Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 88 of 425
Found at i:25351579 original size:27 final size:27
Alignment explanation
Indices: 25351549--25351633 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
25351539 CAGCGACGAT
*
25351549 AATATAATCGGCACACAGCCATGAGTA
1 AATATGATCGGCACACAGCCATGAGTA
* * * * *
25351576 AATATGATCGACACAGAGTCATCAATA
1 AATATGATCGGCACACAGCCATGAGTA
* *
25351603 AATATGATAGGCACATAGCCACTG-GTA
1 AATATGATCGGCACACAGCCA-TGAGTA
25351630 AATA
1 AATA
25351634 CGATTTGCAG
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (27 bp):
AATATGATCGGCACACAGCCATGAGTA
Found at i:25353434 original size:12 final size:12
Alignment explanation
Indices: 25353414--25353466 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
25353404 CTATATTTTC
* *
25353414 CTCCTTAAATCT
1 CTCCATAAATCA
25353426 CTCCATAAATCA
1 CTCCATAAATCA
**
25353438 CTCC-TTGATACA
1 CTCCATAAAT-CA
25353450 CTCCATAAATCA
1 CTCCATAAATCA
25353462 CTCCA
1 CTCCA
25353467 ACCTCCCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 3 0.09
12 27 0.82
13 3 0.09
ACGTcount: A:0.32, C:0.36, G:0.02, T:0.30
Consensus pattern (12 bp):
CTCCATAAATCA
Found at i:25355937 original size:30 final size:30
Alignment explanation
Indices: 25355903--25355964 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
25355893 AACACCAAAT
*
25355903 CCACCACCTGAAG-CAACCCCAGAAAACCCA
1 CCACCACCTGAAGCCAA-ACCAGAAAACCCA
*
25355933 CCACCACCTGAAGCCAAACCAGCAAACCCA
1 CCACCACCTGAAGCCAAACCAGAAAACCCA
25355963 CC
1 CC
25355965 TCCTGTCGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.39, C:0.48, G:0.10, T:0.03
Consensus pattern (30 bp):
CCACCACCTGAAGCCAAACCAGAAAACCCA
Found at i:25355963 original size:27 final size:27
Alignment explanation
Indices: 25355898--25355969 Score: 65
Period size: 30 Copynumber: 2.6 Consensus size: 27
25355888 GCTGGAACAC
* *
25355898 CAAATCCACCACCTGAAGCAACCCCAG
1 CAAACCCACCACCTGAAGCAACACCAG
*
25355925 AAAACCCACCACCACCTGAAGCCAA-ACCAG
1 CAAA--C-CCACCACCTGAAG-CAACACCAG
*
25355955 CAAACCCACCTCCTG
1 CAAACCCACCACCTG
25355970 TCGCAGCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
27 12 0.33
28 1 0.03
30 20 0.56
31 3 0.08
ACGTcount: A:0.38, C:0.46, G:0.10, T:0.07
Consensus pattern (27 bp):
CAAACCCACCACCTGAAGCAACACCAG
Found at i:25363367 original size:74 final size:74
Alignment explanation
Indices: 25363279--25363429 Score: 205
Period size: 74 Copynumber: 2.0 Consensus size: 74
25363269 TGGTAAAAAC
* * * *
25363279 ATTTGAAAACAAATTCTAAGAATCTTTCAGCACAAAACACAAGATGACACTATCTTGT-AGAAAA
1 ATTTGAAAACAAATTATAAAAATCTTTCAGCACAAAACACAAGATAACACTATATTGTCA-AAAA
25363343 TGCCACACTA
65 TGCCACACTA
* ** *
25363353 ATTTGAAAACAAATTATAAAAATCTTTCAGCATAAAGTATAAGATAACACTATATTGTCAAAAAT
1 ATTTGAAAACAAATTATAAAAATCTTTCAGCACAAAACACAAGATAACACTATATTGTCAAAAAT
*
25363418 GCCACAGTA
66 GCCACACTA
25363427 ATT
1 ATT
25363430 ATGTCTACCA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
74 66 0.99
75 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (74 bp):
ATTTGAAAACAAATTATAAAAATCTTTCAGCACAAAACACAAGATAACACTATATTGTCAAAAAT
GCCACACTA
Found at i:25365487 original size:28 final size:28
Alignment explanation
Indices: 25365447--25365503 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25365437 AAGATTACAC
25365447 TATGAAAATTGGCAAAACAAGGCAAATT
1 TATGAAAATTGGCAAAACAAGGCAAATT
25365475 TATGAAAATTGGCAAAACAAGGCAAATT
1 TATGAAAATTGGCAAAACAAGGCAAATT
25365503 T
1 T
25365504 TTGCCCGCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.23
Consensus pattern (28 bp):
TATGAAAATTGGCAAAACAAGGCAAATT
Found at i:25367502 original size:59 final size:59
Alignment explanation
Indices: 25367407--25367523 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
25367397 CTCTTAATGA
* *
25367407 AAGAGTAACTTATTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGGTGCTACAGT
1 AAGAGTAACTTATTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGCTGCCACAGT
* *
25367466 AAGAGTACCTTATTAAGAAGGGAGCTGACACTGAAGAAATGAATATCAGCTGCCACAG
1 AAGAGTAACTTATTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGCTGCCACAG
25367524 AAACTGCAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.20
Consensus pattern (59 bp):
AAGAGTAACTTATTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGCTGCCACAGT
Found at i:25369132 original size:16 final size:16
Alignment explanation
Indices: 25369111--25369144 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25369101 TCTTTAAAGT
25369111 AATTTTTTATTGAGAC
1 AATTTTTTATTGAGAC
*
25369127 AATTTTTTATTGGGAC
1 AATTTTTTATTGAGAC
25369143 AA
1 AA
25369145 GTGGGGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (16 bp):
AATTTTTTATTGAGAC
Found at i:25370064 original size:20 final size:20
Alignment explanation
Indices: 25370036--25370084 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25370026 TTTCCCTTAA
* * *
25370036 ATTAATTTATTTATAAGATT
1 ATTATTTTATTTAGAAAATT
25370056 ATTATTTTATTTAGAAAATT
1 ATTATTTTATTTAGAAAATT
25370076 ATTATTTTA
1 ATTATTTTA
25370085 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTATTTTATTTAGAAAATT
Found at i:25370094 original size:20 final size:21
Alignment explanation
Indices: 25370048--25370095 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
25370038 TAATTTATTT
* *
25370048 ATAAGATTATTATTTTATTTAG
1 ATAA-ATTATTATTTTATATAA
25370070 A-AAATTATTATTTTA-ATAA
1 ATAAATTATTATTTTATATAA
25370089 ATAAATT
1 ATAAATT
25370096 TCATGTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 2 0.09
22 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
ATAAATTATTATTTTATATAA
Found at i:25370197 original size:8 final size:9
Alignment explanation
Indices: 25370180--25370224 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
25370170 GAAAAATAAT
25370180 TTTTTAAAA
1 TTTTTAAAA
25370189 TTTTT-AAA
1 TTTTTAAAA
25370197 TTTTTAAAA
1 TTTTTAAAA
25370206 TTTTT-AAA
1 TTTTTAAAA
25370214 --TTTAAAA
1 TTTTTAAAA
25370221 TTTT
1 TTTT
25370225 GAATTCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 3 0.09
7 3 0.09
8 11 0.34
9 15 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:25370200 original size:17 final size:17
Alignment explanation
Indices: 25370180--25370224 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
25370170 GAAAAATAAT
25370180 TTTTTAAAATTTTTAAA
1 TTTTTAAAATTTTTAAA
25370197 TTTTTAAAATTTTTAAA
1 TTTTTAAAATTTTTAAA
25370214 --TTTAAAATTTT
1 TTTTTAAAATTTT
25370225 GAATTCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 11 0.39
17 17 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAAATTTTTAAA
Found at i:25371541 original size:15 final size:15
Alignment explanation
Indices: 25371521--25371550 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25371511 TTTGACTAGT
*
25371521 TAAAATAATTTTTAC
1 TAAAATAAATTTTAC
25371536 TAAAATAAATTTTAC
1 TAAAATAAATTTTAC
25371551 ATGATTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATAAATTTTAC
Found at i:25375938 original size:25 final size:25
Alignment explanation
Indices: 25375908--25375985 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
25375898 TAGGATTTTA
25375908 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
25375933 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
25375955 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
25375980 TGTGAT
1 TGTGAT
25375986 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:25375958 original size:47 final size:47
Alignment explanation
Indices: 25375907--25376480 Score: 878
Period size: 47 Copynumber: 12.1 Consensus size: 47
25375897 TTAGGATTTT
*
25375907 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
25375954 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
25376001 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
25376048 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
25376095 ATGTGATGAACGTGAACATGCGTATGTGTGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
25376142 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
25376193 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
25376240 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
25376287 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
25376334 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
25376381 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * * *
25376428 ATGTGATGAATGTGAACATGTATATATGTGGTAAAGCCAAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
25376475 ATGTGA
1 ATGTGA
25376481 GATATGTATG
Statistics
Matches: 490, Mismatches: 33, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 447 0.91
48 1 0.00
50 1 0.00
51 41 0.08
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:25376268 original size:25 final size:25
Alignment explanation
Indices: 25376193--25376271 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
25376183 CGAATGGCCA
25376193 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
25376218 ATGAGAT-AAGGTCG-A-ATGGC-CA-
