Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 150 of 433
Found at i:46585470 original size:141 final size:139
Alignment explanation
Indices: 46585216--46585474 Score: 308
Period size: 141 Copynumber: 1.8 Consensus size: 139
46585206 GTGCCGATGC
* * *
46585216 CATGTCCCAGACACGGTCTTACACTAGCTCATATTTCATGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACACGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACATGGTC
* * * * *
46585281 TTACACTGACTATCATCTCGTAGCCAATGCTTGTCCTAGACATGTCTTACACTGGCTTACGTGTC
66 TTACACTGACTATAATATCGTAG-C-ATGCATGTCCCAGACACGTCTTACACTGGCTTACGTGTC
46585346 AAAGGCCGAAG
129 AAAGGCCGAAG
* * *
46585357 CATGTCCTAGACA-TGTCTTACACTAGCAC-TCATCTCGATGCCGATGCCATGTCCTAGACATGG
1 CATGTCCCAGACACGGTCTTACACTAGCACAT-ATCTC-ATGCCGATGCCATGTCCCAGACATGG
* * *
46585420 TCTTACACTAGCTCTCATAATATGGTTG-ATGCATGTCCCAGACACGTCTTACACT
64 TCTTACACT-G-ACT-ATAATATCGTAGCATGCATGTCCCAGACACGTCTTACACT
46585475 AGCCCACAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
139 1 0.01
140 18 0.18
141 69 0.70
142 1 0.01
143 2 0.02
144 8 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (139 bp):
CATGTCCCAGACACGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACTATAATATCGTAGCATGCATGTCCCAGACACGTCTTACACTGGCTTACGTGTCAA
AGGCCGAAG
Found at i:46600947 original size:49 final size:49
Alignment explanation
Indices: 46600798--46601014 Score: 164
Period size: 49 Copynumber: 4.6 Consensus size: 49
46600788 ATAAGATGCC
* * ** * *
46600798 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATCAAAG-T
1 GATGCCATGTCCCAGACA-GGTCTTACATTGACTCTCATATATCGAAGCT
* *
46600845 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAAGCT
1 -GATGCCATGTCCCAGACAGGTCTTACATTGACTCTCATATATCGAAGCT
* * * ** *
46600895 GATG-CAGTGTCCCAGACAGGTCTTACATTGGCTCTCATCTATTGGTGTT
1 GATGCCA-TGTCCCAGACAGGTCTTACATTGACTCTCATATATCGAAGCT
* * * *
46600944 GATGCCATGTCGCAGATAGGTCTTACATTGA--CACACA-AT--AAGCT
1 GATGCCATGTCCCAGACAGGTCTTACATTGACTCTCATATATCGAAGCT
**
46600988 GACACCATGTCCCAGACAGGTCTTACA
1 GATGCCATGTCCCAGACAGGTCTTACA
46601015 CTAGCTTGTA
Statistics
Matches: 138, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
44 25 0.18
46 2 0.01
47 18 0.13
48 20 0.14
49 70 0.51
50 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACATTGACTCTCATATATCGAAGCT
Found at i:46601053 original size:48 final size:48
Alignment explanation
Indices: 46600993--46601161 Score: 182
Period size: 48 Copynumber: 3.6 Consensus size: 48
46600983 AAGCTGACAC
* * *
46600993 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCAATG
* * * *
46601041 CATGTCCTAGACATGTCTTTCACTAGCTTGCATCTCTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCAATG
* * * * * *
46601089 TATGTCCCAGACATGTCTTACACTGGCTCT-CGTA-AT-GTGGACAATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGCATATCTCGAGGCCAATG
*
46601135 CATGTCCCAGACATGTCTTACAATAGC
1 CATGTCCCAGACATGTCTTACACTAGC
46601162 ACACATATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 32 0.32
47 1 0.01
48 67 0.66
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCAATG
Found at i:46613028 original size:20 final size:20
Alignment explanation
Indices: 46613003--46613064 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
46612993 ATTATGTCAT
46613003 ATTTTTATGTTTGAGATGTG
1 ATTTTTATGTTTGAGATGTG
*
46613023 ATTTTTA---TT--GATAT-
1 ATTTTTATGTTTGAGATGTG
46613037 ATTTTTATGTTTGAGATGTG
1 ATTTTTATGTTTGAGATGTG
46613057 ATTTTTAT
1 ATTTTTAT
46613065 TGACTTGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 7 0.21
15 4 0.12
17 4 0.12
19 4 0.12
20 15 0.44
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.60
Consensus pattern (20 bp):
ATTTTTATGTTTGAGATGTG
Found at i:46613039 original size:34 final size:34
Alignment explanation
Indices: 46613001--46613067 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
46612991 TCATTATGTC
46613001 ATATTTTTATGTTTGAGATGTGATTTTTATTGAT
1 ATATTTTTATGTTTGAGATGTGATTTTTATTGAT
46613035 ATATTTTTATGTTTGAGATGTGATTTTTATTGA
1 ATATTTTTATGTTTGAGATGTGATTTTTATTGA
46613068 CTTGTTAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (34 bp):
ATATTTTTATGTTTGAGATGTGATTTTTATTGAT
Found at i:46613067 original size:17 final size:17
Alignment explanation
Indices: 46613013--46613067 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
46613003 ATTTTTATGT
46613013 TTGAGATGTGATTTTTA
1 TTGAGATGTGATTTTTA
*
46613030 TT--GATAT-ATTTTTA
1 TTGAGATGTGATTTTTA
46613044 TGTTTGAGATGTGATTTTTA
1 ---TTGAGATGTGATTTTTA
46613064 TTGA
1 TTGA
46613068 CTTGTTAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
17 8 0.27
19 4 0.13
20 7 0.23
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (17 bp):
TTGAGATGTGATTTTTA
Found at i:46616145 original size:24 final size:25
Alignment explanation
Indices: 46616092--46616138 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
46616082 CACATTATAT
46616092 TATTATAATTATAATTATAAAAAAG
1 TATTATAATTATAATTATAAAAAAG
46616117 TATTATAA-TATAATTATAAAAA
1 TATTATAATTATAATTATAAAAA
46616139 TATATTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TATTATAATTATAATTATAAAAAAG
Found at i:46619569 original size:2 final size:2
Alignment explanation
Indices: 46619564--46619590 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46619554 TGTGTGTAAG
46619564 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
46619591 GTTGAGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46621011 original size:56 final size:56
Alignment explanation
Indices: 46620950--46621110 Score: 198
Period size: 56 Copynumber: 2.9 Consensus size: 56
46620940 GGAAGTCTTA
* *
46620950 CAAGGACTATCTTTTGTGGAAAGTCTTCCAAGGACTATCTTATGTGGAAAGTCCAC
1 CAAGGACTATCTTATGTGGAAAGTCTTCCAAGGACTATCTTATGTGGAAAATCCAC
* * * * *
46621006 CAAGGACTATCTTATGTGGAAATTCCTCCAACGACTATCTTATATGGAAAATCCGC
1 CAAGGACTATCTTATGTGGAAAGTCTTCCAAGGACTATCTTATGTGGAAAATCCAC
* * * * *
46621062 CAATGAATATCTTAGGTGGAATGTCTACCAAGGACTA-CTTTATGTGGAA
1 CAAGGACTATCTTATGTGGAAAGTCTTCCAAGGACTATC-TTATGTGGAA
46621111 TTTTTCCAGG
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 1 0.01
56 87 0.99
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (56 bp):
CAAGGACTATCTTATGTGGAAAGTCTTCCAAGGACTATCTTATGTGGAAAATCCAC
Found at i:46621111 original size:28 final size:28
Alignment explanation
Indices: 46620942--46621110 Score: 173
Period size: 28 Copynumber: 6.0 Consensus size: 28
46620932 TAGAAAAGGG
*
46620942 AAGTCTTA-CAAGGACTATCTTTTGTGGA
1 AAGTC-TACCAAGGACTATCTTATGTGGA
*
46620970 AAGTCTTCCAAGGACTATCTTATGTGGA
1 AAGTCTACCAAGGACTATCTTATGTGGA
*
46620998 AAGTCCACCAAGGACTATCTTATGTGGA
1 AAGTCTACCAAGGACTATCTTATGTGGA
* * *
46621026 AATTCCT-CCAACGACTATCTTATATGGA
1 AAGT-CTACCAAGGACTATCTTATGTGGA
* ** * * *
46621054 AAATCCGCCAATGAATATCTTAGGTGGA
1 AAGTCTACCAAGGACTATCTTATGTGGA
*
46621082 ATGTCTACCAAGGACTA-CTTTATGTGGA
1 AAGTCTACCAAGGACTATC-TTATGTGGA
46621110 A
1 A
46621111 TTTTTCCAGG
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 3 0.03
28 112 0.97
29 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGTCTACCAAGGACTATCTTATGTGGA
Found at i:46625181 original size:49 final size:49
Alignment explanation
Indices: 46625124--46625430 Score: 496
Period size: 49 Copynumber: 6.3 Consensus size: 49
46625114 ATGTATGAGA
46625124 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
46625173 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
46625222 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
46625271 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
46625320 TATATAAATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTG-AAG-G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
46625367 TGTATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
46625414 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
46625431 TCCCGAAGGG
Statistics
Matches: 242, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 54 0.22
48 5 0.02
49 183 0.76
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:46641302 original size:44 final size:45
Alignment explanation
Indices: 46641231--46641346 Score: 144
Period size: 46 Copynumber: 2.6 Consensus size: 45
46641221 CCGATGCCAA
* * * * *
46641231 GTCCCGGACATGGTCTTACACTAGCTT-ATCTCGTAGCCGATTCAT
1 GTCCCAGACAT-GTCTTACACTGGCTTAATCTCGAAGCCAATGCAT
*
46641276 GTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCTAATGCAT
1 GTCCCAGACATGTCTTACACTGGCTTA-ATCTCGAAGCCAATGCAT
*
46641322 GTCCCAGACGTGTCTTACACTGGCT
1 GTCCCAGACATGTCTTACACTGGCT
46641347 CTCGTCTCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 14 0.23
45 10 0.16
46 38 0.61
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GTCCCAGACATGTCTTACACTGGCTTAATCTCGAAGCCAATGCAT
Found at i:46647370 original size:34 final size:34
Alignment explanation
Indices: 46647327--46647394 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
46647317 AGATATTTCA
*
46647327 GAGTTTGTATCAAAATTTTTAGTATGCCAACAAG
1 GAGTTTGTATCAAAATGTTTAGTATGCCAACAAG
*
46647361 GAGTTTGTATCAAAATGTTTAGTGTGCCAACAAG
1 GAGTTTGTATCAAAATGTTTAGTATGCCAACAAG
46647395 TAAAGGCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (34 bp):
GAGTTTGTATCAAAATGTTTAGTATGCCAACAAG
Found at i:46661323 original size:39 final size:39
Alignment explanation
Indices: 46661264--46661516 Score: 425
Period size: 39 Copynumber: 6.5 Consensus size: 39
46661254 TTTAAGCCCA
*
46661264 GATATAATTCCAGCTCATAGCCTGCGGACCTGAAGTCCG
1 GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
* *
46661303 GATAAAATTCCAGTACATAGCCTGCGGACCTGAAGTCCG
1 GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
*
46661342 GATATAATTCCAGCACATAGCCTGCGGACCTAAAGTCCG
1 GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
*
46661381 GATAAAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
1 GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
* *
46661420 GATATAATTCCAGCACATAGCTTGCAGACCTGAAGTCCG
1 GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
*
46661459 GATAAAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
1 GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
*
46661498 GATATAATTTCAGCACATA
1 GATATAATTCCAGCACATA
46661517 CAATTATGAT
Statistics
Matches: 198, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 198 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (39 bp):
GATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCCG
Found at i:46667420 original size:6 final size:6
Alignment explanation
Indices: 46667409--46667436 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
46667399 CTCTTGTTTG
46667409 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
46667437 CTTTGATTTT
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):
TTTTAT
Found at i:46669851 original size:42 final size:42
Alignment explanation
Indices: 46669732--46669851 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 42
46669722 CCGTACCAAC
* *
46669732 GCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGAT
1 GCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGAT
* * *
46669774 GCAAATAGCCCAGTTATGGTCTTACACG-AAGTCTCATATCGAT
1 GC-CATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGAT
*
46669817 GCCATATCCCAGATATGGTCTTGCACGTAATCTCA
1 GCCATATCCCAGATATGGTCTTACACGTAATCTCA
46669852 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGAT
Found at i:46671185 original size:21 final size:21
Alignment explanation
Indices: 46671161--46671228 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
46671151 TTAGAGATCC
* *
46671161 CACATGGGCATGTGTTTTGGA
1 CACACGGGCATGTATTTTGGA
* * ** *
46671182 CACACGGTCATGTCTGATGGG
1 CACACGGGCATGTATTTTGGA
*
46671203 CACACGGGCGTGTATTTTGGA
1 CACACGGGCATGTATTTTGGA
46671224 CACAC
1 CACAC
46671229 AGTCGTGTCT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (21 bp):
CACACGGGCATGTATTTTGGA
Found at i:46671235 original size:21 final size:21
Alignment explanation
Indices: 46671175--46671236 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
46671165 TGGGCATGTG
* *
46671175 TTTTGGACACACGGTCATGTC
1 TTTTGGACACACGGTCGTGTA
** * *
46671196 TGATGGGCACACGGGCGTGTA
1 TTTTGGACACACGGTCGTGTA
*
46671217 TTTTGGACACACAGTCGTGT
1 TTTTGGACACACGGTCGTGT
46671237 CTGGTGGGTA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (21 bp):
TTTTGGACACACGGTCGTGTA
Found at i:46671238 original size:42 final size:42
Alignment explanation
Indices: 46671161--46671257 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
46671151 TTAGAGATCC
* * *
46671161 CACATGGGCATGTGTTTTGGACACACGGTCATGTCTGATGGG
1 CACACGGGCATGTATTTTGGACACACAGTCATGTCTGATGGG
* * *
46671203 CACACGGGCGTGTATTTTGGACACACAGTCGTGTCTGGTGGG
1 CACACGGGCATGTATTTTGGACACACAGTCATGTCTGATGGG
*
46671245 TACACGGGCATGT
1 CACACGGGCATGT
46671258 GAGACCCTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.27
Consensus pattern (42 bp):
CACACGGGCATGTATTTTGGACACACAGTCATGTCTGATGGG
Found at i:46672878 original size:3 final size:3
Alignment explanation
Indices: 46672863--46672906 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
46672853 ATTATAGTAC
* * * *
46672863 AAT AAT GAT AAT AAT AAT ATT AAT AGT AAT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46672907 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46673482 original size:3 final size:3
Alignment explanation
Indices: 46673307--46673469 Score: 109
Period size: 3 Copynumber: 53.0 Consensus size: 3
46673297 GTAAAATAAG
* * *
46673307 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA AT- ATA TTG ATA ATA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
46673355 AAA ATA A-A AGGA ATA AAA ATA ATA GTA ATA ATA AGA ATA TTTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* *
46673401 ATA GTA ATA ATA ACA ATA AT- ATAA ATA ATA ATA TATA CATGGA A-A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT--A ATA
* *
46673446 ATA ATA ATA AGA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
46673470 CCAAAAATAA
Statistics
Matches: 123, Mismatches: 26, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
2 8 0.07
3 99 0.80
4 14 0.11
5 1 0.01
6 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:46674954 original size:88 final size:88
Alignment explanation
Indices: 46674816--46675551 Score: 693
Period size: 88 Copynumber: 8.6 Consensus size: 88
46674806 CTGCAACTTC
* * * * ***
46674816 AGGGAGATAAAATCTG-AATTTCCAACCTGTTACCCTACTGCTTAATAGGTTAAGGCCCTTCATC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
*
46674880 TCCGATCTGCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * *
46674903 AGGGAGACAAGATTTGTAATTTTCAACCTGTTACCCTACTGCTTAGGAGGTTAAGGCCCTTCATC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
46674968 TTCGATCTGCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * * *
46674991 A-GGAGGACAAGATCTGAAATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCCCTTCGT
1 AGGGA-GACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCAT
* *
46675055 CTTCGATCTGCTCTACTTCTGCTT
65 CTTCGATCTGCTCCACTACTGCTT
* * * ** *
46675079 AGGGAGACAAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCTCACCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
*
46675144 TTCGATCTACTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * * * *
46675167 AGGGAGAAAAGATCTGTAATTTT-AGCCTAG-TACCCTACTACTTAGGGGGTCAAGGCTC-TCTG
1 AGGGAGACAAGATCTGTAATTTTCAGCCT-GTTACCCTACTGCTTAGGGGGTTAAGGCCCTTC-A
* * **
46675229 TCCTCGATCTACTCTGCTACTGCTT
64 TCTTCGATCTGCTCCACTACTGCTT
* * * * *
46675254 AGAGAGAAAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGAGGTTTAAGG-CC--CAT-
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
*
46675315 AT-G-T-T--TCC-CTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * * * * * * *
46675332 AGGGTGATAAGATTTGTAA-ATTCATCCTGTTACTCTACTGCTTAGGGGTTTGAGG-CC--CATC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
46675393 -T-G-T-T--TCC-CTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * * * * * *
46675409 AGGGTGATAAGATCTGTAA-ATTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCATCACC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
* *
46675473 TTCGATCTGTTTCC-CTACTGTTT
66 TTCGATCTG-CTCCACTACTGCTT
* ** *
46675496 AGGGGGTTAAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
46675552 TTCTGAATTT
Statistics
Matches: 568, Mismatches: 63, Indels: 36
0.85 0.09 0.05
Matches are distributed among these distances:
77 101 0.18
78 26 0.05
79 2 0.00
80 3 0.01
81 2 0.00
82 2 0.00
83 2 0.00
84 2 0.00
85 1 0.00
86 2 0.00
87 157 0.28
88 265 0.47
89 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (88 bp):
AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATC
TTCGATCTGCTCCACTACTGCTT
Found at i:46674986 original size:44 final size:44
Alignment explanation
Indices: 46674850--46674996 Score: 129
Period size: 44 Copynumber: 3.3 Consensus size: 44
46674840 ACCTGTTACC
** *
46674850 CTACTGCTTAATAGGTTAAGGCCCTTCATCTCCGATCTGCTCCA
1 CTACTGCTTAGGAGGTTAAGGCCCTTCATCTTCGATCTGCTCCA
** *** * * * * *
46674894 CTACTGCTTAGG-GAGACAA-GATTTGTAATTTTCAACCTGTTACC-
1 CTACTGCTTAGGAG-GTTAAGGCCCT-TCATCTTCGATCTGCT-CCA
46674938 CTACTGCTTAGGAGGTTAAGGCCCTTCATCTTCGATCTGCTCCA
1 CTACTGCTTAGGAGGTTAAGGCCCTTCATCTTCGATCTGCTCCA
46674982 CTACTGCTTAGGAGG
1 CTACTGCTTAGGAGG
46674997 ACAAGATCTG
Statistics
Matches: 74, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 5 0.07
44 64 0.86
45 5 0.07
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGAGGTTAAGGCCCTTCATCTTCGATCTGCTCCA
Found at i:46675121 original size:44 final size:44
Alignment explanation
Indices: 46674894--46675126 Score: 112
Period size: 44 Copynumber: 5.3 Consensus size: 44
46674884 ATCTGCTCCA
* * *
46674894 CTACTGCTTAGGGAGACAAGATTTGTAATTTTCAACCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAAATTTCAGCCTGTTACC
** ** * * *
46674938 CTACTGCTTA-GGAGGTTAAGGCCCT-T-CATCTTC-GATCTGCT-CC
1 CTACTGCTTAGGGA-GACAA-GATCTGTAAAT-TTCAG-CCTGTTACC
46674981 ACTACTGCTTA-GGAGGACAAGATCTG-AAATTTCCAGCCTGTTACC
1 -CTACTGCTTAGGGA-GACAAGATCTGTAAATTT-CAGCCTGTTACC
* * ** ** *
46675026 CTACTGCTTAGGGGGTCAAGGCCCT-T-CGTCTTC-GATCTGCTCTA--
1 CTACTGCTTAGGGAGACAA-GATCTGTAAAT-TTCAG-CCTG-T-TACC
*
46675070 CTTCTGCTTAGGGAGACAAGATCTGTAAATTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAAATTTCAGCCTGTTACC
46675114 CTACTGCTTAGGG
1 CTACTGCTTAGGG
46675127 GGTCAAGGCT
Statistics
Matches: 134, Mismatches: 33, Indels: 44
0.64 0.16 0.21
Matches are distributed among these distances:
42 2 0.01
43 16 0.12
44 99 0.74
45 15 0.11
46 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGAGACAAGATCTGTAAATTTCAGCCTGTTACC
Found at i:46675382 original size:77 final size:77
Alignment explanation
Indices: 46675245--46675551 Score: 380
Period size: 77 Copynumber: 3.8 Consensus size: 77
46675235 ATCTACTCTG
* * * * *
46675245 CTACTGCTTAGAGAGAAAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGAGGTTTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
46675310 CCCATATGTTTCC
65 CCCATATGTTTCC
* * * *
46675323 CTACTGCTTAGGGTGATAAGATTTGTAAATTCATCCTGTTACTCTACTGCTTAGGGGTTTGAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
*
46675388 CCATCTGTTTCC
66 CCATATGTTTCC
*
46675400 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-
46675465 CCATCACCTTCGATCTGTTTCC
65 CC--CA---T--A--TGTTTCC
* * * *
46675487 CTACTGTTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
46675552 TTCTGAATTT
Statistics
Matches: 198, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
77 100 0.51
78 28 0.14
80 2 0.01
83 1 0.01
86 1 0.01
87 66 0.33
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (77 bp):
CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
CCATATGTTTCC
Found at i:46675454 original size:43 final size:42
Alignment explanation
Indices: 46675392--46675549 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 42
46675382 TGAGGCCCAT
* *
46675392 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATTCAGC
* ** ** ** *
46675435 CTGTTACCCTACTGTTTAGGGGTTTAAGGCCCATCACCTTC-GAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGT-AAATTCAG-C
* *
46675479 CTGTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTCAGC
46675522 CTGTTACCCTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTA-GGGGTTAAG
46675550 GCTTCTGAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.01
43 56 0.62
44 29 0.32
45 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAGC
Found at i:46675541 original size:87 final size:87
Alignment explanation
Indices: 46675390--46675551 Score: 279
Period size: 87 Copynumber: 1.9 Consensus size: 87
46675380 TTTGAGGCCC
* *
46675390 ATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGTTTAGG
1 ATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
*
46675455 GGTTTAAGGCCCATCACCTTCG
66 GGGTTAAGGCCCATCACCTTCG
* *
