Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 524 of 770
Found at i:162739556 original size:40 final size:39
Alignment explanation
Indices: 162739489--162739591 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 39
162739479 CCAGCATGAT
*
162739489 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
162739528 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
*
162739568 TGCTCTTCGGAATTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
162739592 TAACCACAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 17 0.28
40 43 0.72
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAA
Found at i:162739615 original size:39 final size:40
Alignment explanation
Indices: 162739489--162739616 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
162739479 CCAGCATGAT
* * * * *
162739489 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAA
* * *
162739528 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAA
*
162739568 TGCTCTTCGGAATTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGTCCGGATA-AACCACAAGCACGAA
162739607 TTGC-CTTCGG
1 -TGCTCTTCGG
162739617 GTCTTAACCC
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
39 25 0.31
40 55 0.69
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAA
Found at i:162739634 original size:40 final size:40
Alignment explanation
Indices: 162739502--162739708 Score: 145
Period size: 40 Copynumber: 5.2 Consensus size: 40
162739492 TCTTCGGACC
* * * * **
162739502 TAGCCCGGATA-CATCACTAGCACGAATGCTCTTCGGAACT
1 TAGCCCGGATATAACCACAAGCACAAATGC-CTTCGGGTCT
* * * * * *
162739542 TAGTCCGGATA-CATCACTAGCACGAATGCTCTTCGGAAT-T
1 TAGCCCGGATATAACCACAAGCACAAATGC-CTTCGG-GTCT
*
162739582 TAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCT
1 TAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCT
* * * *
162739621 TAACCCGGGTATAACAACTCA-CACAAATGCCTTCGGGTCT
1 TAGCCCGGATATAACCAC-AAGCACAAATGCCTTCGGGTCT
** * * *
162739661 TAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGACT
1 TAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCT
162739701 TAGCCCGG
1 TAGCCCGG
162739709 GTATCATTCA
Statistics
Matches: 140, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 17 0.12
40 120 0.86
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCT
Found at i:162741735 original size:47 final size:47
Alignment explanation
Indices: 162741676--162741872 Score: 319
Period size: 47 Copynumber: 4.2 Consensus size: 47
162741666 ATGTTACAAC
162741676 ATTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATAT
1 ATTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATAT
162741723 ATTCACATTAGCCATTCGGCTTTA-C-CACATACATATCACACATAT
1 ATTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATAT
*
162741768 ATTTCACATTAGCC-TTCGGCTTTACCACATATACATATCACACATAT
1 A-TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATAT
*
162741815 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
1 A-TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATAT
*
162741863 GTTTCACATT
1 -ATTCACATT
162741873 CATCACATCG
Statistics
Matches: 143, Mismatches: 2, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
45 31 0.22
46 14 0.10
47 57 0.40
48 41 0.29
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (47 bp):
ATTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATAT
Found at i:162741919 original size:18 final size:18
Alignment explanation
Indices: 162741888--162741923 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
162741878 CATCGGCCAT
*
162741888 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
162741906 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
162741924 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:162742019 original size:51 final size:49
Alignment explanation
Indices: 162741941--162742267 Score: 307
Period size: 51 Copynumber: 6.6 Consensus size: 49
162741931 CACATATGTT
* * * *
162741941 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTTTCA-CA
1 TCACATTGGCCATTAGGCCTTATCACATATA-ATAT-ACACAT-TTTCATCA
* * ** *
162741992 TCACATCGGCCATTAGGCCTTATCACATAT-ATATATATGTTTCACATTCA
1 TCACATTGGCCATTAGGCCTTATCACATATAATATACACATTT-TCA-TCA
* * *
162742042 TCACATCGGCCATTAGGCCTTATCAC--AT-ATATACTC-TTTCACATTCA
1 TCACATTGGCCATTAGGCCTTATCACATATAATATACACATTT-TCA-TCA
* *
162742089 TCACATTGGCCATTAGGCCTTATCACATGT-ATATACAC-TTTCCATTCA
1 TCACATTGGCCATTAGGCCTTATCACATATAATATACACATTTTCA-TCA
*
162742137 TCACATTGGCCATTAGGCCTTATCACATAT-ATATACAC-TTTCACATTCA
1 TCACATTGGCCATTAGGCCTTATCACATATAATATACACATTT-TCA-TCA
*
162742186 TCACATTGGCCATTAGGCCTTATCACATATATATATACAC-TTTCACATTCA
1 TCACATTGGCCATTAGGCCTTATCACATATA-ATATACACATTT-TCA-TCA
*
162742237 TCACATTGGCCATTAGGCCGTATCACATATA
1 TCACATTGGCCATTAGGCCTTATCACATATA
162742268 TACATCTCAT
Statistics
Matches: 249, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
47 38 0.15
48 58 0.23
49 51 0.20
50 28 0.11
51 74 0.30
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TCACATTGGCCATTAGGCCTTATCACATATAATATACACATTTTCATCA
Found at i:162742029 original size:123 final size:120
Alignment explanation
Indices: 162741785--162742024 Score: 423
Period size: 123 Copynumber: 2.0 Consensus size: 120
162741775 ATTAGCCTTC
162741785 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
162741850 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACA-ATGTTT-ACA-TCATCACATCGGCCATTAGGCCTTATCACATATATA
*
162741908 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
162741973 ATATCACAC-ATGTTT-CA-CATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACAATGTTTACATCATCACATCGGCCATTAGGCCTTATCACATATATA
162742025 TATATGTTTC
Statistics
Matches: 116, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
117 35 0.30
119 2 0.02
121 6 0.05
123 73 0.63
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (120 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACAATGTTTACATCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:162742056 original size:167 final size:166
Alignment explanation
Indices: 162741740--162742074 Score: 491
Period size: 167 Copynumber: 2.0 Consensus size: 166
162741730 TTAGCCATTC
162741740 GGCTTTACCACATACATATCACACATATATTTCACATTAGCCTTCGGCTTTACCACATATACATA
1 GGCTTTACCACATACATATCACACATATATTTCACATTAGCCTTCGGCTTTACCACATATACATA
* *
162741805 TCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCAC
66 TCACACA-ATATTTCACATCA-CCATTCGGCATTACCACATATACATATCACACATATGTTTCAC
162741870 ATTCATCACATCGGCCATTAGGCCTTATCACATATATA
129 ATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
162741908 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCAC--ATACATATCACACATATATTTCACATTAGCC-TTCGGCTTTACCACATATAC
* * * * *
162741973 ATATCACAC-ATGTTTCACATCA-CA-TCGGCCATTAGGC-CTTATCACATAT-ATATATATGTT
63 ATATCACACAATATTTCACATCACCATTCGG-CATTA-CCACATAT-ACATATCACACATATGTT
162742033 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
125 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
162742075 CTCTTTCACA
Statistics
Matches: 153, Mismatches: 8, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
166 4 0.03
167 61 0.40
168 18 0.12
169 11 0.07
170 30 0.20
171 29 0.19
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (166 bp):
GGCTTTACCACATACATATCACACATATATTTCACATTAGCCTTCGGCTTTACCACATATACATA
TCACACAATATTTCACATCACCATTCGGCATTACCACATATACATATCACACATATGTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:162742095 original size:148 final size:144
Alignment explanation
Indices: 162741941--162742269 Score: 437
Period size: 148 Copynumber: 2.2 Consensus size: 144
162741931 CACATATGTT
* * * *
162741941 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTTTCA-CATCACATCGGCCAT
1 TCACATTGGCCATTAGGCCTTACCACATAT--ATAT-ACAC-T-TTCCATCATCACATCGGCCAT
* *
162742005 TAGGCCTTATCACATATATATATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-A
61 TAGGCCTTATCACATATATATACA-CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAA
*
162742069 TATATACTCTTTCACATTCA
125 TATATACACTTTCACATTCA
* * *
162742089 TCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCCATTCATCACATTGGCCATTAGG
1 TCACATTGGCCATTAGGCCTTACCACATATATATACACTTTCCA-TCATCACATCGGCCATTAGG
*
162742154 CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
65 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATA
162742219 TATACACTTTCACATTCA
127 TATACACTTTCACATTCA
* *
162742237 TCACATTGGCCATTAGGCCGTATCACATATATA
1 TCACATTGGCCATTAGGCCTTACCACATATATA
162742270 CATCTCATAC
Statistics
Matches: 162, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
143 4 0.02
144 37 0.23
145 41 0.25
146 4 0.02
148 76 0.47
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (144 bp):
TCACATTGGCCATTAGGCCTTACCACATATATATACACTTTCCATCATCACATCGGCCATTAGGC
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
CACTTTCACATTCA
Found at i:162742112 original size:97 final size:96
Alignment explanation
Indices: 162741990--162742271 Score: 449
Period size: 97 Copynumber: 2.9 Consensus size: 96
162741980 ACATGTTTCA
* * *
162741990 CATCACATCGGCCATTAGGCCTTATCACATATATATATATGTTTCACATTCATCACATCGGCCAT
1 CATCACATTGGCCATTAGGCCTTATCACATATATATATA-CTTTCACATTCATCACATTGGCCAT
*
162742055 TAGGCCTTATCACATATATACTCTTTCACATT
65 TAGGCCTTATCACATATATACACTTTCACATT
* *
162742087 CATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTC-CATTCATCACATTGGCCATT
