Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 52 of 185
Found at i:15920206 original size:12 final size:12
Alignment explanation
Indices: 15920189--15920218 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15920179 TGCAAATGGA
15920189 TCATTTCCATTT
1 TCATTTCCATTT
15920201 TCATTTCCATTT
1 TCATTTCCATTT
*
15920213 CCATTT
1 TCATTT
15920219 TCTGGAAACT
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:0.17, C:0.27, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:15922320 original size:26 final size:24
Alignment explanation
Indices: 15922281--15922333 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 24
15922271 GGGATAATAA
15922281 TTTTTAATTAATATTCAACTGATT
1 TTTTTAATTAATATTCAACTGATT
15922305 TTTTTAAAGTTAATATTCAACTGATT
1 TTTTT-AA-TTAATATTCAACTGATT
15922331 TTT
1 TTT
15922334 AAAACAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 5 0.19
25 2 0.07
26 20 0.74
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTTTAATTAATATTCAACTGATT
Found at i:15922343 original size:24 final size:25
Alignment explanation
Indices: 15922290--15922343 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
15922280 ATTTTTAATT
***
15922290 AATATTCAACTGATTTTTTTAAAGTT
1 AATATTCAACTGA-TTTTTTAAAACA
15922316 AATATTCAACTGA-TTTTTAAAACA
1 AATATTCAACTGATTTTTTAAAACA
15922340 AATA
1 AATA
15922344 AGTATCCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
26 13 0.52
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (25 bp):
AATATTCAACTGATTTTTTAAAACA
Found at i:15922705 original size:13 final size:14
Alignment explanation
Indices: 15922687--15922716 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
15922677 CTTTAACCAT
15922687 TGTCAAAA-TCAAA
1 TGTCAAAATTCAAA
15922700 TGTCAAAATTCAAA
1 TGTCAAAATTCAAA
15922714 TGT
1 TGT
15922717 TGTGACACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (14 bp):
TGTCAAAATTCAAA
Found at i:15933911 original size:25 final size:25
Alignment explanation
Indices: 15933880--15934071 Score: 114
Period size: 25 Copynumber: 7.9 Consensus size: 25
15933870 GTCCTATCTC
15933880 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
* * * **
15933905 GAGCCATGTAATGGGAAGCTTATCC
1 GAGCCATATAACGGGAAGCTCATGT
* * **
15933930 GAGCTATATAACGGGAAGCCCATAA
1 GAGCCATATAACGGGAAGCTCATGT
15933955 GAGCC-TA-ATA-GGGAAGCTCATGT
1 GAGCCATATA-ACGGGAAGCTCATGT
* * *
15933978 GAGCC-TATAACGGGTAGCTC-CGAA
1 GAGCCATATAACGGGAAGCTCATG-T
**
15934002 GAGCCA-ATAACCAGAAGCTC-TGAAT
1 GAGCCATATAACGGGAAGCTCATG--T
* * * *
15934027 -AGCCATATATCGGGAAGTTCAAGC
1 GAGCCATATAACGGGAAGCTCATGT
*
15934051 GAGCCA-ATATCGGGAAGCTCA
1 GAGCCATATAACGGGAAGCTCA
15934072 CAAAGAGCCT
Statistics
Matches: 127, Mismatches: 31, Indels: 19
0.72 0.18 0.11
Matches are distributed among these distances:
23 20 0.16
24 48 0.38
25 58 0.46
26 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:15936465 original size:43 final size:43
Alignment explanation
Indices: 15936412--15936500 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
15936402 GTTTTATAGG
* * *
15936412 TAGTGGCATTTTT-GGTAGAAGTGTCACTAAATGCCATGTTCTT
1 TAGTGGCATTTTTAAG-AGAAGTGCCACTAAAGGCCATGTTCTT
* *
15936455 TAGTGGCATTTTTAAGAGAAGTGCCACTAAAGGTCATGTTTTT
1 TAGTGGCATTTTTAAGAGAAGTGCCACTAAAGGCCATGTTCTT
15936498 TAG
1 TAG
15936501 CGGCGTTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (43 bp):
TAGTGGCATTTTTAAGAGAAGTGCCACTAAAGGCCATGTTCTT
Found at i:15936923 original size:66 final size:66
Alignment explanation
Indices: 15936796--15936923 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
15936786 TCTAAAGCTA
* * * *
15936796 TAGCTGGAGTTCGTCATATTTTCTTGTTGCCTCTGCTTCTCTCGCTGCGGCCTCCGCTTTAATTT
1 TAGCTGGAGTTCATCATATTTTCTTGTAGCCTCTGCTTCTCTCGATGCGGCCTCCACTTTAATTT
15936861 G
66 G
* * *
15936862 TAGCTGGAGTTCATCATATTTTCTT-TGAGCCTCTGCTTCTCTCGATGCTGCCTTCATTTTAA
1 TAGCTGGAGTTCATCATATTTTCTTGT-AGCCTCTGCTTCTCTCGATGCGGCCTCCACTTTAA
15936924 GCTGAGCAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 53 0.98
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.43
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTCTTGTAGCCTCTGCTTCTCTCGATGCGGCCTCCACTTTAATTT
G
Found at i:15950008 original size:79 final size:81
Alignment explanation
Indices: 15949897--15950081 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
15949887 GCTCCTCGTT
* *
15949897 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
15949961 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
15949977 CAAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
15950040 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
15950057 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15950082 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 4 0.04
79 54 0.60
80 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:15950081 original size:40 final size:40
Alignment explanation
Indices: 15949897--15950081 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
15949887 GCTCCTCGTT
* *
15949897 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
15949937 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
15949977 CAAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
15950016 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
15950057 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15950082 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:15951284 original size:46 final size:46
Alignment explanation
Indices: 15951217--15951311 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
15951207 AAAATGTTCG
15951217 TTGGCATTCTTGAAATACGAGAGTTCGTAGTACTTGTCGAGCGAGC
1 TTGGCATTCTTGAAATACGAGAGTTCGTAGTACTTGTCGAGCGAGC
* *
15951263 TTGGCGTTCTTGAAATACGAGAGTTTGTAGTACTTGTCGAGCGAGC
1 TTGGCATTCTTGAAATACGAGAGTTCGTAGTACTTGTCGAGCGAGC
15951309 TTG
1 TTG
15951312 TAAAGCCGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (46 bp):
TTGGCATTCTTGAAATACGAGAGTTCGTAGTACTTGTCGAGCGAGC
Found at i:15951298 original size:24 final size:24
Alignment explanation
Indices: 15951225--15951298 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
15951215 CGTTGGCATT
*
15951225 CTTGAAATACGAGAGTTCGTAGTA
1 CTTGAAATACGAGAGTTTGTAGTA
* ** *
15951249 CTTG---T-CGAGCGAGCTTGGCGTT
1 CTTGAAATACGA--GAGTTTGTAGTA
15951271 CTTGAAATACGAGAGTTTGTAGTA
1 CTTGAAATACGAGAGTTTGTAGTA
15951295 CTTG
1 CTTG
15951299 TCGAGCGAGC
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
20 3 0.09
21 1 0.03
22 11 0.31
24 16 0.46
25 1 0.03
26 3 0.09
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (24 bp):
CTTGAAATACGAGAGTTTGTAGTA
Found at i:15954290 original size:58 final size:58
Alignment explanation
Indices: 15954220--15954335 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
15954210 CTGACTAAGT
**
15954220 CGGCTCACTTTATCCCCGTGCGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTA
1 CGGCTCACTTTATCCCCGTGCGTACGGATTTTTCATTGGATAAACTAGCCAAATTGTA
15954278 CGGCTCACTTTATCCCCGTGCGTACGGATTTTTCATTGGATAAACTAGCCAAATTGTA
1 CGGCTCACTTTATCCCCGTGCGTACGGATTTTTCATTGGATAAACTAGCCAAATTGTA
15954336 TGTTTCTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (58 bp):
CGGCTCACTTTATCCCCGTGCGTACGGATTTTTCATTGGATAAACTAGCCAAATTGTA
Found at i:15956178 original size:40 final size:40
Alignment explanation
Indices: 15956123--15956351 Score: 377
Period size: 40 Copynumber: 5.7 Consensus size: 40
15956113 TGAGCATTGG
15956123 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
15956163 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
15956203 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
15956243 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
15956283 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
15956323 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
15956352 ATGTGTTTGC
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:15967674 original size:40 final size:41
Alignment explanation
Indices: 15967614--15967737 Score: 148
Period size: 40 Copynumber: 3.1 Consensus size: 41
15967604 CAGAATTTAT
* * * *
15967614 CCGGATATAACCACAAGCACAAATTCCCTT-GGGTCTTAGC
1 CCGGATAAAATCACTAGCACAAATTGCCTTCGGGTCTTAGC
* *
15967654 CCGGAT-ATATCAACTCGCACAAA-TGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATTGCCTTCGGGTCTTAGC
*
15967694 CCGGATAAAATCACTAGCAC-AATTGCCTTCGGGTCTTATC
1 CCGGATAAAATCACTAGCACAAATTGCCTTCGGGTCTTAGC
15967734 CCGG
1 CCGG
15967738 GTATCATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 9 0.13
40 58 0.82
41 4 0.06
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (41 bp):
CCGGATAAAATCACTAGCACAAATTGCCTTCGGGTCTTAGC
Found at i:15978414 original size:42 final size:42
Alignment explanation
Indices: 15978368--15978458 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
15978358 AGTGAGGTCG
15978368 TGTAACTCTCAAAATAGCCACACACGCCCGTGTGCCAGGCCA
1 TGTAACTCTCAAAATAGCCACACACGCCCGTGTGCCAGGCCA
* * * *
15978410 TGTAACTCTCGAAATAGCCACGCACGCCTGTGTGCCAGGCCG
1 TGTAACTCTCAAAATAGCCACACACGCCCGTGTGCCAGGCCA
15978452 TGTAACT
1 TGTAACT
15978459 GCCTAACTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.20
Consensus pattern (42 bp):
TGTAACTCTCAAAATAGCCACACACGCCCGTGTGCCAGGCCA
Found at i:15982260 original size:25 final size:25
Alignment explanation
Indices: 15982189--15982261 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
15982179 TCATCCCAAG
*
15982189 TTTACCCCAATAAAATTTTTGAAAAT
1 TTTACCCCAGTAAAA-TTTTGAAAAT
* **
15982215 TTTACCCCCGATAAAATTTTGACGAT
1 TTTACCCCAG-TAAAATTTTGAAAAT
*
15982241 TTTACCTCAGTAAAATTTTGA
1 TTTACCCCAGTAAAATTTTGA
15982262 GAAAATTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.28
26 24 0.60
27 5 0.12
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (25 bp):
TTTACCCCAGTAAAATTTTGAAAAT
Found at i:15984541 original size:30 final size:30
Alignment explanation
Indices: 15984500--15984557 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15984490 CACGGGCTGG
* *
15984500 CACATGGGCATGTGTCTAGCTCGTGTGGCA
1 CACAAGGGCATGTGTCCAGCTCGTGTGGCA
*
15984530 CACAAGGGCATGTGTCCAGCTTGTGTGG
1 CACAAGGGCATGTGTCCAGCTCGTGTGG
15984558 AAATGCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.26
Consensus pattern (30 bp):
CACAAGGGCATGTGTCCAGCTCGTGTGGCA
Found at i:15985943 original size:16 final size:16
Alignment explanation
Indices: 15985900--15985945 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
15985890 TAATTAATAG
15985900 ATTAAATAAATAAAAT
1 ATTAAATAAATAAAAT
* *
15985916 AATAAGAT-AATAAACT
1 ATTAA-ATAAATAAAAT
15985932 ATTAAATAAATAAA
1 ATTAAATAAATAAA
15985946 TGAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
ATTAAATAAATAAAAT