1 ATGTGATGAATGT-GAACAT-GCATAT
*
25376240 ATGTGATGAATGTGAACATGTATAT
1 ATGTGATGAATGTGAACATGCATAT
25376265 ATGTGAT
1 ATGTGAT
25376272 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 7 0.17
23 9 0.22
24 10 0.25
25 14 0.35
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:25376292 original size:239 final size:236
Alignment explanation
Indices: 25375907--25376480 Score: 936
Period size: 239 Copynumber: 2.4 Consensus size: 236
25375897 TTAGGATTTT
* *
25375907 ATGTGATGAATGTGAACATGCGTATGT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * * *
25375971 ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAG
66 ATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAG
*
25376036 GCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGA
131 GCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA
25376101 TGAACGTGAACATGCGTATGTGTGATAAGGCCGAATGGCAA
196 TGAACGTGAACATGCGTATGTGTGATAAGGCCGAATGGCAA
* *
25376142 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACATG--CATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
25376207 AACATGCATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGAT
63 AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGAT
25376272 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
128 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
* *
25376337 TGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
193 TGATGAACGTGAACATGCGTATGTGTGATAAGGCCGAATGGCAA
*
25376381 ATGTGATGAATGTGAACATGCATATAT-GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * * * * *
25376445 ATGTATATATGTGGTAAAGCCAAATGGCTAATGTGA
66 ATGCATATATGAGATAAGGCCGAATGGCCAATGTGA
25376481 GATATGTATG
Statistics
Matches: 313, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
235 84 0.27
237 10 0.03
239 219 0.70
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (236 bp):
ATGTGATGAATGTGAACATGCATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA
TGAACGTGAACATGCGTATGTGTGATAAGGCCGAATGGCAA
Found at i:25376342 original size:286 final size:286
Alignment explanation
Indices: 25375907--25376454 Score: 952
Period size: 286 Copynumber: 1.9 Consensus size: 286
25375897 TTAGGATTTT
* * *
25375907 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
25375972 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGG
*
25376037 CCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
* * * *
25376102 GAACGTGAACATGCGTATGTGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACCTGTATAT
196 GAACGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGTATAT
25376167 ATATGCGTGATAAGGCCGAATGGCCA
261 ATATGCGTGATAAGGCCGAATGGCCA
*
25376193 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
25376258 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGG
25376323 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
* *
25376388 GAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
196 GAACGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGTATAT
25376453 AT
261 AT
25376455 GTGGTAAAGC
Statistics
Matches: 246, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
286 246 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (286 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
GAACGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGTATAT
ATATGCGTGATAAGGCCGAATGGCCA
Found at i:25385679 original size:7 final size:6
Alignment explanation
Indices: 25385658--25385691 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
25385648 ATTTATTCTA
* *
25385658 TTTTAT TTTTAT TTTTAG TTTTAT TTATAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
25385692 TGTTATTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:25397183 original size:29 final size:27
Alignment explanation
Indices: 25397149--25397251 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
25397139 TACTCGATCA
*
25397149 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
25397178 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
25397207 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
25397236 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25397252 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:25405185 original size:29 final size:27
Alignment explanation
Indices: 25405151--25405253 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
25405141 TACTCGATCA
*
25405151 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
25405180 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
25405209 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
25405238 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25405254 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:25409405 original size:40 final size:40
Alignment explanation
Indices: 25409324--25409581 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
25409314 AAACCAAGTA
** * *
25409324 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
25409363 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25409403 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25409443 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
25409483 CCTTCGGGACTT-G-CCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25409521 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
25409561 CCTTCGGG-CTTAGCCC-GTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
25409582 CAATCCGAAT
Statistics
Matches: 206, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
38 41 0.20
39 23 0.11
40 142 0.69
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:25409538 original size:78 final size:79
Alignment explanation
Indices: 25409324--25409581 Score: 396
Period size: 78 Copynumber: 3.3 Consensus size: 79
25409314 AAACCAAGTA
** * *
25409324 CCTTCGGGGTTTAGCCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
25409388 TAACTCGCACAATTG
65 TAACTCGCACAAATG
* *
25409403 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAG-CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
25409468 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
25409483 CCTTCGGGACTT-GCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
25409547 AACTCGCACAAATG
66 AACTCGCACAAATG
*
25409561 CCTTCGGG-CTTAGCCCGTTAT
1 CCTTCGGGACTTAGCCGGTTAT
25409582 CAATCCGAAT
Statistics
Matches: 165, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
77 3 0.02
78 78 0.47
79 14 0.08
80 70 0.42
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:25409553 original size:118 final size:118
Alignment explanation
Indices: 25409324--25409581 Score: 387
Period size: 118 Copynumber: 2.2 Consensus size: 118
25409314 AAACCAAGTA
* * * *
25409324 CCTTCGGGGTTTAGCCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTC-GGGCTTAGCCCGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
* * *
25409388 TAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
64 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25409443 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT-G-CCGGTTATAG
1 CCTTCGGG-CTTAGCCC-GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
25409506 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25409561 CCTTCGGGCTTAGCCCGTTAT
1 CCTTCGGGCTTAGCCCGTTAT
25409582 CAATCCGAAT
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
116 5 0.04
117 7 0.06
118 73 0.57
119 12 0.09
120 30 0.24
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (118 bp):
CCTTCGGGCTTAGCCCGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25417537 original size:40 final size:40
Alignment explanation
Indices: 25417456--25417676 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
25417446 AAACCAAGTA
** * *
25417456 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
25417495 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25417535 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25417575 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25417615 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
25417655 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
25417677 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:25425399 original size:40 final size:40
Alignment explanation
Indices: 25425317--25425577 Score: 252
Period size: 40 Copynumber: 6.6 Consensus size: 40
25425307 AAACCAAGTA
** * *
25425317 CCTTCGGGGTTTAGCCGGA-TATAGCT-ACTCGCTCAA-ATG
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAATA-G
* *
25425356 CCTTCGTGACTTAGCCCGATTATAGTAACTCGTACAATAG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATAG
* * *
25425396 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGGACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATAG
*
25425436 CCTTCGGGACTTGGCCC-AGTTATAGTAACTCGCACAA-ATG
1 CCTTCGGGACTTAGCCCGA-TTATAGTAACTCGCACAATA-G
* * * * *
25425476 CCTTCGGGACTTGGCTCGGTTATAGTATCTCGGACAAATA-
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCAC-AATAG
*
25425516 CCTTCGGGACTTAGCCGGGA-TATAGTAACTCGCACAA-ATG
1 CCTTCGGGACTTAGCC-CGATTATAGTAACTCGCACAATA-G