1 CATCACATTGGCCATTAGGCCTTATCACATATATATATACTTTCACATTCATCACATTGGCCATT
162742151 AGGCCTTATCACATATATATACACTTTCACATT
66 AGGCCTTATCAC--ATATATACACTTTCACATT
162742184 CATCACATTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCA
1 CATCACATTGGCCATTAGGCCTTATCACATATATATAT--ACTTTCACATTCATCACATTGGCCA
*
162742249 TTAGGCCGTATCACATATATACA
64 TTAGGCCTTATCACATATATACA
162742272 TCTCATACAT
Statistics
Matches: 171, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
95 31 0.18
96 4 0.02
97 90 0.53
98 9 0.05
99 6 0.04
100 31 0.18
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.34
Consensus pattern (96 bp):
CATCACATTGGCCATTAGGCCTTATCACATATATATATACTTTCACATTCATCACATTGGCCATT
AGGCCTTATCACATATATACACTTTCACATT
Found at i:162742268 original size:51 final size:49
Alignment explanation
Indices: 162741990--162742269 Score: 449
Period size: 48 Copynumber: 5.7 Consensus size: 49
162741980 ACATGTTTCA
* * *
162741990 CATCACATCGGCCATTAGGCCTTATCACATATATATATATGTTTCACATT
1 CATCACATTGGCCATTAGGCCTTATCACATATATATACA-CTTTCACATT
* *
162742040 CATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATT
1 CATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
162742087 CATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTC-CATT
1 CATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
162742135 CATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 CATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
162742184 CATCACATTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATT
1 CATCACATTGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATT
*
162742235 CATCACATTGGCCATTAGGCCGTATCACATATATA
1 CATCACATTGGCCATTAGGCCTTATCACATATATA
162742270 CATCTCATAC
Statistics
Matches: 217, Mismatches: 8, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
47 36 0.17
48 54 0.25
49 51 0.24
50 28 0.13
51 48 0.22
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (49 bp):
CATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
Found at i:162745555 original size:39 final size:40
Alignment explanation
Indices: 162745467--162745680 Score: 235
Period size: 39 Copynumber: 5.5 Consensus size: 40
162745457 CGGATGATAA
* * * *
162745467 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAATGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
162745507 -CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
162745545 CCGGGTTAAGT-CCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
162745584 -CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ***
162745623 CCGGGCTATGTCCCGAAGGCATTCAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
162745663 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
162745681 TACCTGGCTT
Statistics
Matches: 150, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 31 0.21
39 86 0.57
40 32 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:162745678 original size:118 final size:116
Alignment explanation
Indices: 162745468--162745680 Score: 268
Period size: 116 Copynumber: 1.8 Consensus size: 116
162745458 GGATGATAAC
* * * * ***
162745468 CGGGCTAAGTCCCGAAGGCATTTGCGCTAATGACTAGTTCGGGCTAAGTCCGAAGGCATTTGTGC
1 CGGGCTAAGTCCCAAAGGCATTTGCGCGAATGACTAATCCGGGCTAAGTCCGAAGGCATTCAAGC
*
162745533 GAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTGTGTGAGTTACTATAT
66 GAGTTACTATATCCGGGTTAAATCCGAAGGCATTTGTGTGAGTTACTATAT
* * * *
162745584 CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTACATCCGGGCTATGTCCCGAAGGCATTCAA
1 CGGGCTAAGTCCCAAAGGCATTTGCGCGAATGACTA-ATCCGGGCTAAGT-CCGAAGGCATTCAA
162745649 GCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 GCGAGTTA-CTATATCCGGGTTAAAT-CCGAAGG
162745681 TACCTGGCTT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
116 31 0.38
117 19 0.23
118 31 0.38
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (116 bp):
CGGGCTAAGTCCCAAAGGCATTTGCGCGAATGACTAATCCGGGCTAAGTCCGAAGGCATTCAAGC
GAGTTACTATATCCGGGTTAAATCCGAAGGCATTTGTGTGAGTTACTATAT
Found at i:162747465 original size:30 final size:30
Alignment explanation
Indices: 162747429--162747529 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
162747419 GACAAGATTG
* * *
162747429 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
162747459 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
162747487 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
162747516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
162747530 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:162747541 original size:29 final size:28
Alignment explanation
Indices: 162747458--162747533 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
162747448 AAAATTGTAC
* *
162747458 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
162747486 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
162747515 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
162747534 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:162755314 original size:30 final size:30
Alignment explanation
Indices: 162755278--162755378 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
162755268 GACAAGATTG
* * *
162755278 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
162755308 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
162755336 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
162755365 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
162755379 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:162755390 original size:29 final size:28
Alignment explanation
Indices: 162755307--162755382 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
162755297 AAAATTGTAC
* *
162755307 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
162755335 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
162755364 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
162755383 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:162766151 original size:20 final size:18
Alignment explanation
Indices: 162766126--162766165 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
162766116 ATTTCGTACG
162766126 TTGGCCCATTTTCTCCGTTT
1 TTGGCCCA-TTTCT-CGTTT
*
162766146 TTGGCCTATTTCTCGTTT
1 TTGGCCCATTTCTCGTTT
162766164 TT
1 TT
162766166 TCCACTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.05, C:0.25, G:0.15, T:0.55
Consensus pattern (18 bp):
TTGGCCCATTTCTCGTTT
Found at i:162769100 original size:40 final size:40
Alignment explanation
Indices: 162769056--162769208 Score: 186
Period size: 41 Copynumber: 3.8 Consensus size: 40
162769046 GTTATAATAG
* *
162769056 CTCGCATAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTC-GGATCTTAGCCCGGATTTGGGAA
*
162769096 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGA-TTTGGGAA
* * **
162769137 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGGAA
162769177 CTCAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CTC-GCACAAATGCCTTC-GGATCTTAGCCCGGA
162769209 CATCATTCGA
Statistics
Matches: 102, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 49 0.48
41 50 0.49
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGGAA
Found at i:162769145 original size:41 final size:40
Alignment explanation
Indices: 162769015--162769208 Score: 189
Period size: 40 Copynumber: 4.8 Consensus size: 40
162769005 AGATATAGCG
* * * ***
162769015 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGGA
* * *
162769055 GCTCGCATAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGA
*
162769095 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTTGGGA
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA-TTTGGGA
* * **
162769136 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTGGGA
162769176 ACTCAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 ACTC-GCACAAATGCCTTCGGGACTTAGCCCGGA
162769209 CATCATTCGA
Statistics
Matches: 132, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 77 0.58
41 52 0.39
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGA
Found at i:162769151 original size:81 final size:81
Alignment explanation
Indices: 162769024--162769208 Score: 198
Period size: 81 Copynumber: 2.3 Consensus size: 81
162769014 GACTCGCTCA
* * *** * *
162769024 AAAGCCTTCGGGACATAGCCCGG-TTATAATAGCTCGCATAAATGCCTTCGGGA-CTTAACCCGG
1 AAAGCCTTCGGGACTTAGCCCGGATTTTGGGAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
162769087 ATTTGGGAACTC-GCAC
65 ATATGGGAACTCAGCAC
* **
162769103 AAATGCCTTC-GGATCTTAGTCCGGATTTTGGGAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 AAA-GCCTTCGGGA-CTTAGCCCGGATTTTGGGAACTCGCACAAATGCCTTCGGATCTTAACCCG
**
162769167 GATATGGTCACTCAGCAC
64 GATATGGGAACTCAGCAC
162769185 AAAGCCTTCGGGACTTAGCCCGGA
1 AAAGCCTTCGGGACTTAGCCCGGA
162769209 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 6 0.07
80 17 0.20
81 53 0.62
82 10 0.12
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (81 bp):
AAAGCCTTCGGGACTTAGCCCGGATTTTGGGAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATGGGAACTCAGCAC
Found at i:162773472 original size:40 final size:40
Alignment explanation
Indices: 162773307--162773474 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
162773297 AAATTGAATG
* * * * * **
162773307 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * **
162773347 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