Found at i:15988565 original size:56 final size:56
Alignment explanation
Indices: 15988496--15988608 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
15988486 ATAATTACAC
15988496 TCTTTCCCAAAAGCTC-AGAAATTAAACTTCATCCCATATTCTTATGTTTTATAACA
1 TCTTTCCCAAAAGCTCGA-AAATTAAACTTCATCCCATATTCTTATGTTTTATAACA
*
15988552 TCTTTCCCCAAAGCTCGAAAATTAAACTTCATCCCATATTCTTATGTTTTATAACA
1 TCTTTCCCAAAAGCTCGAAAATTAAACTTCATCCCATATTCTTATGTTTTATAACA
15988608 T
1 T
15988609 GCTGAACATT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 54 0.98
57 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (56 bp):
TCTTTCCCAAAAGCTCGAAAATTAAACTTCATCCCATATTCTTATGTTTTATAACA
Found at i:15989493 original size:18 final size:16
Alignment explanation
Indices: 15989456--15989500 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
15989446 TCTAAGAACA
15989456 TAAAAAT-AAAACAAC
1 TAAAAATAAAAACAAC
15989471 TAAAAATAAAAACCAAGC
1 TAAAAATAAAAA-CAA-C
*
15989489 TAAAACTAAAAA
1 TAAAAATAAAAA
15989501 GAAAACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
17 3 0.12
18 12 0.46
ACGTcount: A:0.71, C:0.13, G:0.02, T:0.13
Consensus pattern (16 bp):
TAAAAATAAAAACAAC
Found at i:15991911 original size:12 final size:13
Alignment explanation
Indices: 15991885--15991917 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15991875 TCGGATAGGC
15991885 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
15991898 CCGTGTGT-CAGG
1 CCGTGTGTCCAGG
*
15991910 CCATGTGT
1 CCGTGTGT
15991918 GATTTCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.09, C:0.27, G:0.36, T:0.27
Consensus pattern (13 bp):
CCGTGTGTCCAGG
Found at i:15996674 original size:42 final size:41
Alignment explanation
Indices: 15996622--15996721 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 41
15996612 ACTCTCGGTA
15996622 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCC-ATTATTCAACATCATCATTTTAATT
*
15996664 TCGCACACTTAGTGTCCATTATTCAACATCATCATTTTAGTT
1 TCGCACACTTAGTG-CCATTATTCAACATCATCATTTTAATT
*
15996706 TCGTACACTTAGTGCC
1 TCGCACACTTAGTGCC
15996722 GTTCATATAG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTATTCAACATCATCATTTTAATT
Found at i:16006182 original size:38 final size:39
Alignment explanation
Indices: 16006135--16006208 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
16006125 TTCTTTTCTG
*
16006135 CCCTATGTTTATTTTC-TTTTCTTTTCTACCGATTTGCT
1 CCCTATGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
* * *
16006173 CCCTTTGTTTCTTCTCATTTTCTTTTCTGCCGATTT
1 CCCTATGTTTATTCTCATTTTCTTTTCTACCGATTT
16006209 CCGAGTTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 13 0.42
39 18 0.58
ACGTcount: A:0.08, C:0.26, G:0.08, T:0.58
Consensus pattern (39 bp):
CCCTATGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
Found at i:16007498 original size:7 final size:7
Alignment explanation
Indices: 16007486--16007519 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
16007476 ATTGTTGATA
16007486 CTGTTGT
1 CTGTTGT
16007493 CTGTTGT
1 CTGTTGT
16007500 CTGTTGT
1 CTGTTGT
16007507 CTGTTGT
1 CTGTTGT
*
16007514 TTGTTG
1 CTGTTG
16007520 ATGTGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.29, T:0.59
Consensus pattern (7 bp):
CTGTTGT
Found at i:16013150 original size:16 final size:16
Alignment explanation
Indices: 16013129--16013170 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16013119 TTATTAAATT
*
16013129 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16013145 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16013160 AT-TATGTTTAA
1 ATATAT-TTTAA
16013171 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16013155 original size:15 final size:15
Alignment explanation
Indices: 16013120--16013161 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16013110 TTAAGAATTT
*
16013120 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16013134 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16013148 TATTTAATAATAAT
1 TATTTAATTATAAT
16013162 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16013301 original size:18 final size:17
Alignment explanation
Indices: 16013273--16013307 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16013263 ATTATTAAGA
*
16013273 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16013290 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16013308 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16013392 original size:157 final size:157
Alignment explanation
Indices: 16013106--16013420 Score: 594
Period size: 157 Copynumber: 2.0 Consensus size: 157
16013096 NNNNNNNNNN
*
16013106 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
*
16013171 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
16013236 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTATGCTA
16013263 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
16013328 ATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
16013393 ATCATTTACCAAAACAAATTTATGCTA
131 ATAATTTACCAAAACAAATTTATGCTA
16013420 A
1 A
16013421 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTATGCTA
Found at i:16013582 original size:16 final size:16
Alignment explanation
Indices: 16013544--16013588 Score: 76
Period size: 14 Copynumber: 2.9 Consensus size: 16
16013534 ATTTGCTATT
16013544 ACACCTCTAATCCAAC
1 ACACCTCTAATCCAAC
16013560 -C-CCTCTAATCCAAC
1 ACACCTCTAATCCAAC
16013574 ACACCTCTAATCCAA
1 ACACCTCTAATCCAA
16013589 TACAGCGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.48
15 2 0.07
16 12 0.44
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (16 bp):
ACACCTCTAATCCAAC
Found at i:16017711 original size:169 final size:169
Alignment explanation
Indices: 16017426--16017756 Score: 583
Period size: 169 Copynumber: 2.0 Consensus size: 169
16017416 AATAAGACTT
*
16017426 TGTTGAAGCTATAACAAGAAGAAACTCTCAAACAAGAAAAAAGAAGTACAAATTACTATAACGAA
1 TGTTGAAGCTATAACAAGAAGAAACTCTCAAACAAGAAAAAAGAAATACAAATTACTATAACGAA
* *
16017491 TAACAACCCGAATATTATAAATCTTTAATTACAGACACTAGAAATGACCAGGTAAGCTTTAAATC
66 TAACAACCCGAATATTATAAATCTTTAATTACAGAAACTAGAAAGGACCAGGTAAGCTTTAAATC
*
16017556 TGA-CATAAAATCACTAATACAAATCAAATATAAATAAGG
131 T-ACCATAAAATCACTAAGACAAATCAAATATAAATAAGG
* *
16017595 TGTTGAAGCTATAATAAGAAGCAACTCTCAAACAAGAAAAAAGAAATACAAATTACTATAACGAA
1 TGTTGAAGCTATAACAAGAAGAAACTCTCAAACAAGAAAAAAGAAATACAAATTACTATAACGAA
*
16017660 TAACAACCCGAATATTATAAATCTTTAATTACAGAAACTAGAAAGGACCAGGTGAGCTTTAAATC
66 TAACAACCCGAATATTATAAATCTTTAATTACAGAAACTAGAAAGGACCAGGTAAGCTTTAAATC
16017725 TACCATAAAATCACTAAGACAAATCAAATATA
131 TACCATAAAATCACTAAGACAAATCAAATATA
16017757 TATACATGTA
Statistics
Matches: 154, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
168 1 0.01
169 153 0.99
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (169 bp):
TGTTGAAGCTATAACAAGAAGAAACTCTCAAACAAGAAAAAAGAAATACAAATTACTATAACGAA
TAACAACCCGAATATTATAAATCTTTAATTACAGAAACTAGAAAGGACCAGGTAAGCTTTAAATC
TACCATAAAATCACTAAGACAAATCAAATATAAATAAGG
Found at i:16018633 original size:41 final size:40
Alignment explanation
Indices: 16018588--16018680 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
16018578 AGCGGCATTT
*
16018588 TTAGCGGCGTTTGTAT-AAAAACCGCCGCTAAAAATTGAGCA
1 TTAGCGGCGTTT-TATGAAAAA-CGCCGCTAAAAATCGAGCA
* * * *
16018629 TTAGCGGCGCTTTATGTAAAACGCTGCTAAAGATCGAGCA
1 TTAGCGGCGTTTTATGAAAAACGCCGCTAAAAATCGAGCA
*
16018669 TTCGCGGCGTTT
1 TTAGCGGCGTTT
16018681 CAAAAAAAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 29 0.66
41 15 0.34
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGTTTTATGAAAAACGCCGCTAAAAATCGAGCA
Found at i:16018844 original size:41 final size:41
Alignment explanation
Indices: 16018776--16019095 Score: 279
Period size: 41 Copynumber: 7.8 Consensus size: 41
16018766 CCTTTCGAGG
* *
16018776 CTTTAG-GGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTCGGGT
* ** **
16018816 CTTTAGCGGTGCTTTTCCCAAAA-CGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGCTTTT-AAAAAAGCGCCGCTAATGCTCGGGT
* * **
16018857 CTTCAGCGGCGCTTCTAAAAAAATGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTCGGGT
* * * * **
16018898 CTTTCGCGGCGATTTTGAAAAAGTGCCGCTAATGCTAAGGT
1 CTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTCGGGT
** * *
16018939 CTTTAGCGGCGCTTTTCCCAAAA-CGCCACTAATGCTCTGGT
1 CTTTAGCGGCGCTTTT-AAAAAAGCGCCGCTAATGCTCGGGT
* * * * *
16018980 CTTCAGCAGCGCTTCTAAAAAAGCACCACTAATGCTCGGGT
1 CTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTCGGGT
* * * *
16019021 CCTTAGCGACGCTTTGT-CAAAATCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGCTTT-TAAAAAAGCGCCGCTAATGCTCGGGT
* * *
16019062 CTTTAGCGGCGCTTTTTCAAAAAGCACCACTAAT
1 CTTTAGCGGCGC-TTTTAAAAAAGCGCCGCTAAT
16019096 CCCAAATTGA
Statistics
Matches: 220, Mismatches: 52, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
40 14 0.06
41 182 0.83
42 24 0.11
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTCGGGT
Found at i:16019012 original size:123 final size:122
Alignment explanation
Indices: 16018778--16019095 Score: 406
Period size: 123 Copynumber: 2.6 Consensus size: 122
16018768 TTTCGAGGCT
* *
16018778 TTAG-GGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGTCTTTAGCGGTGCTTTTCCCAAAACGC
1 TTAGCGGCG-TTTTGAAAAAGTGCCGCTAATGCTCGGGTCTTTAGCGGCGCTTTTCCCAAAACGC
* * * ** * *
16018842 CGCTAATGCTTTGGTCTTCAGCGGCGCTTCTAAAAAAATGCCGCTAATGCTCGGGTCT
65 CACTAATGCTCTGGTCTTCAGCAGCGCTTCTAAAAAAACACCACTAATGCTCGGGTCC
* **
16018900 TTCGCGGCGATTTTGAAAAAGTGCCGCTAATGCTAAGGTCTTTAGCGGCGCTTTTCCCAAAACGC
1 TTAGCGGCG-TTTTGAAAAAGTGCCGCTAATGCTCGGGTCTTTAGCGGCGCTTTTCCCAAAACGC
*
16018965 CACTAATGCTCTGGTCTTCAGCAGCGCTTCTAAAAAAGCACCACTAATGCTCGGGTCC
65 CACTAATGCTCTGGTCTTCAGCAGCGCTTCTAAAAAAACACCACTAATGCTCGGGTCC
* * * * *
16019023 TTAGCGACGCTTTGTCAAAA-TCGCCGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAAGC
1 TTAGCGGCGTTTTG-AAAAAGT-GCCGCTAATGCTCGGGTCTTTAGCGGCGCTTTTCCCAAAA-C
*
16019087 ACCACTAAT
63 GCCACTAAT
16019096 CCCAAATTGA
Statistics
Matches: 169, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
122 8 0.05
123 152 0.90
124 9 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (122 bp):
TTAGCGGCGTTTTGAAAAAGTGCCGCTAATGCTCGGGTCTTTAGCGGCGCTTTTCCCAAAACGCC
ACTAATGCTCTGGTCTTCAGCAGCGCTTCTAAAAAAACACCACTAATGCTCGGGTCC
Found at i:16024004 original size:23 final size:22
Alignment explanation
Indices: 16023978--16024317 Score: 167
Period size: 23 Copynumber: 14.9 Consensus size: 22
16023968 AAATGTTGTT
16023978 AATTGATATGTTTAAGTGCTGCA
1 AATTGA-ATGTTTAAGTGCTGCA
* * *
16024001 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAA-TGTTTAAGTGCTGCA