25425556 CCTTCGGG-CTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGATTAT
25425578 CAATCCGAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.02
39 28 0.15
40 149 0.81
41 4 0.02
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATAG
Found at i:25425459 original size:80 final size:79
Alignment explanation
Indices: 25425350--25425577 Score: 307
Period size: 80 Copynumber: 2.9 Consensus size: 79
25425340 GCTACTCGCT
* *
25425350 CAAATGCCTTCGTGACTTAGCCCGATTATAGTAACTCGTAC-AATAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG-TTATAGTAACTCGCACAAAT-GCCTTCGGGACTTAGCCCG
25425414 GTTATAGTAACTCGGA
64 GTTATAGTAACTCGGA
* * * *
25425430 CAATTGCCTTCGGGACTTGGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTGGCTCGG
1 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
25425495 TTATAGTATCTCGGA
65 TTATAGTAACTCGGA
* * * *
25425510 CAAATACCTTCGGGACTTAGCCGGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGACTTAGCC-CGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
25425574 TTAT
65 TTAT
25425578 CAATCCGAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
79 11 0.08
80 115 0.88
81 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
TATAGTAACTCGGA
Found at i:25425558 original size:120 final size:119
Alignment explanation
Indices: 25425343--25425571 Score: 325
Period size: 120 Copynumber: 1.9 Consensus size: 119
25425333 GGATATAGCT
* * *
25425343 ACTCGCTCAAATGCCTTCGTGACTTAGCCCGATTATAGTAACTCGTACAATAGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGGACAATAGCCTTCGGGACTT
* * * *
25425408 AGCCCGGTTATAGTAACTCGGACAATTGCCTTCGGGACTTGGCCCAGTTATAGTA
66 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCAGTTATAGTA
* * * *
25425463 ACTCGCACAAATGCCTTCGGGACTTGGCTCGGTTATAGTATCTCGGACAAATA-CCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGGAC-AATAGCCTTCGGGACT
*
25425527 TAGCCGGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCC
65 TAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCC
25425572 GATTATCAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 7 0.07
120 85 0.89
121 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (119 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGGACAATAGCCTTCGGGACTT
AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCAGTTATAGTA
Found at i:25427871 original size:31 final size:31
Alignment explanation
Indices: 25427833--25427896 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
25427823 CCTTTTCATA
25427833 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
25427864 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
25427895 TT
1 TT
25427897 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:25428167 original size:23 final size:24
Alignment explanation
Indices: 25428088--25428181 Score: 129
Period size: 24 Copynumber: 3.9 Consensus size: 24
25428078 GCTTTATCAT
* *
25428088 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTCA
*
25428113 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTCA
25428137 ATAACTGGGGCATAAGCCCTTTC-
1 ATAACTGGGGCATAAGCCCTTTCA
25428160 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
25428182 TTCACTTCCT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
23 22 0.34
24 30 0.47
25 12 0.19
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTCA
Found at i:25428258 original size:20 final size:20
Alignment explanation
Indices: 25428233--25428292 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
25428223 TATGATTACC
25428233 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
25428253 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
25428273 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
25428293 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:25428263 original size:11 final size:11
Alignment explanation
Indices: 25428233--25428287 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
25428223 TATGATTACC
25428233 TCATGTGCATA
1 TCATGTGCATA
*
25428244 TCA--TACATA
1 TCATGTGCATA
25428253 TCATGTGCATA
1 TCATGTGCATA
* *
25428264 TCA--TACATT
1 TCATGTGCATA
25428273 TCATGTGCATA
1 TCATGTGCATA
25428284 TCAT
1 TCAT
25428288 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:25428367 original size:25 final size:25
Alignment explanation
Indices: 25428335--25428382 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25428325 ATACATAAAC
* * *
25428335 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
25428360 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
25428383 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:25434917 original size:32 final size:32
Alignment explanation
Indices: 25434879--25434939 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
25434869 ATGTGATTAC
25434879 ATGTAAGACCATGTCT-GGTACATTGGCATTGT
1 ATGTAAGACCATGTCTAGG-ACATTGGCATTGT
25434911 ATGTAAGACCATGTCTAGGACATTGGCAT
1 ATGTAAGACCATGTCTAGGACATTGGCAT
25434940 CGTTATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (32 bp):
ATGTAAGACCATGTCTAGGACATTGGCATTGT
Found at i:25437693 original size:23 final size:23
Alignment explanation
Indices: 25437667--25437714 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
25437657 TAAGCACGGA
25437667 AAATAATATTAAAATATTTTTCT
1 AAATAATATTAAAATATTTTTCT
*
25437690 AAATAGTATTAAAATATTTTTCT
1 AAATAATATTAAAATATTTTTCT
25437713 AA
1 AA
25437715 CTCGAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATAATATTAAAATATTTTTCT
Found at i:25439750 original size:37 final size:37
Alignment explanation
Indices: 25439700--25439775 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
25439690 TGCTTGGATC
25439700 AACTCGGATACCTGATGCTAACACTATATGGCCCAAA
1 AACTCGGATACCTGATGCTAACACTATATGGCCCAAA
25439737 AACTCGGATACCTGATGCTAACACTATATGGCCCAAA
1 AACTCGGATACCTGATGCTAACACTATATGGCCCAAA
25439774 AA
1 AA
25439776 ACCAACTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (37 bp):
AACTCGGATACCTGATGCTAACACTATATGGCCCAAA
Found at i:25447397 original size:21 final size:21
Alignment explanation
Indices: 25447373--25447414 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25447363 TCATCAGATC
*
25447373 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
25447394 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
25447415 AGGTAGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:25453749 original size:48 final size:47
Alignment explanation
Indices: 25453693--25454015 Score: 232
Period size: 48 Copynumber: 6.7 Consensus size: 47
25453683 GGGTGAATTG
* *
25453693 CCGATGCCATGTCCCAGACATGGTCGTACACTAGCTCTCGTCTCAATC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATC
* * *
25453741 CCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-C
* * * * * *
25453789 CTGATGACATGTCCCAGACATGGTCTGACACTAG-TGCACATATCGACC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTC-TATCAATC
* * *
25453837 CCAATGCCATGTCCCAAACATGGTCTTACACTAG-TGCACCTATCAA-C
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-C-TCTATCAATC
* * * *
25453884 GCCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTC-AT-AATGTGG
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-C
* ** * *
25453933 CCAATGCCATGTCTGAGACATGGTCTTACACTGGCTCTC-AT-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-C
*
25453981 CCAATGCCATGTCCCAGACATGGTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
25454016 GCACATATCA
Statistics
Matches: 226, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
45 4 0.02
46 3 0.01
47 4 0.02
48 210 0.93
49 2 0.01
50 2 0.01
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATC
Found at i:25453864 original size:96 final size:96
Alignment explanation
Indices: 25453692--25454024 Score: 329
Period size: 96 Copynumber: 3.5 Consensus size: 96
25453682 AGGGTGAATT
* * * * * * *
25453692 GCCGATGCCATGTCCCAGACATGGTC-GTACACTAGCTCTCGTCTCAATCCCGATGCCACGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTG-ACACTAGCTCACATATCGACCCCAATGCCATGTCCC
25453756 AGACATGGTCTTACACTGGCTCTCATAATGTG
65 AGACATGGTCTTACACTGGCTCTCATAATGTG
* *
25453788 GCTGATGACATGTCCCAGACATGGTCTGACACTAG-TGCACATATCGACCCCAATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCT-CACATATCGACCCCAATGCCATGTCCC
* * *
25453852 AAACATGGTCTTACACTAGTGCAC-CTATCAA---C
65 AGACATGGTCTTACACT-G-GCTCTC-AT-AATGTG
* * * * * *** **
25453884 GCCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCCAATGCCATGTCTG
1 GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCTCACAT-ATCGACCCCAATGCCATGTCCC
25453948 AGACATGGTCTTACACTGGCTCTCATAATGTG
65 AGACATGGTCTTACACTGGCTCTCATAATGTG
* * *
25453980 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
1 GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCTCACATATC
25454025 ACCAAAATGT
Statistics
Matches: 191, Mismatches: 33, Indels: 26
0.76 0.13 0.10
Matches are distributed among these distances:
93 2 0.01
94 5 0.03
95 5 0.03
96 166 0.87
97 6 0.03
98 5 0.03
99 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCTCACATATCGACCCCAATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:25453956 original size:144 final size:144