46675477 ATCTGTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
1 ATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
46675542 GGGTTAAGGC
66 GGGTTAAGGC
46675552 TTCTGAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (87 bp):
ATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCCCATCACCTTCG
Found at i:46684014 original size:22 final size:22
Alignment explanation
Indices: 46683970--46684014 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46683960 TGCAGCGCTA
* *
46683970 TTTTAAGTTCTTCTATCTTCTC
1 TTTTAAGTTCTTCAATCTACTC
46683992 TTTTAA-TTCTTCAATTCTACTC
1 TTTTAAGTTCTTCAA-TCTACTC
46684014 T
1 T
46684015 GACTAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.18, C:0.22, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAGTTCTTCAATCTACTC
Found at i:46686902 original size:46 final size:48
Alignment explanation
Indices: 46686780--46686906 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 48
46686770 TGTAACCCGC
46686780 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* *
46686830 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
*
46686873 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
46686907 AGATGCTCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 26 0.38
47 30 0.43
48 2 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:46686928 original size:46 final size:44
Alignment explanation
Indices: 46686788--46686928 Score: 117
Period size: 46 Copynumber: 3.0 Consensus size: 44
46686778 GCCCATAAGC
* *
46686788 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCC-A---ACCATCT-AGT
* * * *
46686835 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC--AGATGC-CAACCATCTAGT
46686881 GAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGC-CAACCAT-CTAGT
46686927 GA
1 GA
46686929 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
44 10 0.13
45 1 0.01
46 31 0.41
47 29 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGCCAACCATCTAGT
Found at i:46692303 original size:10 final size:10
Alignment explanation
Indices: 46692278--46692306 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
46692268 TATTTCTCTT
46692278 TTTCTATTCA
1 TTTCTATTCA
46692288 -TTCTATTCA
1 TTTCTATTCA
46692297 TTTCTATTCA
1 TTTCTATTCA
46692307 AACACGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:46694577 original size:2 final size:2
Alignment explanation
Indices: 46694570--46694598 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46694560 TATTTACAAA
46694570 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46694599 AGATATGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46701204 original size:12 final size:12
Alignment explanation
Indices: 46701187--46701216 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46701177 GAGGATGAAA
46701187 ATGAAGGAGAAG
1 ATGAAGGAGAAG
*
46701199 ATGAAGGAGAGG
1 ATGAAGGAGAAG
46701211 ATGAAG
1 ATGAAG
46701217 AGCTCGCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.10
Consensus pattern (12 bp):
ATGAAGGAGAAG
Found at i:46703361 original size:131 final size:131
Alignment explanation
Indices: 46703127--46703422 Score: 358
Period size: 131 Copynumber: 2.3 Consensus size: 131
46703117 ACTCATTGGA
** * * * * *
46703127 AAATTAGCTAAAACAAATGAGATTGCTCATGATATTATATCGAATGAACTTATGTTGCAATCTTA
1 AAATTAGCTAACTCAAATAAGATTGTTCATGATATTAAATCGAATGAACTTAGGTTACAATCTTA
* * *** **
46703192 AATTAGCCAACATTAACAATATCAGCTGTGATATTAAATCAACGGGCTATTTGGAGTAACGATAT
66 AATCAGACAACATTAACAATATCAGCTACAATATTAAATCAACAAGCTATTTGGAGTAACGATAT
46703257 T
131 T
*
46703258 AAATTAGCTAACTCAAATAAGATTGTTCATGATATTAAATCGAATGAACTTAGGTTACGATCTTA
1 AAATTAGCTAACTCAAATAAGATTGTTCATGATATTAAATCGAATGAACTTAGGTTACAATCTTA
* * * * * * **
46703323 AATCAGAGAACCTTTACAATATTAGCTACAATATTAAATCAGCAAGCTGTTTGGAGTAGTGATAT
66 AATCAGACAACATTAACAATATCAGCTACAATATTAAATCAACAAGCTATTTGGAGTAACGATAT
46703388 T
131 T
* * *
46703389 AAATAAGCTAACTCAGATAAGACTGTTCATGATA
1 AAATTAGCTAACTCAAATAAGATTGTTCATGATA
46703423 AATAAAGTAA
Statistics
Matches: 139, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
131 139 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (131 bp):
AAATTAGCTAACTCAAATAAGATTGTTCATGATATTAAATCGAATGAACTTAGGTTACAATCTTA
AATCAGACAACATTAACAATATCAGCTACAATATTAAATCAACAAGCTATTTGGAGTAACGATAT
T
Found at i:46707011 original size:36 final size:36
Alignment explanation
Indices: 46706964--46707036 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
46706954 TTATGGAGTG
46706964 TTAATAAGATAGTATTAAAGTTTTGTTAGGAAATTT
1 TTAATAAGATAGTATTAAAGTTTTGTTAGGAAATTT
46707000 TTAATAAGATAGTATTAAAGTTTTGTTAGGAAATTT
1 TTAATAAGATAGTATTAAAGTTTTGTTAGGAAATTT
46707036 T
1 T
46707037 AACATTTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.45
Consensus pattern (36 bp):
TTAATAAGATAGTATTAAAGTTTTGTTAGGAAATTT
Found at i:46708649 original size:18 final size:20
Alignment explanation
Indices: 46708615--46708651 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
46708605 AGATTGACAT
46708615 ATCTACATTCAGAGGATCAG
1 ATCTACATTCAGAGGATCAG
46708635 ATCTACA-TC-GAGGATCA
1 ATCTACATTCAGAGGATCA
46708652 CACTATCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCTACATTCAGAGGATCAG
Found at i:46710916 original size:5 final size:5
Alignment explanation
Indices: 46710908--46710932 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46710898 TAAAAAAAAA
46710908 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
46710933 GGTTGGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:46713761 original size:41 final size:40
Alignment explanation
Indices: 46713600--46713805 Score: 199
Period size: 40 Copynumber: 5.2 Consensus size: 40
46713590 CGGAATACAA
* *
46713600 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
46713640 CCGG--ATAA-CGACTTGCACAAATGCCTTC-GGTATTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
46713677 CCGGATTTAA-CAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46713717 CCGGAGTGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGA-TATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46713758 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46713798 CCGGATAT
1 CCGGATAT
46713806 CATTCAATTG
Statistics
Matches: 138, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
37 13 0.09
38 19 0.14
39 21 0.15
40 52 0.38
41 32 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46713798 original size:81 final size:80
Alignment explanation
Indices: 46713600--46713802 Score: 200
Period size: 81 Copynumber: 2.6 Consensus size: 80
46713590 CGGAATACAA
* * * * *
46713600 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGA---TA-ACGACTTGCACAA
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGACTTAGCCCGGAGTGTAGTC-ACTAGCACAA
*
46713660 ATGCCTTCGGTATTAGC
64 ATGCCTTCGGTATTAAC
* * * * *
46713677 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAGTGTAGTCACTAGCACAATT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAGTGTAGTCACTAGCACAAAT
*
46713742 GCCTTCGGGTCTTAAC
66 GCCTTC-GGTATTAAC
** * *
46713758 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
46713803 TATCATTCAA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
77 41 0.39
80 18 0.17
81 45 0.43
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAGTGTAGTCACTAGCACAAAT
GCCTTCGGTATTAAC
Found at i:46721607 original size:40 final size:39
Alignment explanation
Indices: 46721562--46721769 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
46721552 CGGAATACAA
*
46721562 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
** *
46721602 CCGGATATAACGTCTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
46721642 TCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
46721682 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
46721722 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
46721762 CCGGATAT
1 CCGGATAT
46721770 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46721702 original size:80 final size:80
Alignment explanation
Indices: 46721562--46721769 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
46721552 CGGAATACAA
* * *
46721562 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGTCTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGTCTAGCACAAATG
*
46721627 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
46721642 TCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGT-A-GTCACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGT--CTAGCACAAA
*
46721705 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
** * ** * *
46721722 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
46721770 CATTCAATTG
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 2 0.02
79 1 0.01
80 104 0.97
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGTCTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:46727328 original size:21 final size:19
Alignment explanation
Indices: 46727299--46727339 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
46727289 ACTCCCTTGA
46727299 CCCCAAAACATTTTTATTTCT
1 CCCCAAAAC--TTTTATTTCT
*
46727320 CCCCTAAACTTTTATTTCT
1 CCCCAAAACTTTTATTTCT
46727339 C
1 C
46727340 ACCTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (19 bp):
CCCCAAAACTTTTATTTCT
Found at i:46736943 original size:10 final size:10
Alignment explanation
Indices: 46736927--46736982 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
46736917 TAAACACCTA
46736927 AAAAATAAAT
1 AAAAATAAAT
*
46736937 CAAAATAAAT
1 AAAAATAAAT
*
46736947 AAAGAATAAAG
1 AAA-AATAAAT
*
46736958 AATTGAATAAAT
1 AA--AAATAAAT
46736970 AAAAATAAAT
1 AAAAATAAAT
46736980 AAA
1 AAA
46736983 CCAAATTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 21 0.57
11 8 0.22
12 8 0.22
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:46741038 original size:26 final size:26
Alignment explanation
Indices: 46741002--46741053 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46740992 TTCTTTTTGG
46741002 AATGAGTGAACCTCTTATTAATAAAT
1 AATGAGTGAACCTCTTATTAATAAAT
46741028 AATGAGTGAACCTCTTATTAATAAAT
1 AATGAGTGAACCTCTTATTAATAAAT
46741054 CCAAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (26 bp):
AATGAGTGAACCTCTTATTAATAAAT
Found at i:46743527 original size:194 final size:194
Alignment explanation
Indices: 46743186--46743571 Score: 567
Period size: 194 Copynumber: 2.0 Consensus size: 194
46743176 CACTCCCATT
* * *