162773387 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
*
162773427 CTATCCGGGCTAAGACCCGAAGGCATTTGTG-TACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGATT
162773467 ATATCCGG
1 ATATCCGG
162773475 TTATATTCCG
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:162781331 original size:29 final size:29
Alignment explanation
Indices: 162781298--162781458 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
162781288 GTGACGAGAT
162781298 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
162781327 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
162781356 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
162781385 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
162781414 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
162781443 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
162781459 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:162790525 original size:39 final size:39
Alignment explanation
Indices: 162790471--162790623 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
162790461 GAATGTTCGA
162790471 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
162790510 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
162790549 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* **
162790588 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
162790624 GGTTACCATA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 89 0.86
40 15 0.14
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:162790561 original size:78 final size:79
Alignment explanation
Indices: 162790472--162790654 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
162790462 AATGTTCGAG
*
162790472 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
162790536 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
162790550 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
162790615 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
162790629 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
162790655 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:162798592 original size:39 final size:39
Alignment explanation
Indices: 162798463--162798641 Score: 285
Period size: 37 Copynumber: 4.7 Consensus size: 39
162798453 GAATGTTCGA
162798463 GTGATATCCGGGCTAAGCCCGAAGG-AATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
162798501 GT-ATATCCGGGCTAAGCCCGAAGGCAATTGTGC--ATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
162798537 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
162798576 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
162798615 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
162798642 CTTTGTGCGG
Statistics
Matches: 130, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
36 5 0.04
37 53 0.41
38 10 0.08
39 53 0.41
40 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:162798603 original size:76 final size:76
Alignment explanation
Indices: 162798463--162798681 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 76
162798453 GAATGTTCGA
* * *
162798463 GTGATATCCGGGCTAAGCCCGAAGG-AATTGTGCAAATTGTATATCCGGGCTAAGCCCGAAGGCA
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATATATCCGGGCTAAGCCCGAAGGCA
162798527 ATTGTGC-ATT
66 ATTGTGCAATT
162798537 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAT-ATATCCGGGCTAAGCCCGAAGGC
162798602 AATTGTGCAAATT
65 AATTGTGC-AATT
* ** * * * *
162798615 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA-TATATCCGGGCTAAG-CCCGAAG
162798680 GC
63 GC
162798682 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
74 25 0.20
75 12 0.09
76 31 0.24
78 19 0.15
79 32 0.25
80 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (76 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCAATT
Found at i:162803999 original size:22 final size:22
Alignment explanation
Indices: 162803971--162804012 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
162803961 CTATTTTTGT
*
162803971 GCCTGTAAGTGTACTTGGACGG
1 GCCTGTAAGTGTACCTGGACGG
162803993 GCCTGTAAGTGTACCTGGAC
1 GCCTGTAAGTGTACCTGGAC
162804013 CCTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.26
Consensus pattern (22 bp):
GCCTGTAAGTGTACCTGGACGG
Found at i:162818661 original size:28 final size:28
Alignment explanation
Indices: 162818596--162818696 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
162818586 ATAGTGAATC
*
162818596 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
162818625 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
162818653 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
162818683 CGCACACTTAGTGC
1 CGCACACTTAGTGC
162818697 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:162829418 original size:40 final size:40
Alignment explanation
Indices: 162829363--162829572 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
162829353 AACATTGGAA
162829363 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
162829403 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
162829443 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
162829483 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
162829522 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
162829563 CTATATCCGG
1 ATATATCCGG
162829573 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:162834206 original size:39 final size:40
Alignment explanation
Indices: 162834083--162834248 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
162834073 AAATTGAATG
* * *
162834083 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
162834122 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
162834162 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
* * *
162834201 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
162834241 ATATCCGG
1 ATATCCGG
162834249 TTATATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 48 0.45
40 58 0.55
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:162834215 original size:79 final size:79
Alignment explanation
Indices: 162834083--162834232 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
162834073 AAATTGAATG
*
162834083 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
162834148 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
162834162 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
162834225 ATTTGTGC
64 AATTGTGC
162834233 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.02
79 53 0.85
80 8 0.13
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:162842937 original size:29 final size:29
Alignment explanation
Indices: 162842807--162842929 Score: 228
Period size: 29 Copynumber: 4.2 Consensus size: 29
162842797 GTGACGAGAT
162842807 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
162842836 TGGCACTAAGTGTGCATTCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
162842865 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
162842894 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
162842923 CGGCACT
1 TGGCACT
162842930 GGGTGTGCGA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:162842954 original size:58 final size:58
Alignment explanation
Indices: 162842808--162842958 Score: 196
Period size: 58 Copynumber: 2.6 Consensus size: 58
162842798 TGACGAGATT
* * * *
162842808 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATTCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
* *
162842866 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATAC
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
** * *
162842924 GGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCACT
1 GGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACT
162842959 TGTGTGCGGG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 83 0.99
59 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
Found at i:162842954 original size:87 final size:86
Alignment explanation
Indices: 162842807--162842994 Score: 218
Period size: 87 Copynumber: 2.2 Consensus size: 86
162842797 GTGACGAGAT
* * * *
162842807 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATTCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
162842872 AAGTGTGCATGCTGGAAAT-ATA
66 -AGTGTGCAGGCT-GAAATCACA
** * *
162842894 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
* * *
162842958 TTGTGTGCGGGCTTAAATCACA
65 TAGTGTGCAGGCTGAAATCACA
162842980 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
162842995 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 4 0.05
86 26 0.30
87 55 0.64
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (86 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AGTGTGCAGGCTGAAATCACA
Found at i:162850826 original size:29 final size:29
Alignment explanation
Indices: 162850793--162850952 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
162850783 GTGACGAGAT
162850793 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
162850822 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
162850851 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
162850880 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
162850909 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
162850938 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
162850953 GAAATTGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:162854290 original size:40 final size:40