Alignment explanation
Indices: 25453696--25454025 Score: 407
Period size: 144 Copynumber: 2.3 Consensus size: 144
25453686 TGAATTGCCG
* * * *
25453696 ATGCCATGTCCCAGACATGGTCGTACACTAGCT-CTCGTCTCAATCCCGATGCCACGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAATCCCGATGCCACGTCCCAGAC
**
25453760 ATGGTCTTACACTGGCTCTCATAATGTGGCTGATGACATGTCCCAGACATGGTCTGACACTAG-T
65 ATGGTCTTACACTGGCTCTCATAATGTGGCCAATGACATGTCCCAGACATGGTCTGACACTAGCT
25453824 GCACAT-ATCGACCCCA
130 -CACATAAT-GACCCCA
* * * *
25453840 ATGCCATGTCCCAAACATGGTCTTACACTAGTGCACCTATCAA-CGCCGATGCCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATC-CCGATGCCACGTCCCAGAC
* * ** * *
25453904 ATGGTCTTATACTGGCTCTCATAATGTGGCCAATGCCATGTCTGAGACATGGTCTTACACTGGCT
65 ATGGTCTTACACTGGCTCTCATAATGTGGCCAATGACATGTCCCAGACATGGTCTGACACTAGCT
* ***
25453969 CTCATAATGTGGCCA
130 CACATAATGACCCCA
*
25453984 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCA
25454026 CCAAAATGTC
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
143 2 0.01
144 155 0.97
145 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATCCCGATGCCACGTCCCAGACA
TGGTCTTACACTGGCTCTCATAATGTGGCCAATGACATGTCCCAGACATGGTCTGACACTAGCTC
ACATAATGACCCCA
Found at i:25460642 original size:13 final size:13
Alignment explanation
Indices: 25460624--25460654 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25460614 GTGCAGAGGA
25460624 CACACGGCCGTAC
1 CACACGGCCGTAC
*
25460637 CACACGGCCTTAC
1 CACACGGCCGTAC
25460650 CACAC
1 CACAC
25460655 ACCCATGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.48, G:0.16, T:0.10
Consensus pattern (13 bp):
CACACGGCCGTAC
Found at i:25461591 original size:96 final size:96
Alignment explanation
Indices: 25461427--25461661 Score: 298
Period size: 96 Copynumber: 2.4 Consensus size: 96
25461417 GGTGAATTGT
* * * * *
25461427 CGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAT-ATCGTGGCCAATGCCATGTCCCAA
* * *
25461491 ACATGGTCTTACACTAGCT-CTA-GTCTCAATGC
65 ACATGGTCTTACACTAG-TAC-ACCTATCAACGC
* *
25461523 CGATGCCATGTCCCAGACATGGCCTTACACTAGCGCACATATCGAT-GTCAATGCCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCG-TGGCCAATGCCATGTCCCAA
*
25461587 ACATGGTCTTACACTAGTACACCTATCAACGT
65 ACATGGTCTTACACTAGTACACCTATCAACGC
*
25461619 CGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
25461662 ACCCAAATGT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
95 4 0.03
96 117 0.96
97 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCGTGGCCAATGCCATGTCCCAAA
CATGGTCTTACACTAGTACACCTATCAACGC
Found at i:25461652 original size:48 final size:48
Alignment explanation
Indices: 25461424--25461662 Score: 256
Period size: 48 Copynumber: 5.0 Consensus size: 48
25461414 TAGGGTGAAT
* *
25461424 TGTCGATGCCATATCCCAGACATGGTCTTACACT-G-GCTC-TCAT-AA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACAT-ATCAA
* * *
25461469 TGTGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTA-GTCTCAA
1 TGT---CGATGCCATGTCCCAGACATGGTCTTACACTAG-TGC-ACATATCAA
* * * *
25461520 TGCCGATGCCATGTCCCAGACATGGCCTTACACTAGCGCACATATCGA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAA
* * * *
25461568 TGTCAATGCCATGTCCCAAACATGGTCTTACACTAGTACACCTATCAA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAA
*
25461616 CGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCA
25461663 CCCAAATGTT
Statistics
Matches: 159, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
47 1 0.01
48 147 0.92
49 1 0.01
50 2 0.01
51 5 0.03
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAA
Found at i:25467372 original size:12 final size:12
Alignment explanation
Indices: 25467355--25467380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25467345 CATGTGTACC
25467355 CGGGCAGAGACA
1 CGGGCAGAGACA
25467367 CGGGCAGAGACA
1 CGGGCAGAGACA
25467379 CG
1 CG
25467381 AGCGTGTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.42, T:0.00
Consensus pattern (12 bp):
CGGGCAGAGACA
Found at i:25472216 original size:28 final size:28
Alignment explanation
Indices: 25472170--25472238 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
25472160 TTTAAAACCC
*
25472170 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
25472197 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
25472225 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
25472239 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:25474078 original size:33 final size:33
Alignment explanation
Indices: 25474041--25474105 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
25474031 CAATGAATAC
25474041 TTAGTTTTCATTCATGGTTCAATCATAATTGAT
1 TTAGTTTTCATTCATGGTTCAATCATAATTGAT
25474074 TTAGTTTTCATTCATGGTTCAATCATAATTGA
1 TTAGTTTTCATTCATGGTTCAATCATAATTGA
25474106 GTTAAATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (33 bp):
TTAGTTTTCATTCATGGTTCAATCATAATTGAT
Found at i:25476806 original size:34 final size:34
Alignment explanation
Indices: 25476733--25476799 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
25476723 TTGAAAAATA
25476733 TTAAGTTCTGTTTGAATGATAAATTTTAATGGAG
1 TTAAGTTCTGTTTGAATGATAAATTTTAATGGAG
* *
25476767 TTAAGTTCTGTTTGAATGATGAATTTTGATGGA
1 TTAAGTTCTGTTTGAATGATAAATTTTAATGGA
25476800 TATAAGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (34 bp):
TTAAGTTCTGTTTGAATGATAAATTTTAATGGAG
Found at i:25477310 original size:12 final size:12
Alignment explanation
Indices: 25477293--25477318 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25477283 GATTATGAGT
25477293 TTACGGTTTACA
1 TTACGGTTTACA
25477305 TTACGGTTTACA
1 TTACGGTTTACA
25477317 TT
1 TT
25477319 TTTGTACACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (12 bp):
TTACGGTTTACA
Found at i:25481608 original size:21 final size:21
Alignment explanation
Indices: 25481583--25481631 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
25481573 AATATGCATA
25481583 TGATTTCTGACGATCCAAAGC
1 TGATTTCTGACGATCCAAAGC
*
25481604 TGATTTCTGACGATCCGAAGC
1 TGATTTCTGACGATCCAAAGC
*
25481625 TGCTTTC
1 TGATTTC
25481632 AGACTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (21 bp):
TGATTTCTGACGATCCAAAGC
Found at i:25488379 original size:29 final size:29
Alignment explanation
Indices: 25488343--25488445 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
25488333 TAATCGATCA
* *
25488343 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
*
25488372 CTCACACTTAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* *
25488401 CGCACACTTAGTGCCCTA-CATTTCAAGCT
1 CGCACACTTAGTGCCATATAATTT-AAGCT
* *
25488430 TGTACACTTAGTGCCA
1 CGCACACTTAGTGCCA
25488446 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.06
29 60 0.94
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAATTTAAGCT
Found at i:25491150 original size:68 final size:68
Alignment explanation
Indices: 25491078--25491261 Score: 241
Period size: 68 Copynumber: 2.7 Consensus size: 68
25491068 CATCATGTGT
* *
25491078 ACAAGAAG-GCTAC-AAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGAATGTATCCCA
1 ACAAGAAGAGCTACGAAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGAATGTATCCCA
25491141 TGTAG
64 TGTAG
* *
25491146 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTACG-AAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGAATGTATCCCAT
25491210 GTAG
65 GTAG
* * *
25491214 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTACG-AAGAGATAAATGTAGCTAGGTCACATGTGTGAT
25491262 TCCAAGTGAA
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
67 2 0.02
68 97 0.91
69 4 0.04
70 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (68 bp):
ACAAGAAGAGCTACGAAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGAATGTATCCCATG
TAG
Found at i:25491335 original size:66 final size:67
Alignment explanation
Indices: 25491138--25491335 Score: 174
Period size: 68 Copynumber: 2.9 Consensus size: 67
25491128 GGAATGTATC
* * * *
25491138 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTACACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
25491200 TGTATC-
62 AGGA-CA
* *
25491206 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTACACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
25491271 AGGACA
62 AGGACA
* *
25491277 CCATGTACACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTACACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
25491336 TTCACCATGT
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.48
69 1 0.01
70 1 0.01
71 25 0.22
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21
Consensus pattern (67 bp):
CCATGTACACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:25496101 original size:41 final size:43
Alignment explanation
Indices: 25496039--25496146 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 43
25496029 GGAGTCCATA
* * *
25496039 CTCGTTGAGTGGTC-CAGGTTCATGAGA-ATAT-GGCATCCAAG
1 CTCGTTGAGAGGTCTGA-GTTCATGAGAGATATAAGCATCCAAG
* * * *