16024024 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAA-TGTTTAAGTGCTGCA
* *
16024047 AATTGAA-GTATTTAGTTGCTGGA
1 AATTGAATGT-TTAAG-TGCTGCA
* *
16024070 AATTGAGATGTTTTA-TCGCTG-T
1 AATTGA-ATGTTTAAGT-GCTGCA
* * * * **
16024092 AATTGAGGTGTATAAATGTTGTT
1 AATTGA-ATGTTTAAGTGCTGCA
16024115 AATTGATATGTTTAAGTGCTGCA
1 AATTGA-ATGTTTAAGTGCTGCA
* * *
16024138 AATTTAAGTGTTTAAATGCTGCG
1 AATTGAA-TGTTTAAGTGCTGCA
*
16024161 AATTGAAGTGTTT-AGTTGCTGGA
1 AATTGAA-TGTTTAAG-TGCTGCA
* *
16024184 AATTGAGATGTTTTA-TCGCTG-T
1 AATTGA-ATGTTTAAGT-GCTGCA
* * * *
16024206 AATTGAGGTGTATAAATGTTG-A
1 AATTGA-ATGTTTAAGTGCTGCA
*
16024228 TAATTGATATGTTTAAGTGCTGTA
1 -AATTGA-ATGTTTAAGTGCTGCA
*
16024252 AATTGAAGTGTTT-AGTTGCTACA
1 AATTGAA-TGTTTAAG-TGCTGCA
* *
16024275 AATTGAGATGTTTTA-TCGCTGTA
1 AATTGA-ATGTTTAAGT-GCTGCA
*
16024298 AATTGAAGTGTTAAAGTGCT
1 AATTGAA-TGTTTAAGTGCT
16024318 ACTTTCTATT
Statistics
Matches: 250, Mismatches: 44, Indels: 46
0.74 0.13 0.14
Matches are distributed among these distances:
21 2 0.01
22 44 0.18
23 191 0.76
24 11 0.04
25 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.41
Consensus pattern (22 bp):
AATTGAATGTTTAAGTGCTGCA
Found at i:16024129 original size:114 final size:114
Alignment explanation
Indices: 16024009--16024280 Score: 456
Period size: 114 Copynumber: 2.4 Consensus size: 114
16023999 CAAATTTAAG
*
16024009 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATT
1 TGTTTAAGTGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATT
*
16024074 GAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATA
66 GAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGATAATTGATA
* * * * *
16024123 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCGAATTGAAGTGTTTAGTTGCTGGAAATT
1 TGTTTAAGTGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATT
16024188 GAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGATAATTGATA
66 GAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGATAATTGATA
*
16024237 TGTTTAAGTGCTGTAAATTGAAGTGTTT-AGTTGCTACAAATTGA
1 TGTTTAAGTGCTGTAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
16024281 GATGTTTTAT
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 1 0.01
114 144 0.99
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (114 bp):
TGTTTAAGTGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATT
GAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGATAATTGATA
Found at i:16024147 original size:137 final size:136
Alignment explanation
Indices: 16023900--16024189 Score: 526
Period size: 137 Copynumber: 2.1 Consensus size: 136
16023890 CGAAATTTGA
*
16023900 TAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGTGGTG
1 TAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
*
16023965 TATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGA
66 TATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGA
16024030 AGTGTT
131 AGTGTT
16024036 TAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGT
1 T-AGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGT
*
16024101 GTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCGAATTG
65 GTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTG
16024166 AAGTGTT
130 AAGTGTT
*
16024173 TAGTTGCTGGAAATTGA
1 TAG-TGCTGCAAATTGA
16024190 GATGTTTTAT
Statistics
Matches: 148, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
136 3 0.02
137 145 0.98
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (136 bp):
TAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
TATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGA
AGTGTT
Found at i:16024165 original size:46 final size:45
Alignment explanation
Indices: 16023901--16024317 Score: 225
Period size: 46 Copynumber: 9.1 Consensus size: 45
16023891 GAAATTTGAT
* ** *
16023901 AGTGCTGCAAATTGAAGTATTTAGTTGCTG-GAAATTGAGATGTTTT
1 AGTGCTGCAAATTGAAGTGTTTAAATGCTGTG-AATTGA-ATGTTTA
* ** * * *
16023947 A-TCGCTG-TAATTGTGGTGTATAAATGTTGTTAATTGATATGTTTA
1 AGT-GCTGCAAATTGAAGTGTTTAAATGCTGTGAATTGA-ATGTTTA
* *
16023992 AGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTAAATGCTGTGAATTGAA-TGTTTA
* ** *
16024038 AGTGCTGCAAATTGAAGTATTTAGTTGCTG-GAAATTGAGATGTTTT
1 AGTGCTGCAAATTGAAGTGTTTAAATGCTGTG-AATTGA-ATGTTTA
* * * * *
16024084 A-TCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
1 AGT-GCTGCAAATTGAAGTGTTTAAATGCTGTGAATTGA-ATGTTTA
* *
16024129 AGTGCTGCAAATTTAAGTGTTTAAATGCTGCGAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTAAATGCTGTGAATTGAA-TGTTTA
* * * *
16024174 AGTTGCTGGAAATTG-AGATGTTT-TATCGCTGT-AATTGAGGTGTATA
1 AG-TGCTGCAAATTGAAG-TGTTTAAAT-GCTGTGAATTGA-ATGTTTA
* * * *
16024220 AATGTTG-ATAATTGATA-TGTTTAAGTGCTGTAAATTGAAGTGTTT-
1 AGTGCTGCA-AATTGA-AGTGTTTAAATGCTGTGAATTGAA-TGTTTA
* * * *
16024265 AGTTGCTACAAATTG-AGATGTTT-TATCGCTGTAAATTGAAGTGTTAA
1 AG-TGCTGCAAATTGAAG-TGTTTAAAT-GCTGTGAATTGAA-TGTTTA
16024312 AGTGCT
1 AGTGCT
16024318 ACTTTCTATT
Statistics
Matches: 283, Mismatches: 59, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
44 2 0.01
45 104 0.37
46 172 0.61
47 5 0.02
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (45 bp):
AGTGCTGCAAATTGAAGTGTTTAAATGCTGTGAATTGAATGTTTA
Found at i:16024209 original size:91 final size:90
Alignment explanation
Indices: 16024114--16024317 Score: 241
Period size: 91 Copynumber: 2.2 Consensus size: 90
16024104 TAAATGTTGT
* *
16024114 TAATTGATATGTTTAAGTGCTGCA-AATTTA-AGTGTTTAAATGCTGCGAATTGAAGTGTTTAGT
1 TAATTGA-ATGTTTAAGTGCTG-ATAATTGATA-TGTTTAAATGCTGCAAATTGAAGTGTTTAGT
**
16024177 TGCTGGAAATTGAGATGTTTTATCGCTG
63 TGCTACAAATTGAGATGTTTTATCGCTG
* * * * * *
16024205 TAATTGAGGTGTATAAATGTTGATAATTGATATGTTTAAGTGCTGTAAATTGAAGTGTTTAGTTG
1 TAATTGA-ATGTTTAAGTGCTGATAATTGATATGTTTAAATGCTGCAAATTGAAGTGTTTAGTTG
16024270 CTACAAATTGAGATGTTTTATCGCTG
65 CTACAAATTGAGATGTTTTATCGCTG
*
16024296 TAAATTGAAGTGTTAAAGTGCT
1 T-AATTGAA-TGTTTAAGTGCT
16024318 ACTTTCTATT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
90 1 0.01
91 77 0.83
92 15 0.16
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (90 bp):
TAATTGAATGTTTAAGTGCTGATAATTGATATGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGC
TACAAATTGAGATGTTTTATCGCTG
Found at i:16024232 original size:137 final size:137
Alignment explanation
Indices: 16023901--16024317 Score: 474
Period size: 137 Copynumber: 3.0 Consensus size: 137
16023891 GAAATTTGAT
* ** *
16023901 AGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGTGGTGT
1 AGTGCTGCAAATTGAAGTATTTAGTCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGAGGTGT
*
16023966 ATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAA
66 ATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAA
16024031 GTGTTTA
131 GTGTTTA
* **
16024038 AGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGT
1 AGTGCTGCAAATTGAAGTATTTAGTCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGAGGTGT
*
16024103 ATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCGAATTGAA
66 ATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAA
16024168 GTGTTT-
131 GTGTTTA
* * * *
16024174 AGTTGCTGGAAATTGAGATGT-TTTA-TCGCT-GTAATTGAGGTGTATAAAT-GTTGATAATTGA
1 AG-TGCTGCAAATTGA-A-GTATTTAGTCGCTGGAAATTGAGATGT-TAAATCGCTG-TAATTGA
** * * * * * * *
16024235 TATGTTTAAGTGCTGTAAATTGA-AGTGTTT-AGTTGCTACAAA-TTGAGATGTTT-TATCGCTG
61 GGTGTATAAATGTTGTTAATTGATA-TGTTTAAG-TGCTGCAAATTTAAG-TGTTTAAAT-GCTG
* *
16024296 TAAATTGAAGTGTTAA
122 CAAATTGAAGTGTTTA
16024312 AGTGCT
1 AGTGCT
16024318 ACTTTCTATT
Statistics
Matches: 248, Mismatches: 22, Indels: 20
0.86 0.08 0.07
Matches are distributed among these distances:
136 25 0.10
137 214 0.86
138 7 0.03
139 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (137 bp):
AGTGCTGCAAATTGAAGTATTTAGTCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGAGGTGT
ATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAA
GTGTTTA
Found at i:16025296 original size:42 final size:43
Alignment explanation
Indices: 16025221--16025306 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
16025211 TTTTCGTGAC
* **
16025221 CTTTAGTGGCGTTTTTGGATAAAGCGCTGCTAAAGGTCCTGGT
1 CTTTAGTGGCGTTTTTGGAGAAAGCGCCACTAAAGGTCCTGGT
*
16025264 CTTTAGTGGCG-TTTTGGGGAAAGCGCCACTAAAGGTCCTGGT
1 CTTTAGTGGCGTTTTTGGAGAAAGCGCCACTAAAGGTCCTGGT
16025306 C
1 C
16025307 ACTCGCGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 28 0.72
43 11 0.28
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (43 bp):
CTTTAGTGGCGTTTTTGGAGAAAGCGCCACTAAAGGTCCTGGT
Found at i:16025403 original size:43 final size:43
Alignment explanation
Indices: 16025342--16025450 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
16025332 CCGCTGAAGG
* *
16025342 TTGTTGGAAAAGCGCCGCTAAAGGTCTTGGTTTTTAGCAGCAT
1 TTGTTGGAAAAGCGCCGCTAAAGGTCCTAGTTTTTAGCAGCAT
* * *
16025385 TTGTTGGCAAAGCGCCGCTAAAGGTCCTAGTTTTTAGCGGCGT
1 TTGTTGGAAAAGCGCCGCTAAAGGTCCTAGTTTTTAGCAGCAT
* *
16025428 TTGTGGGTAAAGCGCCGCTAAAG
1 TTGTTGGAAAAGCGCCGCTAAAG
16025451 TTAGCGACGC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
TTGTTGGAAAAGCGCCGCTAAAGGTCCTAGTTTTTAGCAGCAT
Found at i:16040783 original size:26 final size:27
Alignment explanation
Indices: 16040754--16040823 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 27
16040744 ATATTCAGGG
*
16040754 TGCTAACACTAGCTTCAGAT-CAAGGT
1 TGCTAACACTAGCTTCAGATACAAGGC
* * *
16040780 TGCTATCACTAGCTT-AG-TACGATGC
1 TGCTAACACTAGCTTCAGATACAAGGC
16040805 TGCTAACACTAGCTTCAGA
1 TGCTAACACTAGCTTCAGA
16040824 GAATCTACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 19 0.53
26 16 0.44
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (27 bp):
TGCTAACACTAGCTTCAGATACAAGGC
Found at i:16040862 original size:158 final size:158
Alignment explanation
Indices: 16040598--16040885 Score: 368
Period size: 158 Copynumber: 1.8 Consensus size: 158
16040588 TATTGAGCTA
* * * *
16040598 CTAACACTAGCTTCGGATCAGGTTTGCTAACACTAGCTAGGTTCAATGGTGTTCAAACTAGCTTC
1 CTAACACTAGCTTCAGATCAGGTTTGCTAACACTAGCTAGGTACAATGCTGCTCAAACTAGCTTC
* ** * *
16040663 AGAGAATCCGCAACATATGTTGGATCTCAAGTCATCAAATTAATCCCCGATCACAACACCCATTT
66 AGAGAATCCACAACATACATTGAATCTCAAGTCATCAAATTAATCACCGATCACAACACCCATTT
16040728 GTTTATACAAGCTGACATATTCAGGGTG
131 GTTTATACAAGCTGACATATTCAGGGTG
* *
16040756 CTAACACTAGCTTCAGATCAAGG-TTGCTATCACTAGCTTA-GTACGATGCTGCT-AACACTAGC
1 CTAACACTAGCTTCAGATC-AGGTTTGCTAACACTAGC-TAGGTACAATGCTGCTCAA-ACTAGC
* * * * *
16040818 TTCAGAGAATCTACAACATACATTGAATCTTAA-TCCATCGAATTAATCACTGATCACAACACCT
63 TTCAGAGAATCCACAACATACATTGAATCTCAAGT-CATCAAATTAATCACCGATCACAACACCC
16040882 ATTT
127 ATTT
16040886 TATTTTTAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
157 3 0.03
158 102 0.93