46743186 AAAATTACAAACGACAAGTTGATGTGGTAATTAAAAAATAGGTATAATAACAAATTTAGCCCGCC
1 AAAAATACAAACGACAAGATGATGTGGCAATTAAAAAATAGGTATAATAACAAATTTAGCCCGCC
* * * *
46743251 AATATTTACATATTATATCAATTTAGTTATAATTTTAAAAAATTAACCCTTATAATTTACAAATA
66 AATATTTAAATATCATATCAATTTAGTCATAATTTTAAAAAATTAACCCTCATAATTTACAAATA
* * *
46743316 TTCTCAATTTGATCCTAATTCTAAAAAATTCAGAGAAATATATAAAAATACATAAATATTTTCA
131 TTCTCAATTTAATCCTAATTCTAAAAAATTCAAAGAAATATATAAAAACACATAAATATTTTCA
* * * * *
46743380 AAAAATACAAACGTCAAGATGATGTGGCAGTTAAAAATATATGTATAATAATAAATTTAGCCC-T
1 AAAAATACAAACGACAAGATGATGTGGCAATTAAAAA-ATAGGTATAATAACAAATTTAGCCCGC
* *
46743444 CAATTTTTAAATATCATATCGATTTAGTCATAATTTTAAAAAATTAACCCTCATAATTTACAAAT
65 CAATATTTAAATATCATATCAATTTAGTCATAATTTTAAAAAATTAACCCTCATAATTTACAAAT
* * * *
46743509 GTTCTCAATTTAATCCTAATTTTAAAAAGTTCAAAGAAATATATAAAAACACATACATATTTT
130 ATTCTCAATTTAATCCTAATTCTAAAAAATTCAAAGAAATATATAAAAACACATAAATATTTT
46743572 TTTAAAAATT
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
194 147 0.86
195 23 0.14
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (194 bp):
AAAAATACAAACGACAAGATGATGTGGCAATTAAAAAATAGGTATAATAACAAATTTAGCCCGCC
AATATTTAAATATCATATCAATTTAGTCATAATTTTAAAAAATTAACCCTCATAATTTACAAATA
TTCTCAATTTAATCCTAATTCTAAAAAATTCAAAGAAATATATAAAAACACATAAATATTTTCA
Found at i:46743652 original size:10 final size:10
Alignment explanation
Indices: 46743634--46743704 Score: 51
Period size: 10 Copynumber: 7.4 Consensus size: 10
46743624 TATTGTTCAC
* *
46743634 AATAAATAAT
1 AATATATAAA
46743644 AATATAT-AA
1 AATATATAAA
46743653 AAT-T-TAAA
1 AATATATAAA
46743661 AATATATAAA
1 AATATATAAA
*
46743671 AATAAATAAA
1 AATATATAAA
* *
46743681 TAT-TTTAAAA
1 AATATAT-AAA
*
46743691 AATATATAAT
1 AATATATAAA
46743701 AATA
1 AATA
46743705 AAATTTTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
7 1 0.02
8 6 0.13
9 6 0.13
10 32 0.68
11 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AATATATAAA
Found at i:46743664 original size:27 final size:25
Alignment explanation
Indices: 46743634--46743710 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 25
46743624 TATTGTTCAC
46743634 AATAAATAATAATATATAAAATTTAAA
1 AATAAATAATAATA-ATAAAATTT-AA
* * *
46743661 AATATATAAAAATAAATAAATATTTTA
1 AATAAATAATAAT-AATAAA-ATTTAA
46743688 AA-AAATATATAATAATAAAATTT
1 AATAAATA-ATAATAATAAAATTT
46743711 TTATTAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
25 4 0.10
26 10 0.24
27 23 0.55
28 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAAATAATAATAATAAAATTTAA
Found at i:46753547 original size:91 final size:93
Alignment explanation
Indices: 46753382--46753551 Score: 254
Period size: 91 Copynumber: 1.8 Consensus size: 93
46753372 ATATGCAAAC
* * * *
46753382 TAGTGTAAGACCTGTTTGGGGCATGGCATCAGCCTCATGATATGCAAGCTAGTGTAAGACTTGTC
1 TAGTGTAAGACCTGTTTGGGACATGGCATCAGACACATGATAAGCAAGCTAGTGTAAGACTTGTC
*
46753447 TAGGGCATGGCATCGGCTTGAGGTGTGT
66 TAGGACATGGCATCGGCTTGAGGTGTGT
* **
46753475 TAGTGTAAGACCTGTTTGGGATATGGCATC-GACACA-GATAAGTGAGCTAGTGTAAGACTTGTC
1 TAGTGTAAGACCTGTTTGGGACATGGCATCAGACACATGATAAGCAAGCTAGTGTAAGACTTGTC
46753538 TAGGACATGGCATC
66 TAGGACATGGCATC
46753552 AACCTCGATG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
91 37 0.54
92 4 0.06
93 28 0.41
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (93 bp):
TAGTGTAAGACCTGTTTGGGACATGGCATCAGACACATGATAAGCAAGCTAGTGTAAGACTTGTC
TAGGACATGGCATCGGCTTGAGGTGTGT
Found at i:46753579 original size:49 final size:50
Alignment explanation
Indices: 46753333--46753598 Score: 236
Period size: 49 Copynumber: 5.6 Consensus size: 50
46753323 ATGTATGTGT
* * *
46753333 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCATGATATGCAA-AC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCATGATATGTAAGTC
* * *
46753382 TAGTGTAAGACCTGTTTGGGGCATGGCATCAGCCTCATGATATGCAAG-C
1 TAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCATGATATGTAAGTC
* * **
46753431 TAGTGTAAGACTTGTCTAGGG-CATGGCATC-GGCT--TGAGGTGT--GT-
1 TAGTGTAAGACCTGTCT-GGGACATGGCATCAGCCTCATGATATGTAAGTC
* * * * * *
46753475 TAGTGTAAGACCTGTTTGGGATATGGCATC-GACACA-GATAAGTGAG-C
1 TAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCATGATATGTAAGTC
* * *
46753522 TAGTGTAAGACTTGTCTAGGACATGGCATCAACCTCGATG-TATGTAAGTC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTC-ATGATATGTAAGTC
*
46753572 -AGTGTAAGACCTGTCGGGGACATGGCA
1 TAGTGTAAGACCTGTCTGGGACATGGCA
46753599 ATGACTTAAA
Statistics
Matches: 175, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.02
44 26 0.15
45 4 0.02
46 5 0.03
47 27 0.15
48 5 0.03
49 100 0.57
50 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (50 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCATGATATGTAAGTC
Found at i:46753598 original size:140 final size:142
Alignment explanation
Indices: 46753328--46753586 Score: 337
Period size: 140 Copynumber: 1.8 Consensus size: 142
46753318 GGGTGATGTA
* * *
46753328 TGTGTTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCATGATATGCAAACTAGTGTAAGAC
1 TGTGTTAGTGTAAGACCTGTCTGGGACATGGCATCGGACACATGATAAGCAAACTAGTGTAAGAC
* * * * *
46753393 CTGTTTGGGGCATGGCATCAGCCTCATGATATGCAAGCTAGTGTAAGACTTGTCTAGGGCATGGC
66 CTGTCTAGGACATGGCATCAACCTCATGATATGCAAGCTAGTGTAAGACCTGTCTAGGGCATGGC
46753458 ATCGGCTTGAGG
131 ATCGGCTTGAGG
* * ** *
46753470 TGTGTTAGTGTAAGACCTGTTTGGGATATGGCATC-GACACA-GATAAGTGAGCTAGTGTAAGAC
1 TGTGTTAGTGTAAGACCTGTCTGGGACATGGCATCGGACACATGATAAGCAAACTAGTGTAAGAC
* *
46753533 TTGTCTAGGACATGGCATCAACCTCGATG-TATGTAAG-TCAGTGTAAGACCTGTC
66 CTGTCTAGGACATGGCATCAACCTC-ATGATATGCAAGCT-AGTGTAAGACCTGTC
46753587 GGGGACATGG
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 1 0.01
140 59 0.59
141 7 0.07
142 33 0.33
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (142 bp):
TGTGTTAGTGTAAGACCTGTCTGGGACATGGCATCGGACACATGATAAGCAAACTAGTGTAAGAC
CTGTCTAGGACATGGCATCAACCTCATGATATGCAAGCTAGTGTAAGACCTGTCTAGGGCATGGC
ATCGGCTTGAGG
Found at i:46758420 original size:219 final size:220
Alignment explanation
Indices: 46758033--46758475 Score: 588
Period size: 219 Copynumber: 2.0 Consensus size: 220
46758023 CAATAGATTT
* * * * * *
46758033 TTTTATTCATGGGTAAACTCAGTCTTTCAGTGAGTAAGTCAACTAAGAATATCAAGACTATTAAT
1 TTTTATTCATGGGAAAACTCAATCTCTCAATAAGTAAGTCAACTAAGAAGATCAAGACTATTAAT
* * *
46758098 TCCAAAGACGTCCTAACAATGGGAGTAGCATAAGTAGTTGAGCTACAAATCAGTCAATGGAAAGG
66 TCCAAAGACGTCCTAACAATGCGAGTAGCACAAGGAGTTGAGCTACAAATCAGTCAATGGAAAGG
* * * **
46758163 TAAGGAAGAATTCGAGGTAATCCACTTGGATGATTACGATTTT-TTTCTTGGCTTGAATTTTTTT
131 AAAGGAAGAATTCGAGGTAATCCACTTGGATAATTACGATTTTATTT-TTGGCTTAAATTTCATT
*
46758227 GTCAAGATTAATGCTCTTTTGGTTCC
195 GACAAGATTAATGCTCTTTTGGTTCC
* * *
46758253 TTTTA-TCATGGGAAAACTCAATCTCTCAATAAGTGAGTCAACTAAGAAGATTAAGACTGTTAAT
1 TTTTATTCATGGGAAAACTCAATCTCTCAATAAGTAAGTCAACTAAGAAGATCAAGACTATTAAT
* * * * *
46758317 TCCAAAGAGGT-CTCGACTATGCGAGTAGCACAAGGAGTTGAGCTATAGATC-GATCAATGGAAA
66 TCCAAAGACGTCCT-AACAATGCGAGTAGCACAAGGAGTTGAGCTACAAATCAG-TCAATGGAAA
* * *
46758380 GGAAAGGAAGACTTTGAGGTAATCCACTTTGATAATTACGATTTTATTTTTGGCTTAAATTTCAT
129 GGAAAGGAAGAATTCGAGGTAATCCACTTGGATAATTACGATTTTATTTTTGGCTTAAATTTCAT
*
46758445 TGACAAGATTAATGCTCTTTTGGTTCT
194 TGACAAGATTAATGCTCTTTTGGTTCC
46758472 TTTT
1 TTTT
46758476 TCCAACTATA
Statistics
Matches: 193, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
218 3 0.02
219 182 0.94
220 8 0.04
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (220 bp):
TTTTATTCATGGGAAAACTCAATCTCTCAATAAGTAAGTCAACTAAGAAGATCAAGACTATTAAT
TCCAAAGACGTCCTAACAATGCGAGTAGCACAAGGAGTTGAGCTACAAATCAGTCAATGGAAAGG
AAAGGAAGAATTCGAGGTAATCCACTTGGATAATTACGATTTTATTTTTGGCTTAAATTTCATTG
ACAAGATTAATGCTCTTTTGGTTCC
Found at i:46760324 original size:22 final size:22
Alignment explanation
Indices: 46760260--46760329 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
46760250 ATACGAACTT
*
46760260 TATGTGTTATTCATGCAAACCC
1 TATGTGTTATTCATGCGAACCC
* *
46760282 TTCATG-ATTATTTATGCGAACCC
1 -T-ATGTGTTATTCATGCGAACCC
*
46760305 TATGTGTTATTCATGTGAACCC
1 TATGTGTTATTCATGCGAACCC
46760327 TAT
1 TAT
46760330 ATATTTGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.08
22 18 0.46
23 15 0.38
24 3 0.08
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (22 bp):
TATGTGTTATTCATGCGAACCC
Found at i:46765654 original size:40 final size:42
Alignment explanation
Indices: 46765610--46765707 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
46765600 AATCGATTAT
46765610 ATATGGCACTTAGTGTGCAA-ATCGGA-ATAGCTTCGGCTA-C
1 ATATGGCACTTAGTGTGCAAGA-CGGAGATAGCTTCGGCTATC
* * * *
46765650 ATATGGCAGTTAATGTGCAAGACTGAGATAGCTTCGGCTATG
1 ATATGGCACTTAGTGTGCAAGACGGAGATAGCTTCGGCTATC
*
46765692 A-AAGGCACTTAGTGTG
1 ATATGGCACTTAGTGTG
46765708 TGAGATTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 21 0.44
41 26 0.54
42 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
ATATGGCACTTAGTGTGCAAGACGGAGATAGCTTCGGCTATC
Found at i:46779311 original size:29 final size:30
Alignment explanation
Indices: 46779276--46779334 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
46779266 TATGTGAGAA
46779276 AGGGTTGCGAAGCTTA-TTTGCTTATGTGC
1 AGGGTTGCGAAGCTTATTTTGCTTATGTGC
46779305 AGGGTTGCGAAGCTTATTTTGCTTATGTGC
1 AGGGTTGCGAAGCTTATTTTGCTTATGTGC
46779335 TTGATACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.17, C:0.14, G:0.31, T:0.39
Consensus pattern (30 bp):
AGGGTTGCGAAGCTTATTTTGCTTATGTGC
Found at i:46780799 original size:54 final size:55
Alignment explanation
Indices: 46780736--46780845 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 55
46780726 CGTGCAATGA
* * * *
46780736 ATACTCAATTGGCTTTATTTGATGAC-GTTTAATTGTAGCTGAGTTGAATGTGAG
1 ATACTCAATTGGCTTTATATGATGACGGCTCAATTATAGCTGAGTTGAATGTGAG
* *
46780790 ATACTCAATTGGCTTTATATGATGACGGCTCGATTATAGTTGAGTTGAATGTGAG
1 ATACTCAATTGGCTTTATATGATGACGGCTCAATTATAGCTGAGTTGAATGTGAG
46780845 A
1 A
46780846 CCATTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 25 0.51
55 24 0.49
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (55 bp):
ATACTCAATTGGCTTTATATGATGACGGCTCAATTATAGCTGAGTTGAATGTGAG
Found at i:46783080 original size:40 final size:40
Alignment explanation
Indices: 46783023--46783208 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
46783013 TCGAATGATG
* * * *
46783023 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
46783063 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