25496080 CTCGTTGAGAGGTCTGAGTTCATTATAGATGTAAGCATCCGAG
1 CTCGTTGAGAGGTCTGAGTTCATGAGAGATATAAGCATCCAAG
* *
25496123 CTAGTTGAGAGGTTTGAGTTCATG
1 CTCGTTGAGAGGTCTGAGTTCATG
25496147 GTGGATGCGA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 21 0.39
42 4 0.07
43 29 0.54
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
CTCGTTGAGAGGTCTGAGTTCATGAGAGATATAAGCATCCAAG
Found at i:25496861 original size:20 final size:20
Alignment explanation
Indices: 25496836--25496887 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
25496826 CGGGTAAGGG
25496836 ACACGAGCGTGTCCCCAAGA
1 ACACGAGCGTGTCCCCAAGA
* * *
25496856 ACACGAGCATGTCCCCTAGC
1 ACACGAGCGTGTCCCCAAGA
*
25496876 ACACGGGCGTGT
1 ACACGAGCGTGT
25496888 GCATTGCCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.35, G:0.27, T:0.13
Consensus pattern (20 bp):
ACACGAGCGTGTCCCCAAGA
Found at i:25499812 original size:323 final size:323
Alignment explanation
Indices: 25499224--25499871 Score: 1296
Period size: 323 Copynumber: 2.0 Consensus size: 323
25499214 AAGACCAAGC
25499224 TTTTCGTCGTGGGTGCTCTCGTACAGTTCATGAAAAAGAAGGATGGATCTATGAGATTGTGCATT
1 TTTTCGTCGTGGGTGCTCTCGTACAGTTCATGAAAAAGAAGGATGGATCTATGAGATTGTGCATT
25499289 GATTACCTGCAACTCAATAAGGTGACAATCAAAAATAAGTACCCTCTTCTAAGAATTGATGAACT
66 GATTACCTGCAACTCAATAAGGTGACAATCAAAAATAAGTACCCTCTTCTAAGAATTGATGAACT
25499354 TTTTCGATCAACTGAAGGGAGCGACGTGGTTCTCTAATCCAGATACTACCAGTTACGAGTGAAAG
131 TTTTCGATCAACTGAAGGGAGCGACGTGGTTCTCTAATCCAGATACTACCAGTTACGAGTGAAAG
25499419 AGTCTGATGTGCCTAAGACTGCCTTTAGAACGAGGTATGATCGCTATGAGTTTCTTGTTATGCCA
196 AGTCTGATGTGCCTAAGACTGCCTTTAGAACGAGGTATGATCGCTATGAGTTTCTTGTTATGCCA
25499484 TTTGGACTAACGAATGCTCCTGCCATGTTTATGGATTTAATGAACTGGATTTTTCAGCCATTT
261 TTTGGACTAACGAATGCTCCTGCCATGTTTATGGATTTAATGAACTGGATTTTTCAGCCATTT
25499547 TTTTCGTCGTGGGTGCTCTCGTACAGTTCATGAAAAAGAAGGATGGATCTATGAGATTGTGCATT
1 TTTTCGTCGTGGGTGCTCTCGTACAGTTCATGAAAAAGAAGGATGGATCTATGAGATTGTGCATT
25499612 GATTACCTGCAACTCAATAAGGTGACAATCAAAAATAAGTACCCTCTTCTAAGAATTGATGAACT
66 GATTACCTGCAACTCAATAAGGTGACAATCAAAAATAAGTACCCTCTTCTAAGAATTGATGAACT
25499677 TTTTCGATCAACTGAAGGGAGCGACGTGGTTCTCTAATCCAGATACTACCAGTTACGAGTGAAAG
131 TTTTCGATCAACTGAAGGGAGCGACGTGGTTCTCTAATCCAGATACTACCAGTTACGAGTGAAAG
25499742 AGTCTGATGTGCCTAAGACTGCCTTTAGAACGAGGTATGATCGCTATGAGTTTCTTGTTATGCCA
196 AGTCTGATGTGCCTAAGACTGCCTTTAGAACGAGGTATGATCGCTATGAGTTTCTTGTTATGCCA
25499807 TTTGGACTAACGAATGCTCCTGCCATGTTTATGGATTTAATGAACTGGATTTTTCAGCCATTT
261 TTTGGACTAACGAATGCTCCTGCCATGTTTATGGATTTAATGAACTGGATTTTTCAGCCATTT
25499870 TT
1 TT
25499872 AAATAAGTTT
Statistics
Matches: 325, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
323 325 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (323 bp):
TTTTCGTCGTGGGTGCTCTCGTACAGTTCATGAAAAAGAAGGATGGATCTATGAGATTGTGCATT
GATTACCTGCAACTCAATAAGGTGACAATCAAAAATAAGTACCCTCTTCTAAGAATTGATGAACT
TTTTCGATCAACTGAAGGGAGCGACGTGGTTCTCTAATCCAGATACTACCAGTTACGAGTGAAAG
AGTCTGATGTGCCTAAGACTGCCTTTAGAACGAGGTATGATCGCTATGAGTTTCTTGTTATGCCA
TTTGGACTAACGAATGCTCCTGCCATGTTTATGGATTTAATGAACTGGATTTTTCAGCCATTT
Found at i:25503668 original size:27 final size:28
Alignment explanation
Indices: 25503607--25503676 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
25503597 AAATTTGTAC
** *
25503607 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGAGTATAT
25503635 AGCACTAAGTGTGCG-AGCTGAGTATAT
1 AGCACTAAGTGTGCGAAGCTGAGTATAT
25503662 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25503677 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGAGTATAT
Found at i:25503687 original size:27 final size:28
Alignment explanation
Indices: 25503607--25503688 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
25503597 AAATTTGTAC
* ** *
25503607 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGAGCTGACTATAT
*
25503635 AGCACTAAGTGTGC-GAGCTGAGTATAT
1 AGCACTAAGTGTGCGGAGCTGACTATAT
*
25503662 AGCACTAAGTGTGCGGA-CTCACTATAT
1 AGCACTAAGTGTGCGGAGCTGACTATAT
25503689 GCTATTGCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.66
28 16 0.34
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGAGCTGACTATAT
Found at i:25511645 original size:27 final size:28
Alignment explanation
Indices: 25511584--25511653 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
25511574 AAATTTGTAC
** *
25511584 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGAGTATAT
25511612 AGCACTAAGTGTGCG-AGCTGAGTATAT
1 AGCACTAAGTGTGCGAAGCTGAGTATAT
25511639 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25511654 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGAGTATAT
Found at i:25511664 original size:27 final size:28
Alignment explanation
Indices: 25511584--25511665 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
25511574 AAATTTGTAC
* ** *
25511584 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGAGCTGACTATAT
*
25511612 AGCACTAAGTGTGC-GAGCTGAGTATAT
1 AGCACTAAGTGTGCGGAGCTGACTATAT
*
25511639 AGCACTAAGTGTGCGGA-CTCACTATAT
1 AGCACTAAGTGTGCGGAGCTGACTATAT
25511666 GCTATTGCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.66
28 16 0.34
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGAGCTGACTATAT
Found at i:25514130 original size:93 final size:93
Alignment explanation
Indices: 25514017--25514188 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
25514007 GCCCATAAGT
*
25514017 GAACTCAGACTCAACTCAACGAGCTTAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTAGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
25514081 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
25514110 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTAGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25514175 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25514189 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTAGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25514181 original size:46 final size:46
Alignment explanation
Indices: 25514009--25514184 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
25513999 TGTAACCCGC
* * *
25514009 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCAT
* *
25514055 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
25514105 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
25514148 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25514185 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 6 0.05
46 63 0.57
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:25514203 original size:46 final size:45
Alignment explanation
Indices: 25514060--25514203 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
25514050 CGCATCCATA
* *
25514060 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
25514108 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
25514153 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
25514199 AGTGA
1 AGTGA
25514204 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:25527219 original size:43 final size:46
Alignment explanation
Indices: 25527165--25527298 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 46
25527155 GAGATATGTG
* *
25527165 GCATCCAAGCTCATTGAGAGGTCCGAGTTCATTATGGATGC-A-A-
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAATAT
* * * **
25527208 GCATCCGAGCTCGTTGAGAGGTTCGGGATCATGGTGGATGCAATTCAT
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA-T-AT
*
25527256 GTAACATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 G---CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
25527299 TGTTACATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
43 34 0.49
44 1 0.01
47 1 0.01
48 1 0.01
51 33 0.47
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAATAT
Found at i:25538160 original size:68 final size:70
Alignment explanation
Indices: 25538088--25538285 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
25538078 ACACCCTGTA
* * * *
25538088 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
25538150 ATAAAT
65 ATAAAT
*
25538156 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
25538221 ATAAAT
65 ATAAAT
*
25538227 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
25538286 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:25538199 original size:41 final size:41
Alignment explanation
Indices: 25538154--25538271 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
25538144 TGAAAGATAA
25538154 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
25538195 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
25538225 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
25538266 ATGTAG
1 ATGTAG
25538272 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:25538211 original size:71 final size:71
Alignment explanation
Indices: 25538122--25538285 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
25538112 GAGATGTATC
25538122 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
25538187 AGGACA
66 AGGACA
25538193 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
25538258 AGGACA
66 AGGACA