159 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (158 bp):
CTAACACTAGCTTCAGATCAGGTTTGCTAACACTAGCTAGGTACAATGCTGCTCAAACTAGCTTC
AGAGAATCCACAACATACATTGAATCTCAAGTCATCAAATTAATCACCGATCACAACACCCATTT
GTTTATACAAGCTGACATATTCAGGGTG
Found at i:16041123 original size:9 final size:10
Alignment explanation
Indices: 16041098--16041135 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
16041088 AGTTTAATTT
**
16041098 ATAATTAATT
1 ATAATTAACC
16041108 ATAATTAACC
1 ATAATTAACC
16041118 -TAATTAACC
1 ATAATTAACC
16041127 ATAATTAAC
1 ATAATTAAC
16041136 TAACCTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAATTAACC
Found at i:16045010 original size:42 final size:42
Alignment explanation
Indices: 16044950--16045053 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
16044940 CAAAAACGCT
* * *
16044950 GCTAAAGAACATGATCTTTAGTGGCGATTT-TTATTAAGCGCC
1 GCTAAAGAACATGTTCTTTAGTGGCG-TTTGTGAATAAGCGCC
* ** *
16044992 GCTAAAGATCATGTTCTTTAGTGGCGTTTGTGAATATTCGTC
1 GCTAAAGAACATGTTCTTTAGTGGCGTTTGTGAATAAGCGCC
16045034 GCTAAAGAACATGTTCTTTA
1 GCTAAAGAACATGTTCTTTA
16045054 ACGGTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 3 0.06
42 50 0.94
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (42 bp):
GCTAAAGAACATGTTCTTTAGTGGCGTTTGTGAATAAGCGCC
Found at i:16052494 original size:14 final size:14
Alignment explanation
Indices: 16052487--16052536 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
16052477 TAAACTTTTT
*
16052487 ACCCTAAACTCTTA
1 ACCCTAAACCCTTA
*
16052501 ACCCTTAACCCTTA
1 ACCCTAAACCCTTA
*
16052515 ACCCTAAACCTTTA
1 ACCCTAAACCCTTA
16052529 ACCCTAAA
1 ACCCTAAA
16052537 TTGACATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (14 bp):
ACCCTAAACCCTTA
Found at i:16052509 original size:7 final size:7
Alignment explanation
Indices: 16052487--16052533 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
16052477 TAAACTTTTT
*
16052487 ACCCTAA
1 ACCCTTA
*
16052494 ACTCTTA
1 ACCCTTA
16052501 ACCCTTA
1 ACCCTTA
16052508 ACCCTTA
1 ACCCTTA
*
16052515 ACCCTAA
1 ACCCTTA
*
16052522 ACCTTTA
1 ACCCTTA
16052529 ACCCT
1 ACCCT
16052534 AAATTGACAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (7 bp):
ACCCTTA
Found at i:16052587 original size:15 final size:14
Alignment explanation
Indices: 16052558--16052596 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
16052548 CCTCTTATCC
*
16052558 CTTAAACCCTAAAT
1 CTTAAACCATAAAT
16052572 CTTAAACCTATAAAT
1 CTTAAACC-ATAAAT
*
16052587 CATAAACCAT
1 CTTAAACCAT
16052597 GACCCTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (14 bp):
CTTAAACCATAAAT
Found at i:16052608 original size:7 final size:7
Alignment explanation
Indices: 16052598--16052649 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
16052588 ATAAACCATG
*
16052598 ACCCTTA
1 ACCCCTA
16052605 ACCCCTA
1 ACCCCTA
16052612 ACCCCTA
1 ACCCCTA
16052619 ACCCCTA
1 ACCCCTA
*
16052626 ACACCT-
1 ACCCCTA
16052632 ACACCCTA
1 AC-CCCTA
16052640 AGCCCC-A
1 A-CCCCTA
16052647 ACC
1 ACC
16052650 TCAAATGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 4 0.10
7 30 0.77
8 4 0.10
9 1 0.03
ACGTcount: A:0.31, C:0.54, G:0.02, T:0.13
Consensus pattern (7 bp):
ACCCCTA
Found at i:16052771 original size:21 final size:22
Alignment explanation
Indices: 16052732--16052777 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16052722 AACTATAAAC
* *
16052732 CCCTAAACCCCTAACCCTTA-A
1 CCCTAAACACCTAAACCTTAGA
*
16052753 CCCTAAACACTTAAACCTTAGA
1 CCCTAAACACCTAAACCTTAGA
16052775 CCC
1 CCC
16052778 CAACTATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.35, C:0.43, G:0.02, T:0.20
Consensus pattern (22 bp):
CCCTAAACACCTAAACCTTAGA
Found at i:16052853 original size:25 final size:25
Alignment explanation
Indices: 16052825--16052879 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
16052815 CCATATTCCT
*
16052825 TAAACCCTGAATCATAAAACATATA
1 TAAACCCTAAATCATAAAACATATA
*
16052850 TAAACCCTAAATCATAAAACATTTA
1 TAAACCCTAAATCATAAAACATATA
16052875 TAAAC
1 TAAAC
16052880 TATAAACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.25
Consensus pattern (25 bp):
TAAACCCTAAATCATAAAACATATA
Found at i:16052892 original size:25 final size:25
Alignment explanation
Indices: 16052837--16052892 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
16052827 AACCCTGAAT
* *
16052837 CATAAAACATATATAAACCCTAAAT
1 CATAAAACATATATAAACCATAAAC
* *
16052862 CATAAAACATTTATAAACTATAAAC
1 CATAAAACATATATAAACCATAAAC
*
16052887 CTTAAA
1 CATAAA
16052893 CCTCAACCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (25 bp):
CATAAAACATATATAAACCATAAAC
Found at i:16053510 original size:114 final size:114
Alignment explanation
Indices: 16053294--16053510 Score: 283
Period size: 114 Copynumber: 1.9 Consensus size: 114
16053284 TAAGATCTTC
* ** * * *
16053294 GCGGCATTTTCGCGTAAGCGCCACTAATTCTAGTATACATCAAGACTAAACTCTGCGTTTTGGTT
1 GCGGCATTTTCCCGTAAGCGCCACTAACGCTAGTATACATAAAGACTAAACGCTGCATTTTGGTT
* * * * *
16053359 AAGATACTTTGCGGCGCTTTTCACTAAACGCCGCTAATACTATGCTTTA
66 AAGATACTTTACGGCGCTTTCCAATAAACACCACTAATACTATGCTTTA
* *
16053408 GCGGCA-TTTCCCTTAAGCGCCACTAACGCTATTATACATAAAGACTAACACGCTGCATTTTGGT
1 GCGGCATTTTCCCGTAAGCGCCACTAACGCTAGTATACATAAAGACTAA-ACGCTGCATTTTGGT
* *
16053472 TAAGATATTTTACGGCGCTTTCCAATAAGCACCACTAAT
65 TAAGATACTTTACGGCGCTTTCCAATAAACACCACTAAT
16053511 TCTAGTGTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
113 36 0.41
114 51 0.59
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (114 bp):
GCGGCATTTTCCCGTAAGCGCCACTAACGCTAGTATACATAAAGACTAAACGCTGCATTTTGGTT
AAGATACTTTACGGCGCTTTCCAATAAACACCACTAATACTATGCTTTA
Found at i:16053548 original size:189 final size:189
Alignment explanation
Indices: 16053308--16053682 Score: 486
Period size: 189 Copynumber: 2.0 Consensus size: 189
16053298 CATTTTCGCG
* * * *
16053308 TAAGCGCCACTAATTCTAGTATACATCAAGACTAAACTCTGCGTTTTGGTTAAGATACT-TTGCG
1 TAAGCACCACTAATTCTAGTATACATCAAGACCAAACTCTGCGTATTGGTTAAGATA-TGTTGCA
* * * *
16053372 GCGCTTTTCACTA-AACGCCGCTAATACTATGCTTTAGCGGC-ATTTCCCTTAAGCGCCACTAAC
65 ACACTTTTCAC-AGAACGCCGCTAATACTATACTTTAGCGGCGATTTCCCGTAAGCGCCACTAAC
* *
16053435 GCTATTATACATAAAGACTAACACGCTGCATTTTGGTTAAGATATTTTACGGCGCTTTCCAA
129 GCTAGTATACATAAAGACTAAAACGCTGCATTTTGGTTAAGATATTTTACGGCG-TTTCCAA
* *
16053497 TAAGCACCACTAATTCTAGTGTACCTCAAGACCAAACTCTGCGTATTGGTTAAGATATGTTGCAA
1 TAAGCACCACTAATTCTAGTATACATCAAGACCAAACTCTGCGTATTGGTTAAGATATGTTGCAA
* * * ** * **
16053562 CACTTTTCACAGCACGCCGCTAATACTATACTTTAGTGGCGTTTTGTCGTCAGCGCCACTAATTC
66 CACTTTTCACAGAACGCCGCTAATACTATACTTTAGCGGCGATTTCCCGTAAGCGCCACTAACGC
* * * *
16053627 TAGTATACATCAAGACTAAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGTTTC
131 TAGTATACATAAAGACTAAAACGCTGCATTTTGGTTAAGATATTTTACGGCGTTTC
16053683 TCACTACACG
Statistics
Matches: 159, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
188 2 0.01
189 94 0.59
190 63 0.40
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (189 bp):
TAAGCACCACTAATTCTAGTATACATCAAGACCAAACTCTGCGTATTGGTTAAGATATGTTGCAA
CACTTTTCACAGAACGCCGCTAATACTATACTTTAGCGGCGATTTCCCGTAAGCGCCACTAACGC
TAGTATACATAAAGACTAAAACGCTGCATTTTGGTTAAGATATTTTACGGCGTTTCCAA
Found at i:16053788 original size:114 final size:115
Alignment explanation
Indices: 16053503--16053909 Score: 416
Period size: 114 Copynumber: 3.6 Consensus size: 115
16053493 CCAATAAGCA
* * * * * * * ** *
16053503 CCACTAATTCTAGTGTACCTCAAGACCAAACTCTGCGTATTGGTTAAGATATGTTGCAACACTTT
1 CCACTAATTCTAGTATACATCAAGACAAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCTTT
* * * * **
16053568 TCA-C-AGCACGCCGCTAATACTATACTTTAGTGGCGTTTTGTCGTCAGCG
66 TCACCTA-CACGCCGCTAATACTATGCTTTAGCGGCGTTTTGTCATAAATG
* *
16053617 CCACTAATTCTAGTATACATCAAGACTAAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG-TT
1 CCACTAATTCTAGTATACATCAAGAC-AAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCTT
* *
16053681 TCTCA-CTACACGCCGCTAAGACTATGCTTTAGCGGTGTTTTGTCATAAATG
65 T-TCACCTACACGCCGCTAATACTATGCTTTAGCGGCGTTTTGTCATAAATG
* * *
16053732 CCAC-AATTCTAATATACATCAAGATCAAAACGATGTGTTTTCGTTAAGAT-TGTTTGCGGCGCT
1 CCACTAATTCTAGTATACATCAAGA-CAAAACGCTGTGTTTTGGTTAAGATAT-TTTGCGGCGCT
* * * ** *
16053795 TTTCACCTA-GCGTCGCTAATACT-TGCTTTAGCGGCGTATTCCCATAATTG
64 TTTCACCTACACGCCGCTAATACTATGCTTTAGCGGCGTTTTGTCATAAATG
* * *
16053845 CCACTAATTCTAGTATAGATCAAGACCAAAACGCTGTGATTTGGTTAAGAGATTTTGCGGCGCTT
1 CCACTAATTCTAGTATACATCAAGA-CAAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCTT
16053910 GAAGGTAAAC
Statistics
Matches: 246, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
113 27 0.11
114 140 0.57
115 78 0.32
116 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (115 bp):
CCACTAATTCTAGTATACATCAAGACAAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCTTT
TCACCTACACGCCGCTAATACTATGCTTTAGCGGCGTTTTGTCATAAATG
Found at i:16055001 original size:18 final size:18
Alignment explanation
Indices: 16054978--16055012 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16054968 TTTATAATAC
*
16054978 TATATATTATGTTATTTT
1 TATATATTATGTAATTTT
16054996 TATATATTATGTAATTT
1 TATATATTATGTAATTT
16055013 AGAACACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:16055501 original size:22 final size:22
Alignment explanation
Indices: 16055473--16055559 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 22
16055463 TATAAGTAAC
16055473 CAAAAGTTGTCACTTAATTAAT
1 CAAAAGTTGTCACTTAATTAAT
*
16055495 CAAAAGTTGTCA-TTATTTATAGT
1 CAAAAGTTGTCACTTAATTA-A-T
* * * *
16055518 GACAAGTTGTCTCTTAA--ATT
1 CAAAAGTTGTCACTTAATTAAT
16055538 CAAAAGTTATGTCACTTAATTA
1 CAAAAG-T-TGTCACTTAATTA
16055560 TTAACCAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
20 5 0.10
21 7 0.14
22 23 0.47
23 10 0.20
24 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (22 bp):
CAAAAGTTGTCACTTAATTAAT
Found at i:16055931 original size:21 final size:21
Alignment explanation
Indices: 16055901--16055943 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16055891 ATAAACAATA
* *
16055901 TAATGGTTTTGCCTTTTAACT
1 TAATGATTTTGACTTTTAACT
16055922 TAATGATTTTGACTTTTAACT
1 TAATGATTTTGACTTTTAACT
16055943 T
1 T
16055944 TAGAAAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATGATTTTGACTTTTAACT
Found at i:16065655 original size:37 final size:37
Alignment explanation
Indices: 16065542--16065660 Score: 123
Period size: 37 Copynumber: 3.2 Consensus size: 37
16065532 TCCCTGTTTG
* *
16065542 GGTGTGTTTTTGGTTGGATTAGCTGTT-CTAAGCAATT
1 GGTGTGTTATTGGGTGGATTAGCTGTTAC-AAGCAATT
** * * * * ** *
16065579 GACGTGTGATCGAGTGGATTAGCTCTTATGAGCATTT
1 GGTGTGTTATTGGGTGGATTAGCTGTTACAAGCAATT