Alignment explanation
Indices: 162854245--162854334 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
162854235 CGGAATACAA
*
162854245 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
162854285 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
162854325 CCGGATATAA
1 CCGGATATAA
162854335 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:162872178 original size:28 final size:28
Alignment explanation
Indices: 162872107--162872205 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
162872097 ATAATAAGCC
*
162872107 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCGAACT
* *
162872135 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCGAACT
* * *
162872163 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCGAACT
162872192 CGCACACTTAGTGC
1 CGCACACTTAGTGC
162872206 CAATCTCATG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 42 0.69
29 19 0.31
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCGAACT
Found at i:162880590 original size:28 final size:28
Alignment explanation
Indices: 162880550--162880647 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
162880540 GTAATAAGCC
162880550 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATA-TCGAACT
* *
162880578 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACAT-ATCGAACT
* * *
162880606 TGCACACTTAGTGCTATACAT-TTGAACC
1 CGCACACTTAGTGCT-TACATATCGAACT
162880634 CGCACACTTAGTGC
1 CGCACACTTAGTGC
162880648 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.03
28 52 0.88
29 1 0.02
30 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTACATATCGAACT
Found at i:162885004 original size:6 final size:6
Alignment explanation
Indices: 162884972--162885025 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
162884962 AATAAAATTG
* * *
162884972 AAATGA AAAT-A AAATCA AAAGAA AAATAA AAAT-- AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
162885017 AAATAA AAA
1 AAATAA AAA
162885026 AATAAATAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 4 0.10
5 5 0.12
6 33 0.79
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:162885008 original size:22 final size:23
Alignment explanation
Indices: 162884972--162885025 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
162884962 AATAAAATTG
* *
162884972 AAATGAAAATAAAATCAAAAGAA
1 AAATAAAAATAAAATAAAAAGAA
*
162884995 AAATAAAAAT-AAATAAAAATAA
1 AAATAAAAATAAAATAAAAAGAA
162885017 AAATAAAAA
1 AAATAAAAA
162885026 AATAAATAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AAATAAAAATAAAATAAAAAGAA
Found at i:162885012 original size:16 final size:17
Alignment explanation
Indices: 162884951--162885024 Score: 71
Period size: 16 Copynumber: 4.3 Consensus size: 17
162884941 GATATGTCTT
*
162884951 TAAAATAAAATAATAAAAT
1 TAAAAT-AAA-AATAAAAA
* *
162884970 TGAAATGAAAAT-AAAA
1 TAAAATAAAAATAAAAA
*
162884986 TCAAAAGAAAAATAAAAA
1 T-AAAATAAAAATAAAAA
162885004 T-AAATAAAAATAAAAA
1 TAAAATAAAAATAAAAA
162885020 TAAAA
1 TAAAA
162885025 AAATAAATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
16 19 0.42
17 14 0.31
18 7 0.16
19 5 0.11
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (17 bp):
TAAAATAAAAATAAAAA
Found at i:162885032 original size:12 final size:12
Alignment explanation
Indices: 162884999--162885033 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
162884989 AAAGAAAAAT
162884999 AAAAATAAATAA
1 AAAAATAAATAA
162885011 AAATAA-AAATAA
1 AAA-AATAAATAA
162885023 AAAAATAAATA
1 AAAAATAAATA
162885034 GGAGGAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:162890095 original size:13 final size:13
Alignment explanation
Indices: 162890073--162890105 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
162890063 AAGGGTTTGT
162890073 TTAT-TAAACTAA
1 TTATCTAAACTAA
162890085 TTATCTAAACTAA
1 TTATCTAAACTAA
*
162890098 TTAACTAA
1 TTATCTAA
162890106 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:162892844 original size:29 final size:29
Alignment explanation
Indices: 162892802--162892860 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
162892792 TCTACTCTTC
162892802 TTCTTTAATCTGTACCAAATAAACCTTAG
1 TTCTTTAATCTGTACCAAATAAACCTTAG
162892831 TTCTTTAATCTGTACCAAATAAACCTTAG
1 TTCTTTAATCTGTACCAAATAAACCTTAG
162892860 T
1 T
162892861 CACCATACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (29 bp):
TTCTTTAATCTGTACCAAATAAACCTTAG
Found at i:162898471 original size:17 final size:18
Alignment explanation
Indices: 162898446--162898493 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
162898436 TATAAACACC
162898446 TATTATTTATTTTTA-CTT
1 TATT-TTTATTTTTATCTT
*
162898464 TTTTTTTATTTTTATCTT
1 TATTTTTATTTTTATCTT
*
162898482 TATTTATATTTT
1 TATTTTTATTTT
162898494 GAAATTACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTTTATTTTTATCTT
Found at i:162898475 original size:6 final size:6
Alignment explanation
Indices: 162898446--162898493 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
162898436 TATAAACACC
* * *
162898446 TATTATT TATTTT TACTTT T-TTTT TATTTT TATCTT TATTTA TATTTT
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
162898494 GAAATTACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
5 4 0.12
6 26 0.76
7 4 0.12
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:162902985 original size:22 final size:22
Alignment explanation
Indices: 162902960--162903030 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
162902950 GTGTTTGTAA
162902960 ATAAACCACCAGTAATTTATAG
1 ATAAACCACCAGTAATTTATAG
* * * * *
162902982 ATAAACTACCAATAAAATTGTGG
1 ATAAACCACCAGT-AATTTATAG
*
162903005 ATAAACCACCAGTATTTTA-AG
1 ATAAACCACCAGTAATTTATAG
162903026 ATAAA
1 ATAAA
162903031 AAGTTTCCAG
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
21 6 0.16
22 14 0.38
23 17 0.46
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (22 bp):
ATAAACCACCAGTAATTTATAG
Found at i:162908174 original size:29 final size:29
Alignment explanation
Indices: 162908132--162908192 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
162908122 GATGAGGCTT
* *
162908132 ACTAGTGGTGGCTAATTGTTAAAGAGGGC
1 ACTAGTCGTGGCTAACTGTTAAAGAGGGC
162908161 ACTAGTCGTGGCTAACTGTTAAAGAGGGC
1 ACTAGTCGTGGCTAACTGTTAAAGAGGGC
162908190 ACT
1 ACT
162908193 CAACCCGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
ACTAGTCGTGGCTAACTGTTAAAGAGGGC
Found at i:162910136 original size:59 final size:58
Alignment explanation
Indices: 162910040--162910171 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
162910030 AAAATTGTAC
162910040 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
162910098 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
162910157 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
162910172 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:162910160 original size:88 final size:89
Alignment explanation
Indices: 162910010--162910171 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
162910000 GACAAGATTG
* * *
162910010 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
162910075 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
162910099 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
162910163 AAGTGTGCG
66 AAGTGTGCG
162910172 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:162910183 original size:29 final size:29
Alignment explanation
Indices: 162910040--162910171 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
162910030 AAAATTGTAC
*
162910040 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
162910069 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
162910098 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
162910128 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
162910157 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
162910172 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:162913233 original size:40 final size:40
Alignment explanation
Indices: 162913174--162913315 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
162913164 AAATTGAATG
* * *
162913174 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
162913214 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
162913254 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
162913294 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
162913316 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:162913316 original size:40 final size:39
Alignment explanation
Indices: 162913213--162913341 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
162913203 TGCTGGAAAT
* * *
162913213 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
162913253 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
162913293 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
162913333 TATATCCGG
1 TATATCCGG
162913342 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:162921234 original size:40 final size:40
Alignment explanation
Indices: 162921168--162921334 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
162921158 AAATTGAATG
* * *
162921168 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
162921207 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
162921247 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
162921287 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
162921327 ATATCCGG
1 ATATCCGG