25538264 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
25538286 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:25545259 original size:68 final size:70
Alignment explanation
Indices: 25545187--25545384 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
25545177 ACACCCTGTA
* * * *
25545187 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
25545249 ATAAAT
65 ATAAAT
*
25545255 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
25545320 ATAAAT
65 ATAAAT
*
25545326 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
25545385 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:25545298 original size:41 final size:41
Alignment explanation
Indices: 25545253--25545370 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
25545243 TGAAAGATAA
25545253 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
25545294 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
25545324 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
25545365 ATGTAG
1 ATGTAG
25545371 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:25545310 original size:71 final size:71
Alignment explanation
Indices: 25545221--25545384 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
25545211 GAGATGTATC
25545221 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
25545286 AGGACA
66 AGGACA
25545292 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
25545357 AGGACA
66 AGGACA
25545363 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
25545385 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:25547538 original size:180 final size:178
Alignment explanation
Indices: 25547024--25547560 Score: 824
Period size: 179 Copynumber: 3.0 Consensus size: 178
25547014 GAGCTACAGA
25547024 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACTATAAAATT
1 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATA-TTTTACTATAAAA-T
25547089 TTTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTC
64 TTTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTC
* *
25547154 CAATAGTTCCAACATCTCTTCACTAAAAATTATTTATCTCATGGTAAAAG
129 CAATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
*
25547204 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTACCATAAAATTT
1 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTACTATAAAATTT
* * *
25547269 TAAGAATTTTTGGTTTAACCAATTAGTACAGGTTATTCATTAAAGTTACCCCTGTTTCACTATCC
66 T-AGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTCC
*
25547334 AATAGTTCCGACATCTCTTCACTAAAAACTATTTATCTCATGGTACAAG
130 AATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
** * * * * * *
25547383 ACTCCAAATTAAGAACTGATAATTTTCCCAAAAACTATACTTATATATATTCTTACTATAAAAGT
1 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATT-TTACTATAAAA-T
* * *
25547448 TTTAGAATTTTTGGTTTATCCAATTAGTACAGTTTATTCATTAAAGATACCCCAATTTCACTGTC
64 TTTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTC
* * *
25547513 TAACAGTTCCGATC-TTTCTTCACTAAAAATTATTTATCTCATGGTACA
129 CAATAGTTCCGA-CATCTCTTCACTAAAAATTATTTATCTCATGGTACA
25547561 GATCTCGGAT
Statistics
Matches: 327, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
178 4 0.01
179 161 0.49
180 157 0.48
181 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (178 bp):
ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTACTATAAAATTT
TAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTCCA
ATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
Found at i:25548183 original size:50 final size:50
Alignment explanation
Indices: 25548118--25548562 Score: 382
Period size: 50 Copynumber: 8.8 Consensus size: 50
25548108 ACCGAAGCTC
* *
25548118 TCTGGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCT-ACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAA
* * * *
25548168 TCTGGTACACGTAGTAGCCTGCACTTAGTACTAGACATGTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * ** *
25548218 TCTGGTACACGTAGTAGCCTGGACGTAGTACTACTCATGTGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * *
25548270 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
25548319 TAC-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTGAACCA
1 T-CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAA
* * * * * ** * *
25548369 TTTGATACACGTAGTAGCCTGCACTTAGTATTACACACGTGATCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* * * *
25548420 TC-GAGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *
25548470 TCTGGTACACGTAGTAGCCTGTACTTAGTACTACACATGTGGCC-A-AAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
25548518 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
25548563 TTCTCACAAT
Statistics
Matches: 321, Mismatches: 59, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
48 5 0.02
49 6 0.02
50 202 0.63
51 74 0.23
52 34 0.11
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:25548398 original size:151 final size:151
Alignment explanation
Indices: 25548121--25548506 Score: 551
Period size: 151 Copynumber: 2.6 Consensus size: 151
25548111 GAAGCTCTCT
* *
25548121 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCTACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * * *
25548186 CTGCACTTAGTACTAGACATGTGACTTATCCATCTGGTACACGTAGTAGCCTGGACGTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTGAACCATCTGATACACGTAGTAGCCTGCACGTAGTACTA
* * *
25548251 CTCATGTGATC-AAAGTTAACG
131 CACACGTGATCGAAA-CTAACG
* *
25548272 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATAC-GGTACACATAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAAT-CTGGTACACGTAGTAG
* * *
25548336 CCTGCACTTAGTACTACACACGTGACTGAACCATTTGATACACGTAGTAGCCTGCACTTAGTATT
65 CCTGCACTTAGTACTACACACGTGACTGAACCATCTGATACACGTAGTAGCCTGCACGTAGTACT
*
25548401 ACACACGTGATCGAAACTATCG
130 ACACACGTGATCGAAACTAACG
* * *
25548423 AGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
25548488 CTGTACTTAGTACTACACA
66 CTGCACTTAGTACTACACA
25548507 TGTGGCCAAA
Statistics
Matches: 209, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
150 1 0.00
151 204 0.98
152 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTGAACCATCTGATACACGTAGTAGCCTGCACGTAGTACTA
CACACGTGATCGAAACTAACG
Found at i:25548434 original size:101 final size:100
Alignment explanation
Indices: 25548121--25548506 Score: 321
Period size: 101 Copynumber: 3.8 Consensus size: 100
25548111 GAAGCTCTCT
* * * * * *
25548121 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCTACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGC
* * * ** * *
25548186 CTGCACTTAGTACTAGACATGTGACTTATCCAT-C
66 CTGCACTTAGTACTACACACGCGACGAAACAATAC
* * * * * * * * * * * * *
25548220 TGGTACACGTAGTAGCCTGGACGTAGTACTACTCATGTGATCAAAGTTAA-CGGGTACGCATAGT
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA--CAATCTGATACACGTAGT
* ** *
25548284 AGCCTGCACTTAGTACTACACATGCGACTTATCAATAC
63 AGCCTGCACTTAGTACTACACACGCGACGAAACAATAC
* * *
25548322 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTGAACCATTTGATACACGTAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AACAATCTGATACACGTAGTAG
* * *
25548386 CCTGCACTTAGTATTACACACGTGATCGAAACTAT-C
65 CCTGCACTTAGTACTACACACGCGA-CGAAACAATAC
* * * *
25548422 GAGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAG
1 G-GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAG
*
25548487 CCTGTACTTAGTACTACACA
65 CCTGCACTTAGTACTACACA
25548507 TGTGGCCAAA
Statistics
Matches: 231, Mismatches: 47, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
99 1 0.00
100 69 0.30
101 156 0.68
102 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGC
CTGCACTTAGTACTACACACGCGACGAAACAATAC
Found at i:25549075 original size:43 final size:43
Alignment explanation
Indices: 25549014--25549101 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
25549004 AAACCATTTT
25549014 CATAACTATAACAGTCCACAATTTGCATTAAATCACACACTTA
1 CATAACTATAACAGTCCACAATTTGCATTAAATCACACACTTA
*
25549057 CATAACTATAGCAGTCCACAATTTGCATTAAATCACACACTTA
1 CATAACTATAACAGTCCACAATTTGCATTAAATCACACACTTA
25549100 CA
1 CA
25549102 CACATTTTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.27
Consensus pattern (43 bp):
CATAACTATAACAGTCCACAATTTGCATTAAATCACACACTTA
Found at i:25550898 original size:17 final size:17
Alignment explanation
Indices: 25550878--25550910 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25550868 TTTAACTATC
25550878 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
25550895 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
25550911 TACAATACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:25554823 original size:24 final size:24
Alignment explanation
Indices: 25554796--25554841 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25554786 TATAGAGTGT
*
25554796 ATCATGGAGAGATATTA-GGAGAAA
1 ATCAAGGAGAGAT-TTATGGAGAAA
*
25554820 ATCAAGGAGTGATTTATGGAGA
1 ATCAAGGAGAGATTTATGGAGA
25554842 GATTTAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.24
Consensus pattern (24 bp):
ATCAAGGAGAGATTTATGGAGAAA
Found at i:25562130 original size:16 final size:16