16065616 GGTGTGTTATTGGGTGGATTAGCTGTTACAAGCAATT
1 GGTGTGTTATTGGGTGGATTAGCTGTTACAAGCAATT
16065653 GGTGTGTT
1 GGTGTGTT
16065661 TCAGTTGGAA
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.40
Consensus pattern (37 bp):
GGTGTGTTATTGGGTGGATTAGCTGTTACAAGCAATT
Found at i:16070159 original size:17 final size:18
Alignment explanation
Indices: 16070118--16070166 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
16070108 TCAATATTTT
16070118 TTAAATAACTCTTT-ATGA
1 TTAAA-AACTCTTTAATGA
16070136 TCT-AAAACTCTTTAAT-A
1 T-TAAAAACTCTTTAATGA
*
16070153 TTAAAAACTATTTA
1 TTAAAAACTCTTTA
16070167 GGAATTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.04
17 20 0.74
18 5 0.19
19 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAAAACTCTTTAATGA
Found at i:16081578 original size:64 final size:64
Alignment explanation
Indices: 16081499--16081631 Score: 257
Period size: 64 Copynumber: 2.1 Consensus size: 64
16081489 TATAAAGTGA
*
16081499 TAATCTTAATATAAATAATATATATATATTCATATATACAAGAGGTTGAAATAAACAAAGAATG
1 TAATATTAATATAAATAATATATATATATTCATATATACAAGAGGTTGAAATAAACAAAGAATG
16081563 TAATATTAATATAAATAATATATATATATTCATATATACAAGAGGTTGAAATAAACAAAGAATG
1 TAATATTAATATAAATAATATATATATATTCATATATACAAGAGGTTGAAATAAACAAAGAATG
16081627 TAATA
1 TAATA
16081632 AGATAGGGTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (64 bp):
TAATATTAATATAAATAATATATATATATTCATATATACAAGAGGTTGAAATAAACAAAGAATG
Found at i:16083683 original size:50 final size:49
Alignment explanation
Indices: 16083573--16083905 Score: 175
Period size: 50 Copynumber: 6.7 Consensus size: 49
16083563 AACTTTTGGA
* * ** * *
16083573 AAGTAAGATTCGCCATTGTGGCTTTAATATTTTTTACTGAAATGTCGGGG
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTTTTCCACT-ACATGCCGGGG
* * * *
16083623 AAGCATGATTCGCTATTGTGGCTTTAATCTGTTCCACTACATCGCCTGGG
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTTTTCCACTACAT-GCCGGGG
** * * * ** *
16083673 AAGTAAGATTCATTCTTGTAGCTTTCATCTTTTTAACTACAATGTCGGGG
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTTTTCCACTAC-ATGCCGGGG
* * * * * * * *
16083723 AAGCAAGATTCACCAATGTGGCTTTAATCTATTCCA-TGTCATCACCAGGG
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTTTTCCACT-ACAT-GCCGGGG
** * ** * *
16083773 AAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTTTTCCACTAC-ATGCCGGGG
* * ** * * *
16083823 AAGCAAGATTCACCGTTGTGGCTTTAAT-TTGTTCCATTGCACTGCCTGGG
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTT-TTCCACTACA-TGCCGGGG
* ** * *
16083873 AGGTAAGATTCGCTGCTCTAGCTTTAATCTTTT
1 AAGTAAGATTCGCTATTGTGGCTTTAATCTTTT
16083906 AACTGCAATG
Statistics
Matches: 208, Mismatches: 66, Indels: 18
0.71 0.23 0.06
Matches are distributed among these distances:
49 9 0.04
50 192 0.92
51 7 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (49 bp):
AAGTAAGATTCGCTATTGTGGCTTTAATCTTTTCCACTACATGCCGGGG
Found at i:16083746 original size:100 final size:99
Alignment explanation
Indices: 16083573--16084277 Score: 785
Period size: 100 Copynumber: 7.1 Consensus size: 99
16083563 AACTTTTGGA
*** * * * * * * *
16083573 AAGTAAGATTCGCCATTGTGGCTTTAATATTTTTTACTGAAATGTCGGGGAAGCATGATTC-GCT
1 AAGTAAGATTCGCTGCTGTAGCTTTAAT-CTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
16083637 ATTGTGGCTTTAATCTGTTCCACTACATCGCCTGGG
65 A-TGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * *
16083673 AAGTAAGATTC-ATTCTTGTAGCTTTCATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACC
1 AAGTAAGATTCGCTGC-TGTAGCTTTAATC-TTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
* * * * *
16083737 AATGTGGCTTTAATCTATTCCA-TGTCATCACCAGGG
64 GATGTGGCTTTAATCTGTTCCACTG-CACCGCCTGGG
16083773 AAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGCTGTAGCTTTAATC-TTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * * *
16083838 TTGTGGCTTTAATTTGTTCCATTGCACTGCCTGGG
65 ATGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * *
16083873 AGGTAAGATTCGCTGCTCTAGCTTTAATCTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGA
1 AAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* *
16083938 TGTGGCTTTAATCTGCTCCACTGCACCGCC--AG
66 TGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* ** *
16083970 AGGTAAGATTCGCTGCTGTAGCTTTAATCTTTTAACTGCAATGTCAAGGAGGCAAGATTCACCGA
1 AAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
*
16084035 TGTGGCTTTAATCTGTTCCACTGCACCG-CT-AG
66 TGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * * * *
16084067 AGGTAAGATTCGCTGCTGTAGATTTAATCTTTTAGCTGCAATGTTGGGGAGGCAAGATTCATCGA
1 AAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* * * *
16084132 TGTGGCTTCAATCTGCTCCACTGCACCGCCAGAG
66 TGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * * * *
16084166 AAGTAGGATTTGCCGCTGTGGCTTTAACCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCA
1 AAGTAAGATTCGCTGCTGTAGCTTTAATC-TTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
16084231 ATGTGGCTTTAATTTGTTCCACGGCATCGCCTGGG
65 ATGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
*
16084266 GAGATAAGATTC
1 AAG-TAAGATTC
16084278 TTGATTTCAC
Statistics
Matches: 521, Mismatches: 73, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
96 1 0.00
97 178 0.34
98 1 0.00
99 84 0.16
100 245 0.47
101 12 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
AAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
TGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
Found at i:16083994 original size:48 final size:48
Alignment explanation
Indices: 16083775--16084107 Score: 204
Period size: 50 Copynumber: 6.8 Consensus size: 48
16083765 CACCAGGGAA
* * ** *
16083775 GTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAA
1 GTAAGATTCGCTGCTGTAGCTTTAATC-TTTCAACTGCAACG-CCAGGAG
* * * * * * * * *
16083825 GCAAGATTCACCGTTGTGGCTTTAATTTGTTCCATTGC-ACTGCCTGGGAG
1 GTAAGATTCGCTGCTGTAGCTTTAATCT-TTCAACTGCAAC-GCC-AGGAG
* * * *
16083875 GTAAGATTCGCTGCTCTAGCTTTAATCTTTTAACTGCAATGTCAGGGAG
1 GTAAGATTCGCTGCTGTAGCTTTAATCTTTCAACTGCAACGCCA-GGAG
* * * * * * * *
16083924 GCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCA-GAG
1 GTAAGATTCGCTGCTGTAGCTTTAATCT-TTCAACTGCAACGCCAGGAG
* * *
16083972 GTAAGATTCGCTGCTGTAGCTTTAATCTTTTAACTGCAATGTCAAGGAG
1 GTAAGATTCGCTGCTGTAGCTTTAATCTTTCAACTGCAACG-CCAGGAG
* * * * * * * *
16084021 GCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTA-GAG
1 GTAAGATTCGCTGCTGTAGCTTTAATCT-TTCAACTGCAACGCCAGGAG
* * *
16084069 GTAAGATTCGCTGCTGTAGATTTAATCTTTTAGCTGCAA
1 GTAAGATTCGCTGCTGTAGCTTTAATCTTTCAACTGCAA
16084108 TGTTGGGGAG
Statistics
Matches: 206, Mismatches: 68, Indels: 21
0.70 0.23 0.07
Matches are distributed among these distances:
47 15 0.07
48 53 0.26
49 65 0.32
50 73 0.35
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (48 bp):
GTAAGATTCGCTGCTGTAGCTTTAATCTTTCAACTGCAACGCCAGGAG
Found at i:16085513 original size:14 final size:14
Alignment explanation
Indices: 16085494--16085538 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
16085484 GGCCTCTCCA
16085494 TTTCTTTTTTCATT
1 TTTCTTTTTTCATT
16085508 TTTCTTTTTTCA-T
1 TTTCTTTTTTCATT
*
16085521 TTTCATTTTTTTATT
1 TTTC-TTTTTTCATT
16085536 TTT
1 TTT
16085539 TCTGACTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.18
14 19 0.68
15 4 0.14
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTCATT
Found at i:16086504 original size:14 final size:15
Alignment explanation
Indices: 16086480--16086512 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
16086470 TCATTTTTTA
16086480 TTTTGATTTTGATTT
1 TTTTGATTTTGATTT
16086495 TTTTGA-TTTGATTT
1 TTTTGATTTTGATTT
16086509 TTTT
1 TTTT
16086513 TGAAAGGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTTGATTTTGATTT
Found at i:16086513 original size:15 final size:16
Alignment explanation
Indices: 16086475--16086515 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
16086465 TTCTCTCATT
16086475 TTTTATTTTGATTTTGA
1 TTTT-TTTTGATTTTGA
16086492 -TTTTTTTGA-TTTGA
1 TTTTTTTTGATTTTGA
16086506 TTTTTTTTGA
1 TTTTTTTTGA
16086516 AAGGATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.22
15 15 0.65
16 3 0.13
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (16 bp):
TTTTTTTTGATTTTGA
Found at i:16095622 original size:18 final size:18
Alignment explanation
Indices: 16095599--16095635 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16095589 TATAGTTTGA
* *
16095599 TATTCAATTTATTTGAAT
1 TATTCAAGTTATTCGAAT
16095617 TATTCAAGTTATTCGAAT
1 TATTCAAGTTATTCGAAT
16095635 T
1 T
16095636 CGAAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (18 bp):
TATTCAAGTTATTCGAAT
Found at i:16095847 original size:14 final size:15
Alignment explanation
Indices: 16095828--16095861 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16095818 AAAATCTTAA
*
16095828 AAATTTTGTTGA-GT
1 AAATTTTGTTAATGT
16095842 AAATTTTGTTAATGT
1 AAATTTTGTTAATGT
16095857 AAATT
1 AAATT
16095862 ATGTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
AAATTTTGTTAATGT
Found at i:16101198 original size:43 final size:43
Alignment explanation
Indices: 16101137--16101227 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
16101127 ATCTTGCCCC
*
16101137 TCTTTACCTTTGAGTTGTTGGATCGCTTCTTCATATTTCATGG
1 TCTTTCCCTTTGAGTTGTTGGATCGCTTCTTCATATTTCATGG
* *
16101180 TCTTTCCCTTTGGGTTGTTGGGTCGCTTCTTCATATTTCATGG
1 TCTTTCCCTTTGAGTTGTTGGATCGCTTCTTCATATTTCATGG
16101223 T-TTTC
1 TCTTTC
16101228 GATTACCACC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 4 0.09
43 41 0.91
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.51
Consensus pattern (43 bp):
TCTTTCCCTTTGAGTTGTTGGATCGCTTCTTCATATTTCATGG
Found at i:16101435 original size:28 final size:28
Alignment explanation
Indices: 16101404--16101457 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
16101394 TTCCAATTCC
*
16101404 TGTTTGACCCACTACTTCAACCAATTAT
1 TGTTTGACCCACGACTTCAACCAATTAT
*
16101432 TGTTTGACCCACGGCTTCAACCAATT
1 TGTTTGACCCACGACTTCAACCAATT
16101458 CTTGAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (28 bp):
TGTTTGACCCACGACTTCAACCAATTAT
Found at i:16104476 original size:16 final size:17
Alignment explanation
Indices: 16104450--16104483 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16104440 AATTGTTGAA
16104450 TAAATATTTTTTAATAT
1 TAAATATTTTTTAATAT
*
16104467 TAAA-ATTTTTTTATAT
1 TAAATATTTTTTAATAT
16104483 T
1 T
16104484 TCTTTCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TAAATATTTTTTAATAT
Found at i:16111244 original size:63 final size:63
Alignment explanation
Indices: 16111177--16111305 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
16111167 TTTTCATATA
16111177 TTATAGTATTCAATATTATTTGTAATATTTATTTTTAAAAATGTTTAAATTTATTATTATAGT