46783103 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
46783143 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
46783184 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
46783209 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46783215 original size:80 final size:79
Alignment explanation
Indices: 46783076--46783231 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
46783066 GGACTAAGAT
* **
46783076 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
46783140 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
46783156 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
46783219 TATATCCGGTTAA
64 TAAATCCGGTTAA
46783232 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:46791816 original size:39 final size:39
Alignment explanation
Indices: 46791627--46791828 Score: 250
Period size: 39 Copynumber: 5.1 Consensus size: 39
46791617 TCGAATGATG
*
46791627 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATA
*
46791667 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA
*
46791706 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
*
46791745 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
* * **
46791784 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATA
46791824 TCCGG
1 TCCGG
46791829 TTAAACTCCG
Statistics
Matches: 145, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
38 26 0.18
39 58 0.40
40 52 0.36
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
Found at i:46799775 original size:40 final size:40
Alignment explanation
Indices: 46799718--46799903 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
46799708 TCGAATGATG
* * * *
46799718 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
46799758 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
46799798 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
46799838 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
46799879 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
46799904 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46799910 original size:80 final size:79
Alignment explanation
Indices: 46799771--46799926 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
46799761 GGACTAAGAT
* **
46799771 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
46799835 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
46799851 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
46799914 TATATCCGGTTAA
64 TAAATCCGGTTAA
46799927 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:46803717 original size:48 final size:48
Alignment explanation
Indices: 46803657--46803957 Score: 239
Period size: 48 Copynumber: 6.5 Consensus size: 48
46803647 AGTATCATAT
*
46803657 CCAGATATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
1 CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
* * ** * *
46803705 CTAGACATGGTCTTACATGGGATCATAGGTTGATGCTAATGCCATGTC
1 CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
* * * **
46803753 CCAGACATGGTCTTACATGGAATCACATTTCGA---CACTAACA-G-C
1 CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
* **** * ** *
46803796 CCA-ACTATGCTCTTACACAAAATTACATATTTATGCCAAAGCCATGTC
1 CCAGAC-ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
*
46803844 CCAGACATGGTCTTACATGGGATCACATATCGATGCCGAT---A-G-C
1 CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
**** * *
46803887 CCAG-CGATGGTCTTACACAAAATTACATATCGATGCCAAAGCCATGTC
1 CCAGAC-ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
*
46803935 CTAGACATGGTCTTACATGGGAT
1 CCAGACATGGTCTTACATGGGAT
46803958 TGTACATAAC
Statistics
Matches: 188, Mismatches: 51, Indels: 28
0.70 0.19 0.10
Matches are distributed among these distances:
42 3 0.02
43 55 0.29
44 2 0.01
45 5 0.03
46 5 0.03
47 2 0.01
48 113 0.60
49 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
Found at i:46803955 original size:91 final size:91
Alignment explanation
Indices: 46803736--46803957 Score: 309
Period size: 91 Copynumber: 2.4 Consensus size: 91
46803726 ATCATAGGTT
* * * * *
46803736 GATGCTAATGCCATGTCCCAGACATGGTCTTACATGGAATCACATTTCGACACTAACAGCCCAAC
1 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGACACCAACAGCCCAAC
* *
46803801 TATGCTCTTACACAAAATTACATATT
66 GATGCTCTTACACAAAATTACATATC
* ** * * *
46803827 TATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGC
1 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGACACCAACAGCCCAAC
*
46803892 GATGGTCTTACACAAAATTACATATC
66 GATGCTCTTACACAAAATTACATATC
*
46803918 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGAT
1 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT
46803958 TGTACATAAC
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 115 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (91 bp):
GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGACACCAACAGCCCAAC
GATGCTCTTACACAAAATTACATATC
Found at i:46806835 original size:42 final size:40
Alignment explanation
Indices: 46806607--46806832 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
46806597 ATGAATCGAT
*
46806607 TATATATGGCACTTAGTGTGCGAATCGGAATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCGAATCGGAATAGCTTCGGC
*
46806647 TATATATGGCACTTAGTGTGCGAATCGGAATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCGAATCGGAATAGCTTCGGC
* *
46806687 TATATATGGCACTTAGTGTGTGAATCGGAATAGCTTCAGC
1 TATATATGGCACTTAGTGTGCGAATCGGAATAGCTTCGGC
* * *
46806727 TATATATGGCACTTAGTGTGC-AAGACTGAAATAGTTTCGGC
1 TATATATGGCACTTAGTGTGCGAA-TC-GGAATAGCTTCGGC
* *** *
46806768 TATGA-AAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGC
1 TAT-ATATGGCACTTAGTGTGCGA-ATCGGAATAGCTTCGGC
* *
46806809 TATGCTTTGGCACTTAGTGTGCGA
1 TAT-ATATGGCACTTAGTGTGCGA
46806833 GATATTGAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 2 0.01
40 98 0.60
41 43 0.27
42 18 0.11
43 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGAATCGGAATAGCTTCGGC
Found at i:46810620 original size:24 final size:24
Alignment explanation
Indices: 46810588--46810634 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
46810578 CAAACACTTG
46810588 GTGTACACTCTCTTTCTGTGTCTA
1 GTGTACACTCTCTTTCTGTGTCTA
46810612 GTGTACACTCTCTTTCTGTGTCT
1 GTGTACACTCTCTTTCTGTGTCT
46810635 TTCTTTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.47
Consensus pattern (24 bp):
GTGTACACTCTCTTTCTGTGTCTA
Found at i:46813262 original size:20 final size:19
Alignment explanation
Indices: 46813222--46813265 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
46813212 ATTTTAGGAT
*
46813222 TTTATTTTAATTATCTTTA
1 TTTATTTTAATTATCTGTA
46813241 TTTATATTTAATTAAT-TGTA
1 TTTAT-TTTAATT-ATCTGTA
46813261 TTTAT
1 TTTAT
46813266 CTTTTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTTAATTATCTGTA
Found at i:46819413 original size:16 final size:16
Alignment explanation
Indices: 46819392--46819424 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46819382 AATTGAGTTG
46819392 AGAAATTTATTTAATT
1 AGAAATTTATTTAATT
46819408 AGAAATTTATTTAATT
1 AGAAATTTATTTAATT
46819424 A
1 A
46819425 AATTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AGAAATTTATTTAATT
Found at i:46822745 original size:10 final size:9
Alignment explanation
Indices: 46822723--46822816 Score: 55
Period size: 9 Copynumber: 9.8 Consensus size: 9
46822713 ACACGTGGCA
*
46822723 AAAAATGAT
1 AAAAATTAT
46822732 AAAAATTAT
1 AAAAATTAT
*
46822741 AAAAATATTT
1 AAAAAT-TAT
**
46822751 AAATTTTATT
1 AAAAATTA-T
46822761 AAAAATTAT
1 AAAAATTAT
*
46822770 -AAATTTATTT
1 AAAAATTA--T
*
46822780 AAAATTATAT
1 AAAAAT-TAT
46822790 AAAAAATTAT
1 -AAAAATTAT
*
46822800 TAAAATTAT
1 AAAAATTAT
46822809 ATAAAATT
1 A-AAAATT
46822817 TATTATAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.09
9 24 0.36
10 24 0.36
11 10 0.15
12 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46822794 original size:11 final size:11
Alignment explanation
Indices: 46822780--46822826 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
46822770 AAATTTATTT
46822780 AAAATTATATAA
1 AAAATTATAT-A
46822792 AAAATTAT-T-
1 AAAATTATATA
46822801 AAAATTATATA
1 AAAATTATATA
*
46822812 AAATTTATTATA
1 AAAATTA-TATA
46822824 AAA
1 AAA
46822827 TATAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 8 0.26
10 1 0.03
11 7 0.23
12 15 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTATATA
Found at i:46822825 original size:12 final size:11
Alignment explanation
Indices: 46822736--46822827 Score: 67
Period size: 10 Copynumber: 8.9 Consensus size: 11
46822726 AATGATAAAA
*
46822736 ATTATAAAAAT
1 ATTATAAAATT
46822747 ATT-T-AAATT
1 ATTATAAAATT
46822756 -TTATTAAAA--
1 ATTA-TAAAATT
*
46822765 ATTATAAATTT
1 ATTATAAAATT
46822776 ATT-TAAAATT
1 ATTATAAAATT
*
46822786 A-TATAAAA-A
1 ATTATAAAATT
46822795 ATTATTAAAATT
1 ATTA-TAAAATT
46822807 A-TATAAAATTT
1 ATTATAAAA-TT
46822818 ATTATAAAAT
1 ATTATAAAAT
46822828 ATAAATATAG
Statistics
Matches: 64, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
8 2 0.03
9 10 0.16
10 24 0.38
11 20 0.31
12 8 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTATAAAATT
Found at i:46822830 original size:21 final size:21
Alignment explanation
Indices: 46822736--46822830 Score: 92
Period size: 20 Copynumber: 4.6 Consensus size: 21
46822726 AATGATAAAA
* *
46822736 ATTATAAAAATATTTAAATTTT
1 ATTAT-AAAATATATAAAATTT
46822758 ATTA-AAAAT-TAT-AAATTT
1 ATTATAAAATATATAAAATTT
*
46822776 ATT-TAAAATTATATAAAAAATT
1 ATTATAAAA-TATAT-AAAATTT
*
46822798 ATTA-AAATTATATAAAATTT
1 ATTATAAAATATATAAAATTT
46822818 ATTATAAAATATA
1 ATTATAAAATATA
46822831 AATATAGAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
18 12 0.20
19 3 0.05
20 18 0.30
21 12 0.20
22 15 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTATAAAATATATAAAATTT
Found at i:46824281 original size:34 final size:34
Alignment explanation
Indices: 46824238--46824313 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
46824228 GATTTCAGAG
*
46824238 TGTGATGAATCAGTTGCTTGGTATGGGTGTCAAA
1 TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA
46824272 TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA
1 TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA
*
46824306 TTTGATGA
1 TGTGATGA
46824314 CGAGATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.37
Consensus pattern (34 bp):
TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA
Found at i:46829263 original size:131 final size:133