Alignment explanation
Indices: 25562111--25562142 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25562101 AATTGTTTTA
25562111 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
25562127 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
25562143 ATTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:25562407 original size:50 final size:50
Alignment explanation
Indices: 25562353--25562730 Score: 354
Period size: 50 Copynumber: 7.5 Consensus size: 50
25562343 CTGGTACGTA
25562353 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * * ** * *
25562403 TAGTAGCCTACACTTAGTACTACACATGTGACTTAACCATCTGAAATACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* ** * * *
25562453 TAGTATCCTGCACTTAGTACTACACACATGATCGAAGT-T-AA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAATCTGGTACACG
*
25562504 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * *
25562554 TAGTAGCCTGCACTTAATACTAAGCACAT--GACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACT-A-CACATGCGACCTATCAATCTGGTACACG
* * * ** * * ** *
25562604 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAAT-GGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACG
25562655 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
*
25562705 TAGTAGCCTGCACTTAGTAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
25562731 CGTGACTCAC
Statistics
Matches: 257, Mismatches: 57, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
47 4 0.02
48 5 0.02
49 13 0.05
50 157 0.61
51 60 0.23
52 15 0.06
54 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
Found at i:25562619 original size:151 final size:150
Alignment explanation
Indices: 25562345--25562737 Score: 617
Period size: 151 Copynumber: 2.6 Consensus size: 150
25562335 AAAGCTCTCT
*
25562345 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * *
25562410 CTACACTTAGTACTACACATGTGACTTAACCATCTGAAATACATAGTATCCTGCACTTAGTACTA
66 CTGCACTTAATACTACACA-GTGACTTAACCATCTGAAACACATAGTAGCCTACACTTAGTACTA
25562475 CACACATGATCGAAGTTAACG
130 CACACATGATCGAAGTTAACG
*
25562496 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
25562561 CTGCACTTAATACTAAGCACA-TGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
66 CTGCACTTAATACT-A-CACAGTGACTTAACCATCTGAAACACATAGTAGCCTACACTTAGTACT
* *
25562625 ACACACGTGATCGAAGTTAATG
129 ACACACATGATCGAAGTTAACG
*
25562647 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
25562712 CTGCACTTAGTAGTACACACGTGACT
66 CTGCACTTAATACTACACA-GTGACT
25562738 CACAACGAAT
Statistics
Matches: 223, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
149 4 0.02
150 1 0.00
151 213 0.96
152 1 0.00
153 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAATACTACACAGTGACTTAACCATCTGAAACACATAGTAGCCTACACTTAGTACTAC
ACACATGATCGAAGTTAACG
Found at i:25562659 original size:101 final size:100
Alignment explanation
Indices: 25562352--25562735 Score: 275
Period size: 101 Copynumber: 3.8 Consensus size: 100
25562342 TCTGGTACGT
* * *
25562352 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACT
1 ATAGTAGCCTGCACTTAATACTACACAT-CGACCTAACAATCTGATACACGTAGTAGCCTACACT
* * ** * ** *
25562417 TAGTACTACACATGTGA-CTTAA--CCATCTGAAATAC
65 TAGTACTACACACGTGATC-GAAGTTAAT-GGGTATGC
* * * * * * * * * *
25562452 ATAGTATCCTGCACTTAGTACTACACA-CATGATCGAAGTTAA-CGGGTACGCATAGTAGCCTGC
1 ATAGTAGCCTGCACTTAATACTACACATC--GACCTAA--CAATCTGATACACGTAGTAGCCTAC
** * **
25562515 ACTTAGTACTACACA--T-A-CGACCTATCAATCTGGTACAC
62 ACTTAGTACTACACACGTGATCGAAGT-T-AAT-GGGTATGC
* * *
25562553 GTAGTAGCCTGCACTTAATACTAAGCACAT-GACTTAACCATCTGATACACGTAGTAGCCTACAC
1 ATAGTAGCCTGCACTTAATACT-A-CACATCGACCTAACAATCTGATACACGTAGTAGCCTACAC
25562617 TTAGTACTACACACGTGATCGAAGTTAATGGGTATGC
64 TTAGTACTACACACGTGATCGAAGTTAATGGGTATGC
* * * *
25562654 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAATACTACACAT-CGACCTAACAATCTGATACACGTAGTAGCCTACACT
*
25562719 TAGTAGTACACACGTGA
65 TAGTACTACACACGTGA
25562736 CTCACAACGA
Statistics
Matches: 224, Mismatches: 42, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
97 1 0.00
98 3 0.01
99 7 0.03
100 62 0.28
101 134 0.60
102 7 0.03
103 6 0.03
104 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (100 bp):
ATAGTAGCCTGCACTTAATACTACACATCGACCTAACAATCTGATACACGTAGTAGCCTACACTT
AGTACTACACACGTGATCGAAGTTAATGGGTATGC
Found at i:25567990 original size:72 final size:72
Alignment explanation
Indices: 25567853--25567998 Score: 172
Period size: 72 Copynumber: 2.0 Consensus size: 72
25567843 CCACATATTT
* *
25567853 TGTAATGCCCGCATTTGAACTAGTCACGAGTCTGTACACAAAGTCAACATCCAGACCCCCAAAGC
1 TGTAATGCCCGCATTTGAACTACTCACGAGTCTATACACAAAGTCAACATCCAGACCCCCAAAGC
*
25567918 ATTATCA
66 ATTAACA
* * * * *
25567925 TGTAATGCCCGC-TCATTGAGCTACTCACGGGTTTATACACAAAGTTAGCA-CCTAGA-CCCCAA
1 TGTAATGCCCGCAT--TTGAACTACTCACGAGTCTATACACAAAGTCAACATCC-AGACCCCCAA
25567987 AGCATTAACA
63 AGCATTAACA
25567997 TG
1 TG
25567999 ATATGCTTGC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
71 1 0.02
72 31 0.49
73 31 0.49
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (72 bp):
TGTAATGCCCGCATTTGAACTACTCACGAGTCTATACACAAAGTCAACATCCAGACCCCCAAAGC
ATTAACA
Found at i:25568022 original size:72 final size:73
Alignment explanation
Indices: 25567887--25568053 Score: 171
Period size: 72 Copynumber: 2.3 Consensus size: 73
25567877 CACGAGTCTG
* **
25567887 TACACAAAGTCAACATCCAGACCCCCAAAGCATTATCATGTAATGCCCGCTCATTGAGCTACTCA
1 TACACAAAGTCAACATCCAGACCCCCAAAGCATTAACATGTAATGCCCGCTCAGCGAGCTACTCA
25567952 CGGGTTTA
66 CGGGTTTA
* * ** *
25567960 TACACAAAGTTAGCA-CCTAGA-CCCCAAAGCATTAACATG-ATATGCTTGCTCAGCGAGTTACT
1 TACACAAAGTCAACATCC-AGACCCCCAAAGCATTAACATGTA-ATGCCCGCTCAGCGAGCTACT
* *
25568022 CACGGGCCTGA
64 CACGGG-TTTA
* *
25568033 T-CACATAGTCAACACCCAGAC
1 TACACAAAGTCAACATCCAGAC
25568054 TCACATTACA
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
71 1 0.01
72 54 0.71
73 21 0.28
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (73 bp):
TACACAAAGTCAACATCCAGACCCCCAAAGCATTAACATGTAATGCCCGCTCAGCGAGCTACTCA
CGGGTTTA
Found at i:25571379 original size:43 final size:42
Alignment explanation
Indices: 25571318--25571409 Score: 157
Period size: 43 Copynumber: 2.2 Consensus size: 42
25571308 AAAACATGTG
*
25571318 TCACATATATCATGAACTCAGAGCACAACTCAATGAGTTCAGA
1 TCACATATATCATGAACTCAGACCACAACTC-ATGAGTTCAGA
25571361 TCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
1 TCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
*
25571403 TCGCATA
1 TCACATA
25571410 ATTCCTAGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 17 0.36
43 30 0.64
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (42 bp):
TCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:25571381 original size:22 final size:22
Alignment explanation
Indices: 25571318--25571387 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
25571308 AAAACATGTG
25571318 TCACATATATCATGAACTCAGA
1 TCACATATATCATGAACTCAGA
* * **
25571340 GCACA-A-CTCAATGAGTTCAGA
1 TCACATATATC-ATGAACTCAGA
25571361 TCACATATATCATGAACTCAGA
1 TCACATATATCATGAACTCAGA
*
25571383 CCACA
1 TCACA
25571388 ACTCATGAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 18 0.50
23 2 0.06
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (22 bp):
TCACATATATCATGAACTCAGA
Found at i:25574566 original size:58 final size:58
Alignment explanation
Indices: 25574448--25574578 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
25574438 GTGACGAGAT
* *
25574448 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
***
25574506 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAAATA
*
25574564 TGGCACTGTGTGTGC
1 TGGCACTGAGTGTGC
25574579 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 65 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (58 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
Found at i:25574570 original size:29 final size:29
Alignment explanation
Indices: 25574448--25574549 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
25574438 GTGACGAGAT
25574448 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
25574477 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
25574506 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
25574535 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
25574550 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:25581470 original size:2 final size:2
Alignment explanation
Indices: 25581463--25581500 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
25581453 CTCATTCTTC
*
25581463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25581501 TCTCACCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25581959 original size:43 final size:42
Alignment explanation
Indices: 25581901--25581983 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 42
25581891 CATGTGTCAC
* *
25581901 ATATATCATGAACTCAGATCACAACTCAATGAGTTTAGATCAT
1 ATATATCATGAACTCAGACCACAACTC-ATGAGTTCAGATCAT
**
25581944 ATATATCATGAACTCAGACCGTAACTCATGAGTTCAGATC