1 TTATAGTATTCAATATTATTTGTAATATTTATTTTTAAAAATGTTTAAATTTATTATTATAGT
*
16111240 TTATAGTATTCACTATTATTTGTAATATTTATTTTTAAAAATGTTTAAATTTATTATTATAGT
1 TTATAGTATTCAATATTATTTGTAATATTTATTTTTAAAAATGTTTAAATTTATTATTATAGT
16111303 TTA
1 TTA
16111306 AAATGTAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (63 bp):
TTATAGTATTCAATATTATTTGTAATATTTATTTTTAAAAATGTTTAAATTTATTATTATAGT
Found at i:16111306 original size:19 final size:19
Alignment explanation
Indices: 16111219--16111307 Score: 56
Period size: 19 Copynumber: 4.4 Consensus size: 19
16111209 TTTTAAAAAT
16111219 GTTTAAATTTATTATTATA
1 GTTTAAATTTATTATTATA
* *
16111238 GTTTATAGTATTCACTATTAT-
1 GTTTA-A--ATTTATTATTATA
* *
16111259 -TTGTAATATTTATTTTTAAAAA
1 GTT-TAA-ATTTATTATT--ATA
16111281 TGTTTAAATTTATTATTATA
1 -GTTTAAATTTATTATTATA
16111301 GTTTAAA
1 GTTTAAA
16111308 ATGTAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
19 20 0.38
20 6 0.11
21 3 0.06
22 19 0.36
23 3 0.06
24 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
GTTTAAATTTATTATTATA
Found at i:16111667 original size:20 final size:19
Alignment explanation
Indices: 16111631--16111668 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16111621 ATACATTTTA
*
16111631 TTATCAATATGTTTTAAAT
1 TTATCAATATATTTTAAAT
16111650 TTATCAATATTATTTTAAA
1 TTATCAATA-TATTTTAAA
16111669 GTATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATCAATATATTTTAAAT
Found at i:16118705 original size:40 final size:40
Alignment explanation
Indices: 16118605--16118869 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
16118595 GCTCCTCGTT
* * * *
16118605 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
16118645 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
16118684 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
16118724 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
16118764 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
16118804 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16118845 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16118870 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16118829 original size:80 final size:80
Alignment explanation
Indices: 16118572--16118869 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
16118562 AAATCACGTA
* ** * * *
16118572 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
16118634 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
16118650 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
16118713 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
16118730 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
16118794 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
16118810 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
16118870 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:16118878 original size:41 final size:41
Alignment explanation
Indices: 16118801--16118878 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16118791 TTTGTATCTC
* * *
16118801 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16118842 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16118879 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16126657 original size:40 final size:39
Alignment explanation
Indices: 16126559--16126781 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
16126549 TCCTCGTTCA
* * * * *
16126559 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
16126598 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
16126637 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
16126677 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
16126717 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
16126758 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16126782 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:16126781 original size:120 final size:119
Alignment explanation
Indices: 16126559--16126781 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
16126549 TCCTCGTTCA
* * * *
16126559 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
16126624 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
16126678 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
16126742 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
16126782 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16132489 original size:51 final size:51
Alignment explanation
Indices: 16132413--16132638 Score: 335
Period size: 51 Copynumber: 4.3 Consensus size: 51
16132403 CGGATCATAT
* * *
16132413 TTATCACTTGTCACTGGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCAA
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
16132464 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
16132515 TTATCACTTGTCACTTGTCACTGATCAGAAAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
16132566 TTATCACTTGTCACTTGTCACTTGTTACTGATTAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGT--C-----ACTGATCAGATAAGTGTAGCTAAAGCTACCAC
16132624 TTATCACTTGTCACT
1 TTATCACTTGTCACT
16132639 GATTAGAAGT
Statistics
Matches: 160, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
51 114 0.71
53 1 0.01
58 45 0.28
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:16132529 original size:58 final size:57
Alignment explanation
Indices: 16132467--16132638 Score: 257
Period size: 58 Copynumber: 3.1 Consensus size: 57
16132457 CTACCAATTA
16132467 TCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTG-TACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
16132525 T--C----ACTTGTCACTGATCAGAAAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
16132576 TCACTTGTCACTTGTTACTGATTAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGT-ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
16132634 TCACT
1 TCACT
16132639 GATTAGAAGT
Statistics
Matches: 103, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
51 49 0.48
53 1 0.01
56 1 0.01
58 52 0.50
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (57 bp):
TCACTTGTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:16151303 original size:45 final size:45
Alignment explanation
Indices: 16151219--16151304 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
16151209 ACATATACTC
* * * * *
16151219 GGTGGATTCAGCACATAGCAACCACCTTATTCATTAATGATGTTT
1 GGTGGAATCAGCACATAGCAACCACCGTACTAATCAATGATGTTT
* *
16151264 GGTGGAATCTGCACATAGCAACCATCGTACTAATCAATGAT
1 GGTGGAATCAGCACATAGCAACCACCGTACTAATCAATGAT
16151305 TTTCGGTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCGTACTAATCAATGATGTTT
Found at i:16151368 original size:51 final size:50
Alignment explanation
Indices: 16151308--16151449 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
16151298 CAATGATTTT
* * *
16151308 CGGTTCACATAGTAGCCTACACATAGTACTACATACGTGATCAAAAC-TATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CAAAACAT-TC
* * ** *
16151359 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAACATTC
*
16151409 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
16151450 CATCACTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
50 43 0.54
51 36 0.46
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAACATTC
Found at i:16164071 original size:23 final size:23
Alignment explanation
Indices: 16164041--16164085 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16164031 TTTCTTATTA
* *
16164041 TAGTAATTTTCGTGGTATTACAG
1 TAGTAATTTTCGAGATATTACAG
16164064 TAGTAATTTTCGAGATATTACA
1 TAGTAATTTTCGAGATATTACA
16164086 CCGATGCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCGAGATATTACAG
Found at i:16180715 original size:39 final size:39
Alignment explanation
Indices: 16180660--16180735 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
16180650 TAATAACACA
*
16180660 CCAAAATTTTCACCAATATTTTCTATAACAGCCTATTCC
1 CCAAAATTTTCACCAATATTTTCTATAACAACCTATTCC
*
16180699 CCAAAATTTTCCCCAATATTTTCTATAACAACCTATT
1 CCAAAATTTTCACCAATATTTTCTATAACAACCTATT
16180736 TTTAGTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.01, T:0.37
Consensus pattern (39 bp):
CCAAAATTTTCACCAATATTTTCTATAACAACCTATTCC
Found at i:16188225 original size:18 final size:18
Alignment explanation
Indices: 16188202--16188240 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16188192 TGGGAAAATA
*
16188202 AGAAAGGGAATGGAAGAG
1 AGAAAGGGAATGAAAGAG
* *
16188220 AGAAAGTGAGTGAAAGAG
1 AGAAAGGGAATGAAAGAG
16188238 AGA
1 AGA
16188241 GAGATGTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.41, T:0.08
Consensus pattern (18 bp):
AGAAAGGGAATGAAAGAG
Found at i:16189073 original size:15 final size:14
Alignment explanation
Indices: 16189049--16189091 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
16189039 GGTTTCTTTC
*
16189049 TTTTCGTTTATTTAA
1 TTTTCTTTTATTT-A
16189064 TTTTCTTTTATTTA
1 TTTTCTTTTATTTA
*
16189078 TGTTCTTATTATTT
1 TTTTCTT-TTATTT
16189092 TTATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTATTTA
Found at i:16214155 original size:26 final size:26
Alignment explanation
Indices: 16214106--16214153 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
16214096 TATCTCATCC
16214106 CTATTTTACCCCTAGCAAAATTTTGG
1 CTATTTTACCCCTAGCAAAATTTTGG
16214132 CTATTTTA-CCCTAG-AAAATTTT
1 CTATTTTACCCCTAGCAAAATTTT
16214154 TTATGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (26 bp):
CTATTTTACCCCTAGCAAAATTTTGG
Found at i:16218844 original size:25 final size:24
Alignment explanation
Indices: 16218727--16219065 Score: 271
Period size: 25 Copynumber: 14.4 Consensus size: 24
16218717 CACTATTAAA
* *
16218727 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
** *
16218749 CAGAGAGCACAAATGTGCTAA-AT
1 CAGAGAGCACTGACGTGCTAATAT
* * *
16218772 -AGAGAGCACTAATGTGCTAGTGAT
1 CAGAGAGCACTGACGTGCTAAT-AT
16218796 CAGAGAG--C-GA-GCTAG-TAAT-T
1 CAGAGAGCACTGACG-T-GCTAATAT
16218816 -AGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
16218840 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
*
16218865 CAGAGAGCATTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
* ** *
16218890 CAGAGAGAAAAGATGTGCTAA-A-
1 CAGAGAGCACTGACGTGCTAATAT
16218912 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
* *
16218937 CAGAGAGCACAGATGTGCTAA-AT
1 CAGAGAGCACTGACGTGCTAATAT
16218960 -AGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
* * * *
16218984 CAGAGACCACAGATGAGCTAA-AT
1 CAGAGAGCACTGACGTGCTAATAT
*
16219007 -AGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
* *
16219031 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
16219056 CAGAGAGCAC
1 CAGAGAGCAC
16219066 GCTAAACTCC
Statistics