Alignment explanation
Indices: 46828949--46829450 Score: 372
Period size: 133 Copynumber: 3.8 Consensus size: 133
46828939 TTCCAAAGAA
* * * * * * ** *
46828949 ATATCCGATTGTTTTGAACAAACGAGAGATTGCAACCCAGCACGACAGGGCACGATT-CTCGAAT
1 ATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * ** * **
46829013 TGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAGAA-ACATGAGTGAAA-ACCT
66 GGCCAAACATCAAACTTTGCCTTCGTTTTAAAGAATTTT-TTAA-AAGACATGAATGAAAGTTC-
* *
46829076 AAAGGA
128 GAAGGG
** * * * ** * * * * *
46829082 ATATTCGATCGTTTTGAACAAACAAGAAATCACAACCCAGCACGATAGGGCATGATTTC-TGAAT
1 ATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * ** * * * * * *
46829146 TGTCAAACA-CCGAGTATTGCCTTCGTTTTAGAGGA-TTTTTAGAAGACCTGAATGGAA-TCTCG
66 GGCCAAACATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTTAAAAGACATGAATGAAAGT-TCG
46829208 AAGGG
129 AAGGG
* * *
46829213 ATATTTGATTATTTTGAGCAAACGATAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * *
46829278 GGCCAAATATCAAACTTTTCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAAGTTTGAA
66 GGCCAAACATCAAACTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGACATGAATGAAAGTTCGAA
46829343 GGG
131 GGG
* *
46829346 ATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCGAAT
1 ATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * *
46829411 TGCCAAATATCGAA-TCTCGTCTTCGTTTTAAAGAATTTTT
66 GGCCAAACATCAAACT-TTGCCTTCGTTTTAAAGAATTTTT
46829451 AAATGAATAC
Statistics
Matches: 296, Mismatches: 64, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
130 2 0.01
131 63 0.21
132 33 0.11
133 196 0.66
134 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (133 bp):
ATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
GGCCAAACATCAAACTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGACATGAATGAAAGTTCGAA
GGG
Found at i:46829359 original size:133 final size:133
Alignment explanation
Indices: 46829207--46829450 Score: 391
Period size: 133 Copynumber: 1.8 Consensus size: 133
46829197 ATGGAATCTC
* * *
46829207 GAAGGGATATTTGATTATTTTGAGCAAACGATAAATTGCAACCCAACACGTTAGGGCACGATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
**
46829272 GCGAATGGCCAAATATC-AAACTTTTCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAA
66 GCGAATGGCCAAATATCGAAACTCGT-CTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAA
46829336 GTTT
130 GTTT
* *
46829340 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* *
46829405 GCGAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTT
66 GCGAATGGCCAAATATCGAAACTCGTCTTCGTTTTAAAGAATTTTT
46829451 AAATGAATAC
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
133 96 0.95
134 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (133 bp):
GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
GCGAATGGCCAAATATCGAAACTCGTCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAAG
TTT
Found at i:46832748 original size:44 final size:44
Alignment explanation
Indices: 46832698--46832784 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
46832688 AGATTCGTCG
* * *
46832698 TCTTCGATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCCCTCTGACAACACAGAGACGCCAAATCTGCTA
* *
46832742 TCTTCGATCTGCCCTCTGACAATACAGAGACGTCAAATCTGCT
1 TCTTCGATCTGCCCTCTGACAACACAGAGACGCCAAATCTGCT
46832785 TGGATTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCCCTCTGACAACACAGAGACGCCAAATCTGCTA
Found at i:46832867 original size:88 final size:88
Alignment explanation
Indices: 46832763--46833307 Score: 691
Period size: 88 Copynumber: 6.2 Consensus size: 88
46832753 CCCTCTGACA
* * * * *
46832763 ATACAGAGACGTCAAATC-TGCTTGGATTTACTTCAATGTAAACACGTGAAAGCCAAATCAACTA
1 ATACAGAGATGCCAAATCAT-CTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTA
46832827 TGTCTTCGATCTGCTCCCTCGCTG
65 TGTCTTCGATCTGCTCCCTCGCTG
* * *
46832851 ATACAGAGATGCCAAATCATCATGGATCTGCTTCAACGTAAACACGCGACAGCCAAATCAACTAT
1 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTAT
*
46832916 GTCTTCGATCTGCTCCC-CACCTG
66 GTCTTCGATCTGCTCCCTC-GCTG
46832939 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTAT
1 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTAT
46833004 GTCTTCGATCTGCTCCCT-GCCTG
66 GTCTTCGATCTGCTCCCTCG-CTG
* * *
46833027 ATACAGAGATGCCAAATCATCATGGATCTGCTCCAACGTAAACACGTGACAGCCAAATCAACTAT
1 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTAT
*
46833092 GTCTTCGATCTACT-CCTCGCCTG
66 GTCTTCGATCTGCTCCCTCG-CTG
* *
46833115 ATACAGAGATGCCATATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTAT
1 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTAT
46833180 GTCTTCGATCTGCT-CC-C-CTG
66 GTCTTCGATCTGCTCCCTCGCTG
* ** * *
46833200 ATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCGCT--ACA-GAG-ACGCCAAAT
1 ATACAGAGATGCCAAA--T-C-ATCTTGGATCTGCT-T-CAACG-TAAACACGTGAAAGCCAAAT
* *
46833261 CAGCTATGTCTTCGATCTGCTCCC-CGCCG
59 CAACTATGTCTTCGATCTGCTCCCTCGCTG
* *
46833290 CTATAGAGATGCCAAATC
1 ATACAGAGATGCCAAATC
46833308 TGCTATCTTC
Statistics
Matches: 411, Mismatches: 32, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
85 18 0.04
87 7 0.02
88 343 0.83
89 19 0.05
90 20 0.05
91 3 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (88 bp):
ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTAT
GTCTTCGATCTGCTCCCTCGCTG
Found at i:46832906 original size:41 final size:40
Alignment explanation
Indices: 46832856--46833086 Score: 115
Period size: 41 Copynumber: 5.3 Consensus size: 40
46832846 CGCTGATACA
* *
46832856 GAGATGCCAAATCATCATGGATCTGCTTCAACGTAAACAC
1 GAGAAGCCAAATCATCATGGATCTGCTCCAACGTAAACAC
* * * * *
46832896 GCGACAGCCAAATCAACTATGTCTTCGATCTGCTCCCCACCTGATACA-
1 GAGA-AGCCAAATCATC-ATG-----GATCTGCT-CCAACGT-AAACAC
* * *
46832944 GAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACAC
1 GAGAAGCCAAATCATCATGGATCTGCTCCAACGTAAACAC
* * ** * *
46832984 GTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCCTGCCTGATACA-
1 GAG-AAGCCAAATCATC-ATG-----GATCTGCT-CCAACGT-AAACAC
*
46833032 GAGATGCCAAATCATCATGGATCTGCTCCAACGTAAACAC
1 GAGAAGCCAAATCATCATGGATCTGCTCCAACGTAAACAC
*
46833072 GTGACAGCCAAATCA
1 GAGA-AGCCAAATCA
46833087 ACTATGTCTT
Statistics
Matches: 137, Mismatches: 33, Indels: 41
0.65 0.16 0.19
Matches are distributed among these distances:
39 8 0.06
40 16 0.12
41 46 0.34
42 5 0.04
46 5 0.04
47 37 0.27
48 12 0.09
49 8 0.06
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (40 bp):
GAGAAGCCAAATCATCATGGATCTGCTCCAACGTAAACAC
Found at i:46833217 original size:44 final size:44
Alignment explanation
Indices: 46833181--46833711 Score: 715
Period size: 44 Copynumber: 12.1 Consensus size: 44
46833171 ATCAGCTATG
* * * *
46833181 TCTTCGATCTGCTC-CC-CTGATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* * *
46833223 TCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCAGCTATG
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG-T-TA
* * * *
46833269 TCTTCGATCTGCTCCCCGCCGCTATAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
**
46833313 TCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* * *
46833357 TGTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* * * * ** *
46833401 TATTCGATCTGCCCTCTGACAATACAGAGAGGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* *
46833445 TCTTCGATCTGCTCTCCGCCGCTATAGAGACACCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* * *
46833489 TCTTCGATCCGCTCTCCACCGCTACAGAGACACCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
*
46833533 TCTTCGATCCGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* * * *
46833577 TCTTCGATCTGTTCTCCGTCACTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
* *
46833621 TCTTCGATCTGCTCTCCGTCACTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
46833665 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
46833709 TCT
1 TCT
46833712 GCTTCAACGA
Statistics
Matches: 431, Mismatches: 54, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
42 13 0.03
43 2 0.00
44 379 0.88
46 37 0.09
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
Found at i:46834962 original size:5 final size:5
Alignment explanation
Indices: 46834952--46835025 Score: 66
Period size: 5 Copynumber: 15.0 Consensus size: 5
46834942 TTGGCCTCTC
* *
46834952 CTTTT CTTTT CTTTT CTTCT -TTTT CTTATT -TATTT C-TTT CCTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTT-TT CT-TTT CTTTT CTTTT CTTTT
*
46835001 CTTCTT CTTTT CTCTT CTTTT -TTTT
1 CTT-TT CTTTT CTTTT CTTTT CTTTT
46835026 TTAAGATCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
4 11 0.19
5 39 0.67
6 8 0.14
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (5 bp):
CTTTT
Found at i:46837621 original size:19 final size:19
Alignment explanation
Indices: 46837597--46837644 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
46837587 GGGAAACTCT
46837597 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
46837616 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
46837635 AATGCAAATG
1 AATGCAAATG
46837645 CATGGGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:46837657 original size:24 final size:24
Alignment explanation
Indices: 46837607--46837660 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
46837597 AATGCAAATG
*
46837607 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
46837631 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
46837655 ATGCAA
1 ATGCAA
46837661 AGGAAAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:46839043 original size:43 final size:43
Alignment explanation
Indices: 46838982--46839067 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
46838972 ATTAAAAATG
46838982 TTTTTGAAATGTGGTTCTTTTTTTAATAACATTTGAATAACCC
1 TTTTTGAAATGTGGTTCTTTTTTTAATAACATTTGAATAACCC
46839025 TTTTTGAAATGTGGTTCTTTTTTTAATAACATTTGAATAACCC
1 TTTTTGAAATGTGGTTCTTTTTTTAATAACATTTGAATAACCC
46839068 GAGTTGATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (43 bp):
TTTTTGAAATGTGGTTCTTTTTTTAATAACATTTGAATAACCC
Found at i:46839566 original size:131 final size:133
Alignment explanation
Indices: 46839259--46839754 Score: 398
Period size: 133 Copynumber: 3.7 Consensus size: 133
46839249 AGAAATATCA
* * * * ** * *
46839259 GATTGTTTTGAACAAACGAGAGATTGCAACCCAGCACGACAGGGCACGATT-CTCGAATTGCCAA
1 GATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATGGCCAA
* * * ** ** * *
46839323 ACATCAAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAGAA-ACATGAGTGAAA-ACCTAAAGGA