162921335 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:162933886 original size:40 final size:40
Alignment explanation
Indices: 162933831--162934036 Score: 254
Period size: 40 Copynumber: 5.2 Consensus size: 40
162933821 AATGATACCA
* *
162933831 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
* *
162933871 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
* *
162933911 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCC
* * ** *
162933951 GGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
* * * *
162933991 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
162934031 -GGCTAA
1 GGGCTAA
162934037 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
Found at i:162941332 original size:43 final size:43
Alignment explanation
Indices: 162941284--162941380 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
162941274 ATCTAAGCTC
*
162941284 ATTGAGTTGGTCTGAGTTCATGATATATGTGACATTTGTGCTT
1 ATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTT
162941327 ATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTT
1 ATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTT
162941370 ATTGAGTTGGT
1 ATTGAGTTGGT
162941381 GGTGGTTATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (43 bp):
ATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTT
Found at i:162941581 original size:255 final size:255
Alignment explanation
Indices: 162941125--162941605 Score: 854
Period size: 255 Copynumber: 1.9 Consensus size: 255
162941115 TTATGCCTAA
* * *
162941125 TGGTGGTTATGAAAGTATGATATTATGTTCGTTATCCACGACATCACGAGCAAGTGCGTTTGAAA
1 TGGTGGTTATGAAAGTATGATATTATGTTCGTTATCCACGACATCACGAGCAACTACATTTGAAA
162941190 TGTTATGTACATGTAAGAAAGAATCCCGTTTGAAACTTAGGAATAGTTTAAGATACAAATGACAT
66 TGTTATGTACATGTAAGAAAGAATCCCGTTTGAAACTTAGGAATAGTTTAAGATACAAATGACAT
* *
162941255 GTCACTAGAAAATTATATGATCTAAGCTCATTGAGTTGGTCTGAGTTCATGATATATGTGACATT
131 GTCACTAGAAAAATATATGATCTAAGCTCATTGAGTTGGTCTGAGTTCATGATATATGTGACATC
162941320 TGTGCTTATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTTATTGAGTTGG
196 TGTGCTTATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTTATTGAGTTGG
* *
162941380 TGGTGGTTATGAATGTATGATATTATGTTCGTTTTCCACGACATCACGAGCAACTACATTTGAAA
1 TGGTGGTTATGAAAGTATGATATTATGTTCGTTATCCACGACATCACGAGCAACTACATTTGAAA
* * * *
162941445 TGTTATGTACATGTAAGAAAGAATCTCGTTTGAACCTTAGGAATAGTTTAGGATACAAGTGACAT
66 TGTTATGTACATGTAAGAAAGAATCCCGTTTGAAACTTAGGAATAGTTTAAGATACAAATGACAT
*
162941510 GTCATTAGAAAAATATATGATCTAAGCTCATTGAGTTGGTCTGAGTTCATGATATATGTGACATC
131 GTCACTAGAAAAATATATGATCTAAGCTCATTGAGTTGGTCTGAGTTCATGATATATGTGACATC
162941575 TGTGCTTATTGAGTTGGTCTGAGTTCATGAT
196 TGTGCTTATTGAGTTGGTCTGAGTTCATGAT
162941606 GTTTATGACG
Statistics
Matches: 214, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
255 214 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (255 bp):
TGGTGGTTATGAAAGTATGATATTATGTTCGTTATCCACGACATCACGAGCAACTACATTTGAAA
TGTTATGTACATGTAAGAAAGAATCCCGTTTGAAACTTAGGAATAGTTTAAGATACAAATGACAT
GTCACTAGAAAAATATATGATCTAAGCTCATTGAGTTGGTCTGAGTTCATGATATATGTGACATC
TGTGCTTATTGAGTTGGTCTGAGTTCATGATATATGTGACATCTGTGCTTATTGAGTTGG
Found at i:162945741 original size:27 final size:27
Alignment explanation
Indices: 162945679--162945790 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
162945669 AGCATGGCTG
* * **
162945679 CCAGAATAGATAA-TGTGACAGAATCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
162945705 CCAGCTACAGATAATCGTGGCAGAGCCA
1 CCAG-AACAGATAATTGTGGCAGAGCCA
162945733 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
162945760 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
162945787 CCAG
1 CCAG
162945791 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.68
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:162946227 original size:16 final size:15
Alignment explanation
Indices: 162946206--162946235 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
162946196 AAAATACTGA
162946206 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
162946222 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
162946236 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:162947025 original size:22 final size:22
Alignment explanation
Indices: 162946998--162947040 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
162946988 ATAGAAGAAG
* *
162946998 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
162947020 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
162947041 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:162953387 original size:27 final size:27
Alignment explanation
Indices: 162953316--162953421 Score: 101
Period size: 27 Copynumber: 3.9 Consensus size: 27
162953306 GCTGCCAGAA
* ** *
162953316 CAGATAA-TGTGACAGAATCACCACAT
1 CAGATAATTGTGGCAGAGCCACCAAAT
*
162953342 ACAGATAATCGTGGCAGAGCCACCAGAAT
1 -CAGATAATTGTGGCAGAGCCACCA-AAT
162953371 -AGA-AATATGTGGCAGAGCCACCAAAT
1 CAGATAAT-TGTGGCAGAGCCACCAAAT
* *
162953397 CAGATAATTGTGACATAGCCACCAA
1 CAGATAATTGTGGCAGAGCCACCAA
162953422 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
26 6 0.09
27 43 0.65
28 15 0.23
29 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (27 bp):
CAGATAATTGTGGCAGAGCCACCAAAT
Found at i:162954927 original size:44 final size:44
Alignment explanation
Indices: 162954736--162954952 Score: 209
Period size: 44 Copynumber: 4.9 Consensus size: 44
162954726 GCCAAGCTAC
* *
162954736 CATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CTTCG
1 CATCCATAAGTGAACTCGGACTCAAC-CAACGAGTTCGGACCTCG
* *
162954780 CATCCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGCCTAG
1 CATCCATAAGTGAACTCGGACTCAAC-CAACGAGTTCGGA--CCTCG
* *
162954826 TTACAT-C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACGCT--
1 ---CATCCATAAGTGAACTCGGACTCAAC-CAACGAGTTCGGAC-CTCG
162954869 CATCCATAAGTGAACTCGGACTCAA-CAACGAGTTCGGACACTCG
1 CATCCATAAGTGAACTCGGACTCAACCAACGAGTTCGGAC-CTCG
*
162954913 CATCCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CATCCATAAGTGAACTCGGACTCAAC-CAACGAGTTCGGA
162954953 TGTCCAAATA
Statistics
Matches: 148, Mismatches: 9, Indels: 30
0.79 0.05 0.16
Matches are distributed among these distances:
40 3 0.02
41 11 0.07
42 7 0.05
43 35 0.24
44 42 0.28
45 2 0.01
46 24 0.16
47 20 0.14
48 1 0.01
49 3 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (44 bp):
CATCCATAAGTGAACTCGGACTCAACCAACGAGTTCGGACCTCG
Found at i:162957344 original size:15 final size:15
Alignment explanation
Indices: 162957315--162957364 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
162957305 CAAAGATAAC
*
162957315 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
162957329 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
162957344 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
162957359 AAGAAA
1 AAGAAA
162957365 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:162957373 original size:15 final size:15
Alignment explanation
Indices: 162957326--162957373 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
162957316 AGAAAACCGA
162957326 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
162957340 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
162957356 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
162957371 ATA
1 ATA
162957374 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:162958230 original size:13 final size:13
Alignment explanation
Indices: 162958212--162958240 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
162958202 TTTCTTATAC
162958212 ACATACACATATG
1 ACATACACATATG
162958225 ACATACACATATG
1 ACATACACATATG
162958238 ACA
1 ACA
162958241 CAACTTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (13 bp):
ACATACACATATG
Found at i:162960422 original size:93 final size:93
Alignment explanation
Indices: 162960310--162960481 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
162960300 GCCCATAAGT
* *
162960310 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
162960375 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
162960403 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
162960468 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
162960482 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:162960477 original size:46 final size:46
Alignment explanation
Indices: 162960302--162960477 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
162960292 TGTAACCCGC
* *
162960302 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
162960348 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
162960398 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
162960441 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
162960478 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:162965399 original size:46 final size:45
Alignment explanation
Indices: 162965226--162965396 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 45
162965216 ATTTGGGCAT
* * *
162965226 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAGCGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAAACGC
* * * *
162965271 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAA--ACGC
162965316 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAACGC
*
162965364 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