Matches: 264, Mismatches: 29, Indels: 45
0.78 0.09 0.13
Matches are distributed among these distances:
19 6 0.02
20 1 0.00
21 3 0.01
22 91 0.34
23 16 0.06
24 14 0.05
25 133 0.50
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.19
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:16218934 original size:47 final size:47
Alignment explanation
Indices: 16218723--16219065 Score: 344
Period size: 47 Copynumber: 7.3 Consensus size: 47
16218713 TAAGCACTAT
* * *
16218723 TAAACAGAGAGCACTAAAGTGCT--ATA-CAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
* * * * * * *
16218767 TAAATAGAGAGCACTAATGTGCT-AGTGATCAGAGAGC-GAGCT-AG-
1 TAAACAGAGAGCACTGACGTGCTAAAT-ATCAGAGAGCACAGATGTGC
** * *
16218811 TAATTAGAGAGCACTGACGTGCTAAATATCAGAGAGCACTGACGTGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
* * *
16218858 TAAATATCAGAGAGCATTGACGTGCTAAATATCAGAGAGAAAAGATGTGC
1 T-AA-A-CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
16218908 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
* * *
16218955 TAAATAGAGAGCACTGACGTGCTAAATATCAGAGACCACAGATGAGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
* *
16219002 TAAATAGAGAGCACTAACGTGCT-AATAATCAGAGAGCACTA-ATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAAT-ATCAGAGAGCAC-AGATGTGC
16219049 TAATAATCAGAGAGCAC
1 T-A-AA-CAGAGAGCAC
16219066 GCTAAACTCC
Statistics
Matches: 251, Mismatches: 33, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
44 51 0.20
45 5 0.02
46 7 0.03
47 132 0.53
48 5 0.02
49 4 0.02
50 47 0.19
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (47 bp):
TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTGC
Found at i:16218988 original size:72 final size:73
Alignment explanation
Indices: 16218816--16219065 Score: 273
Period size: 72 Copynumber: 3.5 Consensus size: 73
16218806 GCTAGTAATT
**
16218816 AGAGAGCACTGACGTGCTAAATATCAGAGAGCACTGACGTGCTAAATATCAGAGAGCATTGACGT
1 AGAGAGCACTGACGTGCT-AATATCAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGACGT
16218881 GCTAAATATC
65 GCTAAA-ATC
* ** * *
16218891 AGAGAGAAAAGATGTGCTAA-A-CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGATGTG
1 AGAGAGCACTGACGTGCTAATATCAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGACGTG
16218954 CT-AAAT-
66 CTAAAATC
* * * *
16218960 AGAGAGCACTGACGTGCTAAATATCAGAGACCACAGATGAGCT-AA-AT-AGAGAGCACTA-ACG
1 AGAGAGCACTGACGTGCT-AATATCAGAGAGCACTGACGTGCTAAATATCAGAGAGCAC-AGACG
16219021 TGCTAATAATC
64 TGCTAA-AATC
* *
16219032 AGAGAGCACTAATGTGCTAATAATCAGAGAGCAC
1 AGAGAGCACTGACGTGCTAAT-ATCAGAGAGCAC
16219066 GCTAAACTCC
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
69 29 0.20
70 8 0.05
71 11 0.07
72 83 0.56
73 1 0.01
74 2 0.01
75 14 0.09
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (73 bp):
AGAGAGCACTGACGTGCTAATATCAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAGACGTG
CTAAAATC
Found at i:16229659 original size:74 final size:74
Alignment explanation
Indices: 16229538--16229818 Score: 535
Period size: 74 Copynumber: 3.8 Consensus size: 74
16229528 TTTCTATTTC
* * *
16229538 CCAACCCGATTAAAGTTTTCTATTTCCAAAATAAAATTTAATATTTATATATAAAACAACATCTC
1 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAACATCTC
16229603 ACATTGGGT
66 ACATTGGGT
16229612 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAACATCTC
1 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAACATCTC
16229677 ACATTGGGT
66 ACATTGGGT
16229686 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAACATCTC
1 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAACATCTC
16229751 ACATTGGGT
66 ACATTGGGT
16229760 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAA
1 CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAA
16229819 TTATCTCATC
Statistics
Matches: 204, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 204 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (74 bp):
CCAACCCGATTCAAGCTTTCTATTTCCCAAATAAAATTTAATATTTATATATAAAACAACATCTC
ACATTGGGT
Found at i:16229879 original size:26 final size:26
Alignment explanation
Indices: 16229830--16229877 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
16229820 TATCTCATCC
16229830 CTATTTTACCCCTAGCAAAATTTTGG
1 CTATTTTACCCCTAGCAAAATTTTGG
16229856 CTATTTTA-CCCTAG-AAAATTTT
1 CTATTTTACCCCTAGCAAAATTTT
16229878 TTATGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (26 bp):
CTATTTTACCCCTAGCAAAATTTTGG
Found at i:16237476 original size:24 final size:24
Alignment explanation
Indices: 16237424--16237476 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
16237414 CATAGAATCA
* * * *
16237424 AACATAACAGTAGATGTAGCCATT
1 AACATAAAAGTAGAAGTAACCACT
*
16237448 CACATAAAAGTAGAAGTAACCACT
1 AACATAAAAGTAGAAGTAACCACT
16237472 AACAT
1 AACAT
16237477 GGAGCTTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (24 bp):
AACATAAAAGTAGAAGTAACCACT
Found at i:16273855 original size:67 final size:67
Alignment explanation
Indices: 16273770--16273956 Score: 286
Period size: 67 Copynumber: 2.8 Consensus size: 67
16273760 ATTGCCTCAA
* **
16273770 CGGACTC-CATATGATGTCATAGCCGAGCTATGGTCTTACACATCCTACCCCATGTTTAATGTCT
1 CGGACTCTC-TATGTTGTCATAGCCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCT
16273834 TGG
65 TGG
* *
16273837 TGGACTCTCTATGTTGTCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCTT
1 CGGACTCTCTATGTTGTCATAGCCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCTT
16273902 GG
66 GG
* * *
16273904 CGAACTCTCTATGTTGCCATAGCCGAGCTATGGTCTTATACATTATACCCCAT
1 CGGACTCTCTATGTTGTCATAGCCGAGCTATGGTCTTACACATTATACCCCAT
16273957 TACAGCCCAT
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 108 0.99
68 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (67 bp):
CGGACTCTCTATGTTGTCATAGCCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCTT
GG
Found at i:16277647 original size:32 final size:33
Alignment explanation
Indices: 16277605--16277678 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
16277595 TAAAATTAAT
16277605 AATTTATTAAAATA-ATTTCATAAAAATGAAACA
1 AATTT-TTAAAATATATTTCATAAAAATGAAACA
* * * *
16277638 AATTTTT-AAATATTTTTTATACAAATGAGACA
1 AATTTTTAAAATATATTTCATAAAAATGAAACA
16277670 AATTTTTAA
1 AATTTTTAA
16277679 TGATATACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 5 0.14
32 24 0.69
33 6 0.17
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (33 bp):
AATTTTTAAAATATATTTCATAAAAATGAAACA
Found at i:16297790 original size:22 final size:24
Alignment explanation
Indices: 16297738--16297792 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 24
16297728 TTTTTTATGA
16297738 TTAAATTATTGTTATTAAATATACT
1 TTAAATTATTGTTATT-AATATACT
*
16297763 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATAC-T
16297785 TTAAATTA
1 TTAAATTA
16297793 AATTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 12 0.44
24 4 0.15
25 10 0.37
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATACT
Found at i:16303440 original size:20 final size:20
Alignment explanation
Indices: 16303417--16303454 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16303407 TCATGCTATA
16303417 TATT-ATAAAAATAATATACT
1 TATTCATAAAAA-AATATACT
16303437 TATTCATAAAAAAATATA
1 TATTCATAAAAAAATATA
16303455 ATTTTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TATTCATAAAAAAATATACT
Found at i:16304383 original size:75 final size:76
Alignment explanation
Indices: 16304090--16304464 Score: 605
Period size: 76 Copynumber: 5.0 Consensus size: 76
16304080 GAAAAACAGG
16304090 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
16304155 AAAAATATAGA
66 AAAAATATAGA
16304166 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
16304231 AAAAATATAGA
66 AAAAATATAGA
16304242 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
16304307 AAAAATATAGA
66 AAAAATATAGA
* * *
16304318 ATTATTCCCTTATTAATAGAGAAGACAAAT-GAATAGTTAG-AAAAAGAAATTATATTCTTTCCA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAA-ATTTAGAAAAAAAAAATTATATTCTTTTCA
*
16304381 AAAGAATATATG-
65 AAAAAATATA-GA
* * * ** *
16304393 ATTATTCCTTTATTAATAGAGAAGACAAATGAAAAGTTAG-AAAAATGAATTATATTCTTTCCAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
*
16304457 AAGAATAT
66 AAAAATAT
16304465 TAATTTTCAT
Statistics
Matches: 288, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
75 98 0.34
76 190 0.66
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (76 bp):
ATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAAAAAAATTATATTCTTTTCAA
AAAAATATAGA
Found at i:16307698 original size:51 final size:49
Alignment explanation
Indices: 16307576--16307864 Score: 311
Period size: 51 Copynumber: 5.7 Consensus size: 49
16307566 GATACTGGTT
16307576 CACATAGTAGCCTGCACATAGTACTACACA--TG-CAACCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACAACCTATC---C-GGTA
* *
16307626 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-C-AACCTATCCGGTA
* * * *
16307677 CGCATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CAAC-CTATCCGGTA
* *
16307728 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-C-AACCTATCCGGTA
*
16307779 CGCATAGTAGCCTGCACATAGTACTACACA--TG-CAACCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACAACCTATC---C-GGTA
* *
16307829 CACGTAGTAGCCTGCACATAGTACTACACACATGAC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGAC
16307865 CATCACTTTC
Statistics
Matches: 204, Mismatches: 21, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
46 7 0.03
47 1 0.00
49 3 0.01
50 62 0.30
51 116 0.57
52 6 0.03
53 1 0.00
54 1 0.00
55 7 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (49 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACAACCTATCCGGTA
Found at i:16307755 original size:102 final size:101
Alignment explanation
Indices: 16307578--16307859 Score: 503
Period size: 102 Copynumber: 2.8 Consensus size: 101
16307568 TACTGGTTCA
16307578 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCATTCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCATTCTGGTACACGTAGTAGCCTGCAC
16307643 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
** * *
16307679 CATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
16307743 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
16307781 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCATTCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCATTCTGGTACACGTAGTAGCCTGCAC
16307846 ATAGTACTACACAC
66 ATAGTACTACACAC
16307860 ATGACCATCA
Statistics
Matches: 170, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
100 4 0.02
101 70 0.41
102 92 0.54
103 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCATTCTGGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:16310801 original size:34 final size:34