66 ACATCAAACTTTGCCTTCGTTTTAAAGAATTTT-TTAA-AAGACATGAGTGAAAGTTC-GAAGGG
46839386 ATATTC
128 ATATTC
** * * ** * * * *** * *
46839392 GATCGTTTTGAACAAACAAGAAATCACAACCCAGCACGATAGGGCATGATT-TTTGAATTGTCAA
1 GATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATGGCCAA
** * * * * * *
46839456 ACA-CCGAGTATTGCCTTCGTTTTAGAGGA-TTTTTAGAAGACCTG-GATGGAA-TCTCGAAGGG
66 ACATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTTAAAAGACATGAG-TGAAAGT-TCGAAGGG
*
46839517 ATATTT
128 ATATTC
*
46839523 GATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATGGCCGA
1 GATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATGGCCAA
* * *
46839588 ATATCAAACTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAAGTTTGAAGGGATA
66 ACATCAAACTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGACATGAGTGAAAGTTCGAAGGGATA
46839653 TTC
131 TTC
* * * *
46839656 GATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCGAATTGCCAA
1 GATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATGGCCAA
* * * *
46839721 ATATCGAA-TCTTGTCTTCTTTTTAAAGAATTTTT
66 ACATCAAACT-TTGCCTTCGTTTTAAAGAATTTTT
46839755 AAATGAATAC
Statistics
Matches: 292, Mismatches: 61, Indels: 20
0.78 0.16 0.05
Matches are distributed among these distances:
130 3 0.01
131 62 0.21
132 33 0.11
133 192 0.66
134 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (133 bp):
GATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATGGCCAA
ACATCAAACTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGACATGAGTGAAAGTTCGAAGGGATA
TTC
Found at i:46842083 original size:23 final size:24
Alignment explanation
Indices: 46842048--46842099 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
46842038 TTAAATTCAA
**
46842048 ATTT-AATATATAATTTAAATATT
1 ATTTAAATATATAAGGTAAATATT
*
46842071 ATTTAAATA-ATAAGGTAATTATT
1 ATTTAAATATATAAGGTAAATATT
46842094 ATTTAA
1 ATTTAA
46842100 CTTTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
ATTTAAATATATAAGGTAAATATT
Found at i:46843301 original size:9 final size:9
Alignment explanation
Indices: 46843289--46843319 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46843279 TAAATATTTT
46843289 ATATATAAA
1 ATATATAAA
46843298 ATATATAAA
1 ATATATAAA
*
46843307 ATATTTAAA
1 ATATATAAA
46843316 ATAT
1 ATAT
46843320 TGATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
ATATATAAA
Found at i:46843320 original size:9 final size:9
Alignment explanation
Indices: 46843289--46843335 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
46843279 TAAATATTTT
*
46843289 ATATATAAA
1 ATATTTAAA
*
46843298 ATATATAAA
1 ATATTTAAA
46843307 ATATTTAAA
1 ATATTTAAA
* *
46843316 ATATTGATA
1 ATATTTAAA
46843325 A-ATTTAAA
1 ATATTTAAA
46843333 ATA
1 ATA
46843336 ATACACGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATATTTAAA
Found at i:46852365 original size:35 final size:35
Alignment explanation
Indices: 46852314--46852390 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
46852304 CAATATTATG
*
46852314 ATGAATTGACGAATATTAAGTCTCAGTTAAACCTT
1 ATGAATTGACGAATATTAAGTCCCAGTTAAACCTT
* * *
46852349 ATGAATTGACGGATATTAAGTCCCGGTTGAACCTT
1 ATGAATTGACGAATATTAAGTCCCAGTTAAACCTT
*
46852384 AGGAATT
1 ATGAATT
46852391 CTTAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (35 bp):
ATGAATTGACGAATATTAAGTCCCAGTTAAACCTT
Found at i:46855984 original size:21 final size:21
Alignment explanation
Indices: 46855958--46856004 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
46855948 TTTTTTACCT
*
46855958 CTTTTCGTCTTTAAACTTGTA
1 CTTTTCATCTTTAAACTTGTA
*
46855979 CTTTTCATCTTTAAATTTGTA
1 CTTTTCATCTTTAAACTTGTA
46856000 CTTTT
1 CTTTT
46856005 AGTTAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.57
Consensus pattern (21 bp):
CTTTTCATCTTTAAACTTGTA
Found at i:46858038 original size:136 final size:129
Alignment explanation
Indices: 46857807--46858115 Score: 410
Period size: 136 Copynumber: 2.3 Consensus size: 129
46857797 AGTCTAGATC
* *
46857807 GTGAGAGAGAG-T--TACTCGGGTATTTATACCTAGCCTTGGGGGCATCAATGCTCCAGAGTGCT
1 GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTT-GGGGCATCAATGCTCCAGAATGCT
* *
46857869 ATCTGATGCTTAAGTTAGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAG
65 ATCTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGAT-----AA-AGC--AAGCTAGCAGAG
46857934 AAGAAGT-
122 AAGAAGTA
* * *
46857941 GTGAGAGAGAGTTGGTACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAATGCTC
1 GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGCATCAATGCTCCAGAATGCTA
* *
46858006 TTTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGGTAAAGCAAGCTAGCAGAGAAGAAGTAA
66 TCTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGATAAAGCAAGCTAGCAGAGAAGAAGT-A
*
46858071 GAGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGC
1 GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGC
46858116 TGCCTGTTGC
Statistics
Matches: 159, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
128 19 0.12
130 46 0.29
131 2 0.01
134 11 0.07
135 1 0.01
136 57 0.36
137 23 0.14
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (129 bp):
GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGCATCAATGCTCCAGAATGCTA
TCTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGATAAAGCAAGCTAGCAGAGAAGAAGTA
Found at i:46861169 original size:20 final size:22
Alignment explanation
Indices: 46861130--46861171 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
46861120 ACGAAGTAGG
46861130 AAAGTGATTATGAATATTAAAT
1 AAAGTGATTATGAATATTAAAT
*
46861152 AAAGT-ATT-TGATTATTAAAT
1 AAAGTGATTATGAATATTAAAT
46861172 TTTCTATCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (22 bp):
AAAGTGATTATGAATATTAAAT
Found at i:46862015 original size:2 final size:2
Alignment explanation
Indices: 46862010--46862046 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
46862000 CAAGTAAAAC
46862010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46862047 ATTTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46864414 original size:12 final size:12
Alignment explanation
Indices: 46864399--46864423 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46864389 GCCGACCACA
46864399 AGCCCATGTGCC
1 AGCCCATGTGCC
46864411 AGCCCATGTGCC
1 AGCCCATGTGCC
46864423 A
1 A
46864424 CTCACACGAC
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (12 bp):
AGCCCATGTGCC
Found at i:46867328 original size:42 final size:42
Alignment explanation
Indices: 46867258--46867337 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
46867248 TAATAATTAC
* **
46867258 GTGTAAGACCATGTCTGGGACATTGGCATC-ATATCTGATTTT
1 GTGTAAGACCATATCTGGGACAGAGGCATCGATA-CTGATTTT
*
46867300 GTGTAAGACCCTATCTGGGACAGAGGCATCGATACTGA
1 GTGTAAGACCATATCTGGGACAGAGGCATCGATACTGA
46867338 ATTACATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACAGAGGCATCGATACTGATTTT
Found at i:46878069 original size:19 final size:19
Alignment explanation
Indices: 46878033--46878069 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46878023 AGTAGTGTGT
* *
46878033 TTAATTAGGTGAATTTAGC
1 TTAATTAGGAGAAATTAGC
46878052 TTAATTAGGAGAAATTAG
1 TTAATTAGGAGAAATTAG
46878070 GAAAAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (19 bp):
TTAATTAGGAGAAATTAGC
Found at i:46879302 original size:3 final size:3
Alignment explanation
Indices: 46879294--46879371 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
46879284 AATGAGAATT
46879294 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46879342 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46879372 AAGAGCTAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46879521 original size:10 final size:10
Alignment explanation
Indices: 46879506--46879530 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46879496 TCAGAAAATG
46879506 AATAATAATA
1 AATAATAATA
46879516 AATAATAATA
1 AATAATAATA
46879526 AATAA
1 AATAA
46879531 ATAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATAATA
Found at i:46879541 original size:14 final size:14
Alignment explanation
Indices: 46879501--46879534 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
46879491 GAAGATCAGA
46879501 AAATGAATAAT-AAT
1 AAAT-AATAATAAAT
46879515 AAATAATAATAAAT
1 AAATAATAATAAAT
46879529 AAATAA
1 AAATAA
46879535 AATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:46879878 original size:10 final size:10
Alignment explanation
Indices: 46879863--46879893 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
46879853 TAGAGCCTAG
46879863 AAAAAAAATA
1 AAAAAAAATA
46879873 AAAAAAAATA
1 AAAAAAAATA
46879883 AATAAAAAATA
1 AA-AAAAAATA
46879894 TATATATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:46880766 original size:19 final size:19
Alignment explanation
Indices: 46880730--46880766 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46880720 TAATTAGGAT
* *
46880730 TTAATTAGGTGAATTTAGC
1 TTAATTAGGAGAAATTAGC
46880749 TTAATTAGGAGAAATTAG
1 TTAATTAGGAGAAATTAG
46880767 GAAAAAGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (19 bp):
TTAATTAGGAGAAATTAGC
Found at i:46881370 original size:30 final size:28
Alignment explanation
Indices: 46881336--46881431 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 28
46881326 TTTTTAAGTT
46881336 TAATATATATATATATATTATATTATTAAA
1 TAATATATATATATATATTATATT-TT-AA
* * *
46881366 TAATA-A-AAATATTTATTATGTTTT-A
1 TAATATATATATATATATTATATTTTAA
46881391 T--TATATAT-TATATATTATATTCTT-A
1 TAATATATATATATATATTATATT-TTAA
*
46881416 TTATAT-TATATATATA
1 TAATATATATATATATA
46881432 GAGTAAAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
23 2 0.04
24 12 0.22
25 7 0.13
26 3 0.06
27 11 0.20
28 13 0.24
29 1 0.02
30 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (28 bp):
TAATATATATATATATATTATATTTTAA
Found at i:46881399 original size:7 final size:7
Alignment explanation
Indices: 46881389--46881428 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
46881379 TATTATGTTT
46881389 TATTATA
1 TATTATA
46881396 TATTATA
1 TATTATA
46881403 TATTATA
1 TATTATA
*
46881410 TTCTTATTA
1 -TATTA-TA
46881419 TATTATA
1 TATTATA
46881426 TAT
1 TAT
46881429 ATAGAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 19 0.66
8 8 0.28
9 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:46881418 original size:25 final size:26
Alignment explanation
Indices: 46881374--46881431 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
