTGATCAGGCT
1 CAGATAGAAGAGTAAAGCTTTAAGCTAAAAGGTTGATCTTTTTGTTGGGGACACATGATCAGGCT
*
21063816 TTAGTATTTTTTAG
66 TTAATATTTTTTAG
*
21063830 CAGATAGAAGAGTAGAGCTTTAAGCTAAAAGGTTGATCTTTTTGTTGGGGACACATGATCAGGCT
1 CAGATAGAAGAGTAAAGCTTTAAGCTAAAAGGTTGATCTTTTTGTTGGGGACACATGATCAGGCT
21063895 TTAATATTTTTTAG
66 TTAATATTTTTTAG
21063909 C
1 C
21063910 CAGAAAAGGG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.36
Consensus pattern (79 bp):
CAGATAGAAGAGTAAAGCTTTAAGCTAAAAGGTTGATCTTTTTGTTGGGGACACATGATCAGGCT
TTAATATTTTTTAG
Found at i:21068620 original size:29 final size:29
Alignment explanation
Indices: 21068570--21068627 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
21068560 TATGAGCTTA
* *
21068570 CTGTTTAAGCTCTTCGGGGCTTACTGTTT
1 CTGTTTAAGCTCTTCGGAGCTTACCGTTT
*
21068599 CTGTTTCAGCTCTAT-GGAGCTTACCGTTT
1 CTGTTTAAGCTCT-TCGGAGCTTACCGTTT
21068628 AGCTCTTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (29 bp):
CTGTTTAAGCTCTTCGGAGCTTACCGTTT
Found at i:21068631 original size:22 final size:22
Alignment explanation
Indices: 21068601--21068650 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 22
21068591 TACTGTTTCT
21068601 GTTTCAGCTCTAT-GGAGCTTACC
1 GTTT-AGCTCT-TCGGAGCTTACC
21068624 GTTTAGCTCTTCGGAGCTTACC
1 GTTTAGCTCTTCGGAGCTTACC
21068646 GTTTA
1 GTTTA
21068651 TCAGCTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.81
23 4 0.15
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (22 bp):
GTTTAGCTCTTCGGAGCTTACC
Found at i:21071866 original size:23 final size:23
Alignment explanation
Indices: 21071836--21071922 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
21071826 GCTTTACTGA
* *
21071836 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
21071859 TCAGGCACCTCATGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
21071880 TCAAGCACCTCGTGTGTC--ATT
1 TCAGGCACCTCATGTGTCGTATT
* * *
21071901 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
21071923 ACTGATCAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 1 0.02
21 29 0.57
23 21 0.41
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:21072444 original size:23 final size:23
Alignment explanation
Indices: 21072414--21072458 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21072404 GCTTTACTGA
* *
21072414 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
21072437 TCAGGCACCTCATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
21072459 CAATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:21080492 original size:36 final size:37
Alignment explanation
Indices: 21080433--21080506 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
21080423 GATAGTTTCT
*
21080433 GCATTGCATTTTACTCACTTTTTAATACTTTTATCTA
1 GCATTGCATTTTACTCACATTTTAATACTTTTATCTA
* * **
21080470 GCATTGCA-TTTACTCGCATTTTAGTGGTTTTATCTA
1 GCATTGCATTTTACTCACATTTTAATACTTTTATCTA
21080506 G
1 G
21080507 TTTGTAGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.49
Consensus pattern (37 bp):
GCATTGCATTTTACTCACATTTTAATACTTTTATCTA
Found at i:21095656 original size:5 final size:6
Alignment explanation
Indices: 21095626--21095653 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21095616 TCCTCTTATC
21095626 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
21095654 ATTCTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:21105710 original size:24 final size:24
Alignment explanation
Indices: 21105653--21105711 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
21105643 GGTTTAATGC
* *
21105653 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
21105677 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
21105701 AAATGGATATA
1 AAATGGATATA
21105712 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:21105806 original size:37 final size:37
Alignment explanation
Indices: 21105752--21105864 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
21105742 TTATGTTTTA
*
21105752 ATTC-AAGACTTGTGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
21105788 ATTCAAAGACCTT-TGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGA-CTTATGTAATATTTTTAATTATGTAGTG
* *
21105825 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
21105862 ATT
1 ATT
21105865 TAATTCAGGT
Statistics
Matches: 72, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
36 6 0.08
37 63 0.88
38 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:21105879 original size:9 final size:9
Alignment explanation
Indices: 21105865--21106001 Score: 175
Period size: 9 Copynumber: 14.6 Consensus size: 9
21105855 TGTAGTGATT
*
21105865 TAATTCAGG
1 TAATTCGGG
21105874 TAATTCGGG
1 TAATTCGGG
21105883 TAATTTTCGGG
1 TAA--TTCGGG
21105894 TAATTTTCGGG
1 TAA--TTCGGG
21105905 TAATTCGGG
1 TAATTCGGG
*
21105914 TAATTTGGG
1 TAATTCGGG
21105923 TAATTTTCGGG
1 TAA--TTCGGG
*
21105934 TAATTCGAG
1 TAATTCGGG
21105943 TAATTCGGG
1 TAATTCGGG
21105952 TAATTCGGG
1 TAATTCGGG
21105961 TAATTCGGG
1 TAATTCGGG
* *
21105970 TAAGTCGGA
1 TAATTCGGG
21105979 TAATTCGGG
1 TAATTCGGG
21105988 TAATTCGGG
1 TAATTCGGG
21105997 TAATT