162965397 TGGGCGGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 29 0.27
46 32 0.30
47 28 0.26
48 5 0.05
50 6 0.06
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAAACGC
Found at i:162968942 original size:3 final size:3
Alignment explanation
Indices: 162968929--162969176 Score: 84
Period size: 3 Copynumber: 81.7 Consensus size: 3
162968919 TGAATTAATA
**
162968929 TAT TA- TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
162968975 TGT TAT CT-T TAT TAC TAT TAC TAT TGT TAT TAC TACT TCCAT TAT TTT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T--AT TAT TAT
* * *
162969023 TAT T-T CTAAC T-T TAT TTT TAT GTAT ATAT TAT TAT T-T ATAT CA-
1 TAT TAT -T-AT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT
* * * * *
162969066 TGT TAT TAT TAC TAT TAT TAAA TAT CT-T TAT TAT TAC TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * *
162969112 TGT TCCT T-T TAT TAT TGTT TAT CAT CAT TA- TAT TAT TAT TAT TAC
1 TAT T-AT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** *
162969157 TCC TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TA
162969177 CTTCTTTTTT
Statistics
Matches: 181, Mismatches: 42, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
2 13 0.07
3 148 0.82
4 17 0.09
5 2 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:162968948 original size:14 final size:14
Alignment explanation
Indices: 162968929--162968972 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
162968919 TGAATTAATA
162968929 TATTATATTATTAT
1 TATTATATTATTAT
162968943 TATTATATTATTAT
1 TATTATATTATTAT
162968957 TATTATTATTATTAT
1 TATTA-TATTATTAT
162968972 T
1 T
162968973 GCTGTTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:162973405 original size:53 final size:54
Alignment explanation
Indices: 162973338--162973474 Score: 208
Period size: 53 Copynumber: 2.6 Consensus size: 54
162973328 GTGACGAAGT
* *
162973338 CACCAGATATAGAT-ATTGTAGGCAGAGCCACCA-AACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGT-GGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
162973392 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
162973446 CA-CAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
162973475 AGGACGCTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
53 42 0.55
54 35 0.45
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:162973412 original size:27 final size:27
Alignment explanation
Indices: 162973338--162973474 Score: 158
Period size: 26 Copynumber: 5.1 Consensus size: 27
162973328 GTGACGAAGT
*
162973338 CACCAGATATAGATAT-TGTAGGCAGAGC
1 CACCAGA-ACAGATATATGT-GGCAGAGC
162973366 CACCA-AACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
162973392 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
162973419 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
162973446 CA-CAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
162973472 CAC
1 CAC
162973475 AGGACGCTTC
Statistics
Matches: 96, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.01
26 44 0.46
27 44 0.46
28 7 0.07
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:162973476 original size:26 final size:26
Alignment explanation
Indices: 162973320--162973474 Score: 154
Period size: 27 Copynumber: 5.8 Consensus size: 26
162973310 GCGAGGCTTC
* *
162973320 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
*
162973347 TAGATATTGTAGGCAGAGCCACCA-AA
1 CAGATATTGT-GGCAGAGCCACCAGAA
*
162973373 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
162973400 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
*
162973427 CAGATATATGTGGCAGAGCCA-CAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
162973453 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
162973475 AGGACGCTTC
Statistics
Matches: 108, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
26 43 0.40
27 53 0.49
28 11 0.10
29 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:162977448 original size:21 final size:20
Alignment explanation
Indices: 162977420--162977458 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
162977410 GTATGTGTTT
**
162977420 TGAAGTTTTTTGATAGATTA
1 TGAAGTTTGATGATAGATTA
162977440 TGAATGTTTGATGATAGAT
1 TGAA-GTTTGATGATAGAT
162977459 ATACAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
TGAAGTTTGATGATAGATTA
Found at i:162978315 original size:15 final size:15
Alignment explanation
Indices: 162978295--162978339 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
162978285 AAAATATTTG
162978295 AAATAATGTATATAT
1 AAATAATGTATATAT
162978310 AAATAA--TA-ATAT
1 AAATAATGTATATAT
162978322 AAATAATGTATATAT
1 AAATAATGTATATAT
162978337 AAA
1 AAA
162978340 AGAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.37
13 2 0.07
14 2 0.07
15 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (15 bp):
AAATAATGTATATAT
Found at i:162978325 original size:27 final size:28
Alignment explanation
Indices: 162978295--162978348 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
162978285 AAAATATTTG
*
162978295 AAATAATGTATATAT-AAATAATAATAT
1 AAATAATGTATATATAAAAGAATAATAT
162978322 AAATAATGTATATATAAAAGAATAATA
1 AAATAATGTATATATAAAAGAATAATA
162978349 ATATAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (28 bp):
AAATAATGTATATATAAAAGAATAATAT
Found at i:162979949 original size:17 final size:18
Alignment explanation
Indices: 162979927--162979967 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
162979917 TCTAGGCCAT
* *
162979927 TTGGGCTC-ATTTTAGGA
1 TTGGGCTCGATTTCAAGA
162979944 TTGGGC-CGATTTCAAGA
1 TTGGGCTCGATTTCAAGA
162979961 TTGGGCT
1 TTGGGCT
162979968 ATTGGGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (18 bp):
TTGGGCTCGATTTCAAGA
Found at i:162980368 original size:34 final size:34
Alignment explanation
Indices: 162980322--162980411 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
162980312 TTGAACAGTC
* **
162980322 TGGGCCTAAGCCCATATCAGTCGCAATATCAATA
1 TGGGCCTTAGCCCATATCAGTAACAATATCAATA
*
162980356 TGGGCCTTAGCCCA-ATACAGTAACAATATCAATG
1 TGGGCCTTAGCCCATAT-CAGTAACAATATCAATA
*
162980390 TGGGCCTTAGCCCATTTCAGTA
1 TGGGCCTTAGCCCATATCAGTA
162980412 CAGTATCCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 2 0.04
34 46 0.94
35 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAACAATATCAATA
Found at i:162981850 original size:30 final size:30
Alignment explanation
Indices: 162981792--162981850 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
162981782 TTTACGAGCC
* * *
162981792 TAGGGGCCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* *
162981822 TAGGGGTCAAAATGAAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
162981851 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:162982107 original size:18 final size:20
Alignment explanation
Indices: 162982071--162982117 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
162982061 AGTTGTAAGT
162982071 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
162982091 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
162982110 ATGATATA
1 AT-ATATA
162982118 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:162982545 original size:50 final size:50
Alignment explanation
Indices: 162982473--162982709 Score: 224
Period size: 50 Copynumber: 4.7 Consensus size: 50
162982463 TGAGTCACGT
* * **
162982473 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCAC
1 GTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGATAGGTCACAC
* ** * * * * **
162982523 GTATAGTACTAAGTGTAGGCTACTATGCATACCCG-TTAACTTCGATCACGT
1 GTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGA--TAGGTCACAC
* *** * * * *
162982574 GTGTAGTACTAAGTGTAGGCTATTATGTGTTTTAGATGGTTAAGTCACAT
1 GTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGATAGGTCACAC
* *
162982624 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACAT
1 GTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGATAGGTCACAC
* *
162982674 GTGTAGTACTAAGTGTAGCCTACTATGCGTACCAGA
1 GTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGA
162982710 GAGCTTCGGT
Statistics
Matches: 145, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
49 3 0.02
50 110 0.76
51 31 0.21
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
GTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGATAGGTCACAC
Found at i:162982644 original size:101 final size:101
Alignment explanation
Indices: 162982467--162982650 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 101
162982457 CCGTTGTGAG
* * **
162982467 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCACGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACACGTATAGTAC
*
162982532 TAAGTGTAGGCTACTATGCATACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCATACCCGTTAACTTCGA
* * * *** * * *
162982568 TCACGTGTGTAGTACTAAGTGTAGGCTATTATGTGTTTTAGATGGTTAAGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACACGTATAGTAC
162982633 TAAGTGCAGGCTACTATG
66 TAAGTGCAGGCTACTATG
162982651 TGTACCAGAT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACACGTATAGTAC
TAAGTGCAGGCTACTATGCATACCCGTTAACTTCGA
Found at i:162989063 original size:9 final size:9
Alignment explanation
Indices: 162989049--162989077 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
162989039 AACTTAAAGC
162989049 ACAATTGCA
1 ACAATTGCA
162989058 ACAATTGCA
1 ACAATTGCA
162989067 ACAATTGCA
1 ACAATTGCA