46881364 AATAATAAAA
* *
46881374 ATATTTATTATGTTTTATTATA-TAT
1 ATATATATTATATTTTATTATATTAT
46881399 -TATATATTATATTCTTATTATATTAT
1 ATATATATTATATT-TTATTATATTAT
46881425 ATATATA
1 ATATATA
46881432 GAGTAAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.39
25 8 0.29
26 3 0.11
27 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATATATTATATTTTATTATATTAT
Found at i:46881514 original size:6 final size:6
Alignment explanation
Indices: 46881497--46881527 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
46881487 AATAGAGAGG
46881497 AAGAAGA AAGAAA AAGAAA AAGAAA AAGAAA
1 AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA
46881528 GAATTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:46882451 original size:29 final size:28
Alignment explanation
Indices: 46882389--46882475 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 28
46882379 TGAAATGTAT
**
46882389 ATTGATTGAAAAAT-AATTAGTGATT-TGA
1 ATTGATTG-AAAATGAATTA-AAATTATGA
46882417 ATTTGATTGGAAAATGAATTAAAATTATGA
1 A-TTGATT-GAAAATGAATTAAAATTATGA
*
46882447 ATTGAAT-AAAAGTGAATT-AAATTATGA
1 ATTGATTGAAAA-TGAATTAAAATTATGA
46882474 AT
1 AT
46882476 ATGTGTGAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 15 0.29
28 7 0.14
29 19 0.37
30 10 0.20
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (28 bp):
ATTGATTGAAAATGAATTAAAATTATGA
Found at i:46883645 original size:22 final size:22
Alignment explanation
Indices: 46883617--46883660 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46883607 GTACGTTTTA
46883617 AAATTTTGAATAGAATGACATG
1 AAATTTTGAATAGAATGACATG
46883639 AAATTTTGAATAGAATGACATG
1 AAATTTTGAATAGAATGACATG
46883661 TACTTAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (22 bp):
AAATTTTGAATAGAATGACATG
Found at i:46885040 original size:5 final size:5
Alignment explanation
Indices: 46885030--46885064 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
46885020 TTGTATGTTC
46885030 TTTAT TTTATTT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTA--T TTTAT TTTAT TTTAT TTTAT TTT
46885065 TCACAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:46892705 original size:83 final size:83
Alignment explanation
Indices: 46892566--46892732 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
46892556 TAGCCAAACC
46892566 TAAAATTCTGGAAATTTTATAGATGGAAGATATACGAGTCTATATTTAGGGAAAATTAACGGCAA
1 TAAAATTCTGGAAATTTTATAGATGGAAGATATACGAGTCTATATTTAGGGAAAATTAACGGCAA
46892631 GTGATTTGGAGTTTTGTA
66 GTGATTTGGAGTTTTGTA
46892649 TAAAATTCTGGAAATTTTATAGATGGAAGATATACGAGTCTATATTTAGGGAAAATTAACGGCAA
1 TAAAATTCTGGAAATTTTATAGATGGAAGATATACGAGTCTATATTTAGGGAAAATTAACGGCAA
46892714 GTGATTTGGAGTTTTGTA
66 GTGATTTGGAGTTTTGTA
46892732 T
1 T
46892733 CTCCAGTTAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (83 bp):
TAAAATTCTGGAAATTTTATAGATGGAAGATATACGAGTCTATATTTAGGGAAAATTAACGGCAA
GTGATTTGGAGTTTTGTA
Found at i:46893193 original size:47 final size:47
Alignment explanation
Indices: 46893124--46893343 Score: 386
Period size: 47 Copynumber: 4.7 Consensus size: 47
46893114 TTTTATGTGT
*
46893124 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
46893171 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
46893218 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
46893265 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
46893312 ATATGTGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
46893344 AATATGTATG
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 164 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:46893382 original size:48 final size:48
Alignment explanation
Indices: 46893266--46893465 Score: 255
Period size: 48 Copynumber: 4.2 Consensus size: 48
46893256 TGAACATGCA
* * * * *
46893266 TATATGTGTTAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-ACATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGATATG
* *
46893311 CATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
46893361 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
46893409 TATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
46893457 TATATGTGG
1 TATATGTGG
46893466 CTAGTGTGAA
Statistics
Matches: 140, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
45 7 0.05
46 1 0.01
47 24 0.17
48 93 0.66
49 4 0.03
50 11 0.08
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:46893463 original size:17 final size:17
Alignment explanation
Indices: 46893441--46893498 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
46893431 CTAGTGTGAA
46893441 ATATGTATGAGATATGT
1 ATATGTATGAGATATGT
*
46893458 ATATG--TG-GCTAGTGT
1 ATATGTATGAGATA-TGT
46893473 GAAATATGTATGAGATATGT
1 ---ATATGTATGAGATATGT
46893493 ATATGT
1 ATATGT
46893499 GGTAAAGCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 3 0.09
15 5 0.16
17 11 0.34
18 5 0.16
20 5 0.16
21 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.40
Consensus pattern (17 bp):
ATATGTATGAGATATGT
Found at i:46893470 original size:35 final size:35
Alignment explanation
Indices: 46893428--46893500 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
46893418 TAAAGTCGAA
46893428 TGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TGGCTAGTGTGAAATATGTATGAGATATGTATATG
46893463 TGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TGGCTAGTGTGAAATATGTATGAGATATGTATATG
46893498 TGG
1 TGG
46893501 TAAAGCCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.37
Consensus pattern (35 bp):
TGGCTAGTGTGAAATATGTATGAGATATGTATATG
Found at i:46893785 original size:37 final size:37
Alignment explanation
Indices: 46893677--46893785 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
46893667 GGAAATATAT
*
46893677 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
46893714 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
46893751 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
46893786 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:46896592 original size:26 final size:25
Alignment explanation
Indices: 46896557--46896612 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
46896547 AAATATGATT
* * *
46896557 AAATTATTTATTATTATTTTTAATA
1 AAATTATTTAATAATAATTTTAATA
*
46896582 AAATATATTTAATAATAATTTTATTA
1 AAAT-TATTTAATAATAATTTTAATA
46896608 AAATT
1 AAATT
46896613 TAATAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATTATTTAATAATAATTTTAATA
Found at i:46900180 original size:27 final size:26
Alignment explanation
Indices: 46900127--46900184 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
46900117 GAACAGAATT
* * * *
46900127 GAATTGAATAGACTAAAAATTACACC
1 GAATTAAACAGACTAAAAATAAAACC
46900153 GAATTAAACAGACTAAAAATAAAAACC
1 GAATTAAACAGACTAAAAAT-AAAACC
46900180 GAATT
1 GAATT
46900185 GATAGTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (26 bp):
GAATTAAACAGACTAAAAATAAAACC
Found at i:46900802 original size:2 final size:2
Alignment explanation
Indices: 46900790--46900828 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
46900780 ATTTATAAAA
46900790 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46900829 GAAAAGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46910217 original size:20 final size:20
Alignment explanation
Indices: 46910192--46910229 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46910182 GTTTATTCGC
*
46910192 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
46910212 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
46910230 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:46911888 original size:28 final size:28
Alignment explanation
Indices: 46911856--46911924 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
46911846 GCGTAGATCA
46911856 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
46911884 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
46911912 CGATA-TACCCCTA
1 CGAAATTACCCCTA
46911925 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:46918147 original size:20 final size:20
Alignment explanation
Indices: 46918122--46918159 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46918112 GTTTATTCGC
*
46918122 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
46918142 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
46918160 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:46919814 original size:28 final size:28
Alignment explanation
Indices: 46919782--46919850 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
46919772 GCGTAGATCA
46919782 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
46919810 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
46919838 CGATA-TACCCCTA
1 CGAAATTACCCCTA
46919851 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:46922894 original size:42 final size:43
Alignment explanation
Indices: 46922781--46922931 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 43
46922771 TAGGATTCCG
* *
46922781 ATATGTATTATCGTGTAAGACCAC-ATCTGGGACGTT-AGCATCGAT
1 ATATG-ATT-TCGTGTAAGACC-CTGTCTGGGACATTGA-CATCGAT
* * *
46922826 TTGTGATTTACGTGTAAGACCATGTCTGGGACATTGACATCG-T
1 ATATGATTT-CGTGTAAGACCCTGTCTGGGACATTGACATCGAT
* * *
46922869 ATATGATTTCGTGTAAGACCCTGTCTGGGTCAGTGGCATCGAT
1 ATATGATTTCGTGTAAGACCCTGTCTGGGACATTGACATCGAT
* * *
46922912 ATTTGATTACATGTAAGACC
1 ATATGATTTCGTGTAAGACC
46922932 ACGTTTGGGA
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.32
43 27 0.31
44 29 0.33
45 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATGATTTCGTGTAAGACCCTGTCTGGGACATTGACATCGAT
Found at i:46922896 original size:86 final size:87
Alignment explanation
Indices: 46922781--46922942 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 87
46922771 TAGGATTCCG
*
46922781 ATATGTATTATCGTGTAAGACCACATCTGGGAC-GTTAGCATCGAT-TTGTGATTTACGTGTAAG
1 ATATGTATTATCGTGTAAGACCACATCTGGGACAG-TAGCATCGATATT-TGA-TTACATGTAAG
*
46922844 ACCATGTCTGGGACATTGACATCGT
63 ACCACGTCTGGGACATTGACATCGT
* * *
46922869 ATATG-ATT-TCGTGTAAGACC-CTGTCTGGGTCAGTGGCATCGATATTTGATTACATGTAAGAC
1 ATATGTATTATCGTGTAAGACCAC-ATCTGGGACAGTAGCATCGATATTTGATTACATGTAAGAC
*
46922931 CACGTTTGGGAC
65 CACGTCTGGGAC
46922943 GCTTGCATTG
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
85 23 0.35
86 31 0.48
87 6 0.09
88 5 0.08
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (87 bp):
ATATGTATTATCGTGTAAGACCACATCTGGGACAGTAGCATCGATATTTGATTACATGTAAGACC
ACGTCTGGGACATTGACATCGT
Done.