1 TAATT
21106002 TTTAACCAAA
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
9 87 0.76
11 28 0.24
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.37
Consensus pattern (9 bp):
TAATTCGGG
Found at i:21118624 original size:13 final size:13
Alignment explanation
Indices: 21118602--21118632 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21118592 GACTCTTTGA
*
21118602 TATTTTATTTATT
1 TATTTCATTTATT
21118615 TATTTCATTTATT
1 TATTTCATTTATT
21118628 TATTT
1 TATTT
21118633 TAAACTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:21118985 original size:52 final size:49
Alignment explanation
Indices: 21118929--21119026 Score: 115
Period size: 52 Copynumber: 1.9 Consensus size: 49
21118919 TTTTTAATTT
* * *
21118929 GCTTTGTGTAATATAGATTTTAAAATTCTTTTACATTATTTATTTTAAACTC
1 GCTTTATGTAATATACATTTTAAAA-TCTTTT--ATTATTTACTTTAAACTC
* * *
21118981 GCTTTATGTATTATTCATTTTAAAATGTTTTATTATTTACTTTAAA
1 GCTTTATGTAATATACATTTTAAAATCTTTTATTATTTACTTTAAA
21119027 TTTTTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 14 0.35
51 5 0.12
52 21 0.52
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (49 bp):
GCTTTATGTAATATACATTTTAAAATCTTTTATTATTTACTTTAAACTC
Found at i:21119017 original size:22 final size:22
Alignment explanation
Indices: 21118989--21119040 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
21118979 TCGCTTTATG
*
21118989 TATTATTCATTTTAAAATGTTT
1 TATTATTCACTTTAAAATGTTT
* * *
21119011 TATTATTTACTTTAAATTTTTT
1 TATTATTCACTTTAAAATGTTT
21119033 TATATATT
1 TAT-TATT
21119041 TTGAATTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTCACTTTAAAATGTTT
Found at i:21127669 original size:24 final size:24
Alignment explanation
Indices: 21127637--21127684 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21127627 AAACTGATTT
** *
21127637 TTTTTCTTTCTCTCTTTCTCTCTG
1 TTTTTCTTTAGCTCTCTCTCTCTG
21127661 TTTTTCTTTAGCTCTCTCTCTCTG
1 TTTTTCTTTAGCTCTCTCTCTCTG
21127685 CCGAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.29, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTTTCTTTAGCTCTCTCTCTCTG
Found at i:21131438 original size:11 final size:11
Alignment explanation
Indices: 21131422--21131456 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
21131412 CTTTTAATTA
21131422 TTAAATATTTT
1 TTAAATATTTT
21131433 TTAAATATTATT
1 TTAAATATT-TT
21131445 TT-AATATTTT
1 TTAAATATTTT
21131455 TT
1 TT
21131457 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTAAATATTTT
Found at i:21137616 original size:27 final size:27
Alignment explanation
Indices: 21137576--21137688 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
21137566 AGGAAGTGTC
*
21137576 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
21137603 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
21137630 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
* * * *
21137658 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
21137684 CTGGT
1 CTGGT
21137689 AGCNNNNNNN
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.08
27 52 0.71
28 15 0.21
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:21137680 original size:54 final size:54
Alignment explanation
Indices: 21137576--21137688 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
21137566 AGGAAGTGTC
*
21137576 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
21137630 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCT-GATCTGGTGACTCTGCCACATATATCTGTT
21137684 CTGGT
1 CTGGT
21137689 AGCNNNNNNN
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:21138576 original size:13 final size:13
Alignment explanation
Indices: 21138558--21138615 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
21138548 TAAACCAAAC
*
21138558 TTCAAAAGTACTT
1 TTCAAAAGCACTT
21138571 TTCAAAAGCACTT
1 TTCAAAAGCACTT
* *
21138584 TTCCACAGCACTT
1 TTCAAAAGCACTT
*
21138597 TTCAAAAGTACTT
1 TTCAAAAGCACTT
21138610 TTCAAA
1 TTCAAA
21138616 GGTATTGCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (13 bp):
TTCAAAAGCACTT
Found at i:21140078 original size:22 final size:22
Alignment explanation
Indices: 21140052--21140118 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
21140042 TGCACTATTG
21140052 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
21140074 TACAGAGAGCACGAATGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
21140096 AACGGAGAGTACTAAGGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
21140118 A
1 A
21140119 TAATCGGAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:21141704 original size:9 final size:9
Alignment explanation
Indices: 21141690--21141739 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
21141680 ATTATTTTAA
21141690 AATATTTTT
1 AATATTTTT
21141699 AATATTTTT
1 AATATTTTT
21141708 AATTATTTTT
1 AA-TATTTTT
* *
21141718 AAGATTTTAG
1 AATATTTT-T
21141728 AATTATTTTT
1 AA-TATTTTT
21141738 AA
1 AA
21141740 GAAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 16 0.47
10 13 0.38
11 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
AATATTTTT
Done.