162989076 AC
1 AC
162989078 CGATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (9 bp):
ACAATTGCA
Found at i:162990648 original size:37 final size:36
Alignment explanation
Indices: 162990598--162990684 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
162990588 TACGAAGTCT
162990598 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
162990634 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
162990671 TCACCCGGAACATA
1 T-ACCCGG-ACATA
162990685 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:162990822 original size:49 final size:49
Alignment explanation
Indices: 162990753--162991015 Score: 418
Period size: 49 Copynumber: 5.4 Consensus size: 49
162990743 TTTACCACAT
*
162990753 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
162990802 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
162990851 ATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
162990900 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
162990949 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
162990998 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
162991016 GAATCTTGAT
Statistics
Matches: 202, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 202 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:162996007 original size:30 final size:30
Alignment explanation
Indices: 162995971--162996101 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
162995961 GACAAGATTG
* * * * *
162995971 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
162996001 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
162996029 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
162996059 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
162996088 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
162996102 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:162996062 original size:58 final size:58
Alignment explanation
Indices: 162995971--162996101 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
162995961 GACAAGATTG
* * * * * *
162995971 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
162996029 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
162996088 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
162996102 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:163003957 original size:30 final size:30
Alignment explanation
Indices: 163003921--163004051 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
163003911 GACAAGATTG
* * * * *
163003921 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
163003951 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
163003979 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
163004009 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
163004038 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
163004052 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:163004012 original size:58 final size:58
Alignment explanation
Indices: 163003921--163004051 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
163003911 GACAAGATTG
* * * * * *
163003921 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
163003979 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
163004038 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
163004052 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:163007009 original size:93 final size:93
Alignment explanation
Indices: 163006897--163007067 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
163006887 GCCCATAAGT
* *
163006897 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
163006962 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
163006990 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
163007055 CGAGTTCGGATGC
66 CGAGTTCGGATGC
163007068 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:163007083 original size:46 final size:46
Alignment explanation
Indices: 163006889--163007069 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
163006879 TGTAACCCGC
* * *
163006889 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
163006935 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
163006985 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
163007028 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
163007070 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:163009489 original size:30 final size:30
Alignment explanation
Indices: 163009445--163009533 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
163009435 CAAAGATAAC
163009445 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
163009474 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
163009504 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
163009534 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:163009493 original size:15 final size:15
Alignment explanation
Indices: 163009445--163009524 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
163009435 CAAAGATAAC
*
163009445 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
163009459 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
163009474 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
163009489 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
163009504 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
163009519 AAGAAA
1 AAGAAA
163009525 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:163009533 original size:15 final size:15
Alignment explanation
Indices: 163009456--163009533 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
163009446 AGAAAACCGA
163009456 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
163009471 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
163009485 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
163009500 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
163009516 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
163009531 ATA
1 ATA
163009534 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:163012546 original size:46 final size:47
Alignment explanation
Indices: 163012479--163012653 Score: 229
Period size: 46 Copynumber: 3.8 Consensus size: 47
163012469 TGTAACCCGC
*
163012479 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
*
163012525 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C--GTTCGCAT
* *
163012575 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAGC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
163012617 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
163012654 TGCCCATCCT
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 2 0.02
45 30 0.27
46 36 0.32
47 29 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
Found at i:163012645 original size:92 final size:92
Alignment explanation
Indices: 163012487--163012657 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 92
163012477 GCCCATAAGT
163012487 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
163012552 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
163012580 GAACTCGGACTCAACTCAACGAGTTCGGAGC-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-GCGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
163012644 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
163012658 CATCCTAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
92 47 0.62
93 27 0.36
94 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:163018539 original size:40 final size:40
Alignment explanation
Indices: 163018484--163018693 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
163018474 AACATTGGAA
163018484 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
163018524 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
163018564 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
163018604 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
163018643 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
163018684 CTATATCCGG
1 ATATATCCGG
163018694 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:163019472 original size:46 final size:45
Alignment explanation
Indices: 163019419--163019594 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
163019409 TATTTAGGCA
*
163019419 TCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
163019465 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
163019512 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
163019558 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
163019595 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:163019572 original size:93 final size:93
Alignment explanation
Indices: 163019413--163019586 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
163019403 CTAGGATATT
* * *
163019413 TAGGCATCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
163019478 AGTTGAGTCCGAGTTCGAGAGATGTAAC
66 AGTTGAGTCCGAGTTCGAGAGATGTAAC
* *
163019506 TAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
163019571 AGTTGAGTCCGAGTTC
66 AGTTGAGTCCGAGTTC
163019587 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
AGTTGAGTCCGAGTTCGAGAGATGTAAC
Found at i:163024431 original size:22 final size:22
Alignment explanation
Indices: 163024392--163024434 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
163024382 ATCACTCTTC
* *
163024392 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