Alignment explanation
Indices: 16310723--16310801 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 34
16310713 CATCACAATG
**
16310723 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTAGGGCCTTTGCCCAATAACAGTAA
* *
16310758 TAGTGTCAGTAGGGCC-TTGTCCC-ATAACAGTAA
1 CAGTATCAGTAGGGCCTTTG-CCCAATAACAGTAA
16310791 CAGATATCAGT
1 CAG-TATCAGT
16310802 CATGCAATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
33 13 0.36
34 20 0.56
35 3 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTAGGGCCTTTGCCCAATAACAGTAA
Found at i:16311243 original size:27 final size:27
Alignment explanation
Indices: 16311227--16311665 Score: 529
Period size: 27 Copynumber: 16.3 Consensus size: 27
16311217 TATAACAGTT
*
16311227 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16311254 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* ** *
16311281 ATTCTACTTTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** *
16311308 ATTTTACCCTATAAGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
16311335 ATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16311362 ATTTTACCCTATAGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16311389 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16311416 ATTTTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16311443 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * * *
16311470 ATTCTACCCTATGAGGGTGTTTCAGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
16311497 ATTTTACCCTATGAGGGTATTTCAGAC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16311524 ATTTTACTCTATGGGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * *
16311551 ATTTTACCCTATGAGAGTATTTCAGCC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
16311578 ATTCTACCCTATGTGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16311605 ATTTTACCCTATGAGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16311632 ATTCTACCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
16311658 ATTTTACC
1 ATTTTACC
16311666 TATTTTGGGG
Statistics
Matches: 352, Mismatches: 60, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 18 0.05
27 334 0.95
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:16311941 original size:20 final size:20
Alignment explanation
Indices: 16311916--16311956 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16311906 GCCCATTGAG
* *
16311916 CCAACATGGCCCATTTCGGC
1 CCAACATCGCCCATTACGGC
16311936 CCAACATCGCCCATTACGGC
1 CCAACATCGCCCATTACGGC
16311956 C
1 C
16311957 TAAGCCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.44, G:0.17, T:0.17
Consensus pattern (20 bp):
CCAACATCGCCCATTACGGC
Found at i:16318536 original size:32 final size:32
Alignment explanation
Indices: 16318493--16318557 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
16318483 AGGTATTATC
16318493 AGAGATGTGTAAAAGGGTTTTCGATGATTTCT
1 AGAGATGTGTAAAAGGGTTTTCGATGATTTCT
*
16318525 AGAGATTTGTAAAAGGGTTTTCGATGATTTCT
1 AGAGATGTGTAAAAGGGTTTTCGATGATTTCT
16318557 A
1 A
16318558 CACCGTTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (32 bp):
AGAGATGTGTAAAAGGGTTTTCGATGATTTCT
Found at i:16323269 original size:17 final size:17
Alignment explanation
Indices: 16323247--16323279 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16323237 CATTTTATAT
*
16323247 TGAATTATTATGAATTG
1 TGAATTATTATAAATTG
16323264 TGAATTATTATAAATT
1 TGAATTATTATAAATT
16323280 TACATGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
TGAATTATTATAAATTG
Found at i:16323469 original size:25 final size:25
Alignment explanation
Indices: 16323411--16323497 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
16323401 TTGCGAATAC
* *
16323411 TCTACAGCTTGTGAGAGGATACCGA
1 TCTACAGCTCGTGAGAGCATACCGA
*
16323436 T-TAATAGCTCGTGAGAGCATACCGA
1 TCT-ACAGCTCGTGAGAGCATACCGA
* * *
16323461 TCTACAGCTCGAGTGAGCATACCAA
1 TCTACAGCTCGTGAGAGCATACCGA
*
16323486 TTTACAGCTCGT
1 TCTACAGCTCGT
16323498 ATGAGCTTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
TCTACAGCTCGTGAGAGCATACCGA
Found at i:16329911 original size:24 final size:25
Alignment explanation
Indices: 16329856--16329914 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
16329846 AAATCTTTAA
* *
16329856 AATCAAATTTTCAAAATTATTTTTT
1 AATCAATTTTTCAAAATTATTGTTT
* *
16329881 AA-AAATTTTTC-AGATTATTGTTT
1 AATCAATTTTTCAAAATTATTGTTT
16329904 AATCAATTTTT
1 AATCAATTTTT
16329915 GATGAAATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 12 0.43
24 14 0.50
25 2 0.07
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (25 bp):
AATCAATTTTTCAAAATTATTGTTT
Found at i:16336752 original size:26 final size:25
Alignment explanation
Indices: 16336707--16336758 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
16336697 CTAATATTGG
*
16336707 AAAATGCTAAGGCAAAACAATAATA
1 AAAATGCTAAGGCAAAACAAGAATA
*
16336732 AAAATGC-AATGGCAATTACAAGAATA
1 AAAATGCTAA-GGCAA-AACAAGAATA
16336758 A
1 A
16336759 TCGAGCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 12 0.52
26 9 0.39
ACGTcount: A:0.58, C:0.12, G:0.13, T:0.17
Consensus pattern (25 bp):
AAAATGCTAAGGCAAAACAAGAATA
Found at i:16337595 original size:17 final size:17
Alignment explanation
Indices: 16337575--16337615 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
16337565 CAAACTGTCC
16337575 AACCTTTTGCACT-GACA
1 AACCTTTTGC-CTCGACA
*
16337592 AACCTTTTGCCTCGGCA
1 AACCTTTTGCCTCGACA
16337609 AACCTTT
1 AACCTTT
16337616 ACTCAGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (17 bp):
AACCTTTTGCCTCGACA
Found at i:16339670 original size:41 final size:41
Alignment explanation
Indices: 16339448--16339672 Score: 190
Period size: 41 Copynumber: 5.6 Consensus size: 41
16339438 ACCAAAGTGT
* * * * *
16339448 AAACAAGGGCACAAAAGTGC-ATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATGTGCAATTTAGGAGTACCGAAGTAC
* * * * * *
16339488 --ACTAAGGGCACATATGTGTAATTCAGGGGTACCGTAGTAT
1 AAAC-AGGGGCACATATGTGCAATTTAGGAGTACCGAAGTAC
* * * * * * *
16339528 AAACAGGGGTACGTATCTGTAATTCAAGG-GTATCGAAGCAC
1 AAACAGGGGCACATATGTGCAATT-TAGGAGTACCGAAGTAC
* * *
16339569 AAACAGGGGAACGTATGTGCAATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATGTGCAATTTAGGAGTACCGAAGTAC
*
16339610 AAA-AGGGGCACATATGTGCAGTTTAGGAGTACCGAAGTAC
1 AAACAGGGGCACATATGTGCAATTTAGGAGTACCGAAGTAC
*
16339650 AAACAGGGGCCCATATGTGCAAT
1 AAACAGGGGCACATATGTGCAAT
16339673 GTACAATATT
Statistics
Matches: 152, Mismatches: 26, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
38 2 0.01
39 13 0.09
40 57 0.38
41 75 0.49
42 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACATATGTGCAATTTAGGAGTACCGAAGTAC
Found at i:16346935 original size:40 final size:41
Alignment explanation
Indices: 16346888--16346969 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 41
16346878 ACAAAAGTGT
* * *
16346888 ATTCAGGGGTACCAAAGTA-CAATAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTATAAATAAGGGCACGTATATGCA
*
16346928 ATTCAGGGGTACCAAAGTATAAATAAGGTCACGTATATGCA
1 ATTCAGGGGTACCAAAGTATAAATAAGGGCACGTATATGCA
16346969 A
1 A
16346970 CTCAAAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 19 0.51
41 18 0.49
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACCAAAGTATAAATAAGGGCACGTATATGCA
Found at i:16351792 original size:21 final size:21
Alignment explanation
Indices: 16351766--16351806 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16351756 TGTCATCATT
*
16351766 TCACCCATAGTAACTTTGACG
1 TCACCCATAATAACTTTGACG
*
16351787 TCACCCATAATAAGTTTGAC
1 TCACCCATAATAACTTTGAC
16351807 TAAACACGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
TCACCCATAATAACTTTGACG
Found at i:16352080 original size:32 final size:31
Alignment explanation
Indices: 16352042--16352109 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
16352032 TTTTTGAGTT
*
16352042 AAATTTGA-CACTCAACCTTTTAAAAAAAATC
1 AAATTTGACCA-TCAACCTTTCAAAAAAAATC
* *
16352073 AGAATTTGACCATTAACCTTTCAAAAAGAATC
1 A-AATTTGACCATCAACCTTTCAAAAAAAATC
16352105 AAATT
1 AAATT
16352110 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 5 0.16
32 25 0.78
33 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (31 bp):
AAATTTGACCATCAACCTTTCAAAAAAAATC
Found at i:16353453 original size:30 final size:30
Alignment explanation
Indices: 16353419--16353486 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
16353409 AACCAAAAAA
16353419 GGCCGTTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGTTTTTTTT-AATAATTTACCGAAATG
* * *
16353449 GGCCG-GTTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
*
16353478 GGCCATTTT
1 GGCCGTTTT
16353487 CCGCTAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.71
30 7 0.23
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (30 bp):
GGCCGTTTTTTTTAATAATTTACCGAAATG
Found at i:16353458 original size:29 final size:29
Alignment explanation
Indices: 16353426--16353481 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16353416 AAAGGCCGTT
16353426 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
16353455 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
16353482 ATTTTCCGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:16354466 original size:28 final size:29
Alignment explanation
Indices: 16354415--16354469 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
16354405 CGCGGAAAAT
16354415 GGCCCATTCCAGTAAATAATTAAAAAACC
1 GGCCCATTCCAGTAAATAATTAAAAAACC
* * *
16354444 GGCCCATTTCGGTAAAT-TTTAAAAAA
1 GGCCCATTCCAGTAAATAATTAAAAAA
16354470 AACCGGCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCAGTAAATAATTAAAAAACC
Found at i:16355511 original size:20 final size:18
Alignment explanation
Indices: 16355486--16355535 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
16355476 ATATAGAGAG
16355486 AGAATTATTAAAATTCATTA
1 AGAATTATTAAAATT--TTA
16355506 AGAATTA-TAAATATTTTA
1 AGAATTATTAAA-ATTTTA
16355524 A-AATTATTAAAA
1 AGAATTATTAAAA
16355536 GTAATGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 4 0.14
20 10 0.36
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
AGAATTATTAAAATTTTA
Found at i:16355533 original size:9 final size:9
Alignment explanation
Indices: 16355488--16355535 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
16355478 ATAGAGAGAG
16355488 AATTATTAA
1 AATTATTAA
16355497 AATTCATTAA
1 AATT-ATTAA
16355507 GAATTA-TAA
1 -AATTATTAA
16355516 ATATT-TTAA
1 A-ATTATTAA
16355525 AATTATTAA
1 AATTATTAA
16355534 AA
1 AA
16355536 GTAATGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 4 0.12
9 20 0.59
10 6 0.18
11 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
AATTATTAA
Done.