163024414 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
163024435 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:163024538 original size:8 final size:8
Alignment explanation
Indices: 163024525--163024551 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
163024515 CGATTGCCTC
163024525 AAATCCCG
1 AAATCCCG
163024533 AAATCCCG
1 AAATCCCG
163024541 AAATCCCG
1 AAATCCCG
163024549 AAA
1 AAA
163024552 ACTTGATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.11
Consensus pattern (8 bp):
AAATCCCG
Found at i:163025241 original size:15 final size:16
Alignment explanation
Indices: 163025221--163025252 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
163025211 AGACTAGATT
163025221 GGTAAAA-GCCGAAAA
1 GGTAAAATGCCGAAAA
163025236 GGTAAAATGCCGAAAA
1 GGTAAAATGCCGAAAA
163025252 G
1 G
163025253 TCGGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.50, C:0.12, G:0.28, T:0.09
Consensus pattern (16 bp):
GGTAAAATGCCGAAAA
Found at i:163025752 original size:28 final size:27
Alignment explanation
Indices: 163025660--163025764 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
163025650 AGGAAGCGTC
*
163025660 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
163025687 CTGGTGGCTTTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
163025714 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
163025742 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
163025765 ATTCTGGCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:163025770 original size:54 final size:54
Alignment explanation
Indices: 163025660--163025771 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
163025650 AGGAAGCGTC
* * * *
163025660 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * *
163025714 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
163025768 CTGG
1 CTGG
163025772 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:163026008 original size:17 final size:17
Alignment explanation
Indices: 163025986--163026019 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
163025976 TGGGTTAATT
163025986 TTACACACTGAGTTTCC
1 TTACACACTGAGTTTCC
163026003 TTACACACTGAGTTTCC
1 TTACACACTGAGTTTCC
163026020 CTAAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (17 bp):
TTACACACTGAGTTTCC
Found at i:163030844 original size:29 final size:29
Alignment explanation
Indices: 163030797--163030879 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
163030787 ATCAGTCTCA
*
163030797 ACATATACTGGGCCGAAGCCTTTCATTAA-
1 ACATATACTGGGCTGAAGCCTTTCA-TAAT
163030826 ACGAT-TACTGGGCTGAAGCCTTTTCATAAT
1 AC-ATATACTGGGCTGAAGCC-TTTCATAAT
*
163030856 TCATATCACTGGGCTGAAGCCTTT
1 ACATAT-ACTGGGCTGAAGCCTTT
163030880 ACTGTAAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
29 21 0.45
30 12 0.26
31 14 0.30
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (29 bp):
ACATATACTGGGCTGAAGCCTTTCATAAT
Found at i:163031222 original size:11 final size:11
Alignment explanation
Indices: 163031191--163031238 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
163031181 ATATGAATAC
163031191 ATCATGTGCAT
1 ATCATGTGCAT
*
163031202 ATCA--TACAT
1 ATCATGTGCAT
163031211 ATCATGTGCAT
1 ATCATGTGCAT
*
163031222 ATCATGT-CAA
1 ATCATGTGCAT
163031232 ATCATGT
1 ATCATGT
163031239 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:163048469 original size:28 final size:28
Alignment explanation
Indices: 163048422--163048518 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
163048412 ATTTAAACCC
*
163048422 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
*
163048449 TAGGGGTAATTTCGGTAATTTTTCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
163048477 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
163048505 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
163048519 TGATCTATGC
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.14
28 54 0.86
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:163049168 original size:27 final size:27
Alignment explanation
Indices: 163049138--163049199 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
163049128 GGGCAAAATG
163049138 GTAATTTTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* *
163049165 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCA
163049192 GTAATTTT
1 GTAATTTT
163049200 TCAAACCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:163049213 original size:54 final size:54
Alignment explanation
Indices: 163049155--163049305 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
163049145 TACCCTACAA
** * * *
163049155 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
163049209 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
163049263 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
163049306 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:163049271 original size:81 final size:81
Alignment explanation
Indices: 163049153--163049305 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
163049143 TTTACCCTAC
** *
163049153 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
163049217 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
163049234 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
163049298 TGGTAATT
65 TGGTAATT
163049306 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:163049312 original size:27 final size:27
Alignment explanation
Indices: 163049182--163049305 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
163049172 TACCCTACAG
* *
163049182 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
163049209 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
163049236 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
163049263 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
163049290 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
163049306 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:163049319 original size:27 final size:26
Alignment explanation
Indices: 163049289--163049359 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
163049279 TTATAAACCA
* *
163049289 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAA-TC
***
163049316 AGGGTAAAACGGTAATTCTGTAAATC
1 AGGGTAATTTGGTAATTCTGTAAATC
*
163049342 AGGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
163049360 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
AGGGTAATTTGGTAATTCTGTAAATC
Found at i:163049321 original size:54 final size:54
Alignment explanation
Indices: 163049182--163049305 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
163049172 TACCCTACAG
* *
163049182 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
163049236 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
163049290 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
163049306 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:163049331 original size:81 final size:81
Alignment explanation
Indices: 163049179--163049332 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
163049169 TTTTACCCTA
* * ***
163049179 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
163049244 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
163049260 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
163049324 ACGGTAATT
65 ACAGTAATT
163049333 CTGTAAATCA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:163054495 original size:70 final size:71
Alignment explanation
Indices: 163054412--163054574 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
163054402 CGATTTGTCT
163054412 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
163054476 CTTTCA
66 CTTTCA
*
163054482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
163054547 CTTTCA
66 CTTTCA
163054553 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
163054575 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:163054612 original size:71 final size:70
Alignment explanation
Indices: 163054412--163054608 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
163054402 CGATTTGTCT
* * * *
163054412 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
163054476 CTTTCA
65 CTTTCA
* * * *
163054482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
163054547 CTTTCA
65 CTTTCA
* *
163054553 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
163054609 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:163062737 original size:17 final size:18
Alignment explanation
Indices: 163062695--163062743 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
163062685 AGTTGAAAAG
163062695 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
163062714 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
163062731 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
163062744 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:163063631 original size:40 final size:40
Alignment explanation
Indices: 163063565--163063731 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
163063555 AAATTGAATG
* * *
163063565 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
163063604 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
163063644 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
163063684 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
163063724 ATATCCGG
1 ATATCCGG
163063732 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Done.