1 ATATATCATGAACTCAGACCACAACTCATGAGTTCAGATC
25581984 GCATAATTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 12 0.33
43 24 0.67
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (42 bp):
ATATATCATGAACTCAGACCACAACTCATGAGTTCAGATCAT
Found at i:25586810 original size:40 final size:40
Alignment explanation
Indices: 25586766--25586950 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
25586756 GCTACTCGTT
* * *
25586766 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
25586806 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
25586846 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
25586886 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25586927 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25586951 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
39 13 0.10
40 109 0.83
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25593100 original size:14 final size:14
Alignment explanation
Indices: 25593077--25593169 Score: 59
Period size: 14 Copynumber: 6.6 Consensus size: 14
25593067 AAGTAATATA
25593077 AAAATATATATAAT
1 AAAATATATATAAT
*
25593091 AAAATGTATATAAT
1 AAAATATATATAAT
** * *
25593105 -GTATA-ATAAAAGG
1 AAAATATATATAA-T
25593118 AAAATAT-TATAA-
1 AAAATATATATAAT
*
25593130 AGAATAATATATAAT
1 AAAAT-ATATATAAT
25593145 AAAATATGATATGTAAT
1 AAAATAT-ATA--TAAT
25593162 AAAATATA
1 AAAATATA
25593170 CTGTCATATA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
12 9 0.15
13 4 0.07
14 27 0.46
15 7 0.12
16 1 0.02
17 11 0.19
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (14 bp):
AAAATATATATAAT
Found at i:25593156 original size:17 final size:17
Alignment explanation
Indices: 25593136--25593168 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25593126 ATAAAGAATA
25593136 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
25593153 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
25593169 ACTGTCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:25593356 original size:21 final size:18
Alignment explanation
Indices: 25593318--25593364 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
25593308 AATAAAATTT
25593318 CAAAAATATATAATAATA
1 CAAAAATATATAATAATA
*
25593336 TAAATAATATAATAGATAATA
1 CAAA-AATAT-ATA-ATAATA
25593357 CAAAAATA
1 CAAAAATA
25593365 ATATGTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 5 0.21
20 7 0.29
21 9 0.38
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
CAAAAATATATAATAATA
Found at i:25601697 original size:254 final size:257
Alignment explanation
Indices: 25601187--25601811 Score: 889
Period size: 254 Copynumber: 2.4 Consensus size: 257
25601177 GAACACCAAG
* * * * * *
25601187 CTATATCTTCGATATGCTCCCT-ACATATACAGAGACGCCAAATTTGCTTCTTCGATTTGCTTCA
1 CTATGTCTTCGATCTACTCCCTGACA-GTACAGAGACGCCAAA--T-CATCTTAGATTTGCTTCA
* * * * *
25601251 ACATAAACACATGAAAGCCCAAATCAGCTATGTCTTCAATCTGTTCTCTAACAGTACAGAGATGC
62 ACGTAAACACGTGAAAG-CCAAATCAGCTATGTCTTCGATCTGCTCTCTAACAGTACAGAGACGC
*
25601316 CAAATCATCTTATATTTGCTTCAACATAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTG
126 CAAA-CATC---TATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTG
* *
25601381 CTCTCTGACAGTACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCA
187 CTCTCTGACAGTACAGAGACACCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCA
* *
25601446 AATTAG
252 AATCAA
* * *
25601452 CTATGTCTTTGATCTACTCTCTGATAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGT
1 CTATGTCTTCGATCTACTCCCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGT
* * *
25601517 AAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCTCTGACAGTATAGAGACGCC-AA-
66 AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTAACAGTACAGAGACGCCAAAC
* *
25601580 ATC-ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTTGATCTGCTCTCTGAC
131 ATCTATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCTCTGAC
*
25601644 AGTACAGAGGCACCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAA
196 AGTACAGAGACACCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAA
* *
25601706 CTATGTCTTCGATCTGCTCCCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCGACGT
1 CTATGTCTTCGATCTACTCCCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGT
*
25601771 AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
66 AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
25601812 CTTGTAAACA
Statistics
Matches: 327, Mismatches: 32, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
254 214 0.65
258 3 0.01
260 2 0.01
261 42 0.13
262 31 0.09
263 1 0.00
265 32 0.10
266 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (257 bp):
CTATGTCTTCGATCTACTCCCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGT
AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTAACAGTACAGAGACGCCAAAC
ATCTATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCTCTGAC
AGTACAGAGACACCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAA
Found at i:25601812 original size:87 final size:87
Alignment explanation
Indices: 25601185--25601811 Score: 874
Period size: 87 Copynumber: 7.2 Consensus size: 87
25601175 AGGAACACCA
* * * * * *
25601185 AGCTATATCTTCGATATGCTCCCT-ACATATACAGAGACGCCAAATTTGCTTCTTCGATTTGCTT
1 AGCTATGTCTTCGATCTGCTCTCTGACA-GTACAGAGACGCCAAA--T-CATCTTAGATTTGCTT
* *
25601249 CAACATAAACACATGAAAGCCCAAATC
62 CAACGTAAACACGTGAAAG-CCAAATC
* * * * *
25601276 AGCTATGTCTTCAATCTGTTCTCTAACAGTACAGAGATGCCAAATCATCTTATATTTGCTTCAAC
1 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
*
25601341 ATAAACACGTGAAAGCCAAATC
66 GTAAACACGTGAAAGCCAAATC
**
25601363 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGATACCAAATCATCTTAGATTTGCTTCAAC
1 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
*
25601428 GTAAACACGTGAAAGCCAAATT
66 GTAAACACGTGAAAGCCAAATC
* * *
25601450 AGCTATGTCTTTGATCTACTCTCTGATAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
1 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
25601515 GTAAACACGTGAAAGCCAAATC
66 GTAAACACGTGAAAGCCAAATC
* *
25601537 AACTATGTCTTCGATCTGCTCTCTGACAGTATAGAGACGCC-AA--ATC----ATTTGCTTCAAC
1 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
25601595 GTAAACACGTGAAAGCCAAATC
66 GTAAACACGTGAAAGCCAAATC
* * * *
25601617 AACTATGTCTTTGATCTGCTCTCTGACAGTACAGAGGCACCAAATCATCTTAGATTTGCTTCAAC
1 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
*
25601682 ATAAACACGTGAAAGCCAAATC
66 GTAAACACGTGAAAGCCAAATC
* * *
25601704 AACTATGTCTTCGATCTGCTCCCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCGAC
1 AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
25601769 GTAAACACGTGAAAGCCAAATC
66 GTAAACACGTGAAAGCCAAATC
*
25601791 AGCTATGTCTTCGATTTGCTC
1 AGCTATGTCTTCGATCTGCTC
25601812 CTTGTAAACA
Statistics
Matches: 486, Mismatches: 42, Indels: 20
0.89 0.08 0.04
Matches are distributed among these distances:
80 71 0.15
81 2 0.00
83 3 0.01
84 3 0.01
86 2 0.00
87 337 0.69
88 31 0.06
89 1 0.00
91 33 0.07
92 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (87 bp):
AGCTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
GTAAACACGTGAAAGCCAAATC
Found at i:25602010 original size:170 final size:175
Alignment explanation
Indices: 25601778--25602149 Score: 522
Period size: 170 Copynumber: 2.1 Consensus size: 175
25601768 CGTAAACACG
* * * *
25601778 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTATAAACACAAGAATGCCAAATCATCTTG
* *
25601843 GATCTGCTTCAGTG-AA-CATCTCAAGGTTAGA-T-CTATGTATCTGCTCTCCGTC-AAAATGGA
66 GATCTACTTCAGTGAAATCATCTCAAGGTTAGACTGCTATGTATCTGCTCTCCATCGAAAATGGA
*
25601903 GA-TGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
131 GACT-CCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATC
* ** * *
25601948 TGAAAGTCAAATCTGCTATGTTTTTTATTTGTTCCTTATAAACACAAGAATGTCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTATAAACACAAGAATGCCAAATCATCTTG
* * *
25602013 GATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCATCGAATATGG
66 GATCTACTTCAGTGAAATCATCTCAAGGTTAGA-CTGCTATGTATCTGCTCTCCATCGAAAATGG
25602078 AGACTCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATC
130 AGACTCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATC
* **
25602124 TGAAAGTCAGATCTATTATGTCTTCG
1 TGAAAGTCAAATCTGCTATGTCTTCG
25602150 GTCTGTTACT
Statistics
Matches: 174, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
170 69 0.40
171 2 0.01
172 14 0.08
174 1 0.01
175 18 0.10
176 69 0.40
177 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (175 bp):
TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTATAAACACAAGAATGCCAAATCATCTTG
GATCTACTTCAGTGAAATCATCTCAAGGTTAGACTGCTATGTATCTGCTCTCCATCGAAAATGGA
GACTCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATC
Found at i:25603069 original size:7 final size:7
Alignment explanation
Indices: 25603057--25603132 Score: 79
Period size: 7 Copynumber: 11.0 Consensus size: 7
25603047 TTGGCCTCTC
25603057 CTTTTTT
1 CTTTTTT
25603064 CTTTTTT
1 CTTTTTT
25603071 CTTTTTT
1 CTTTTTT
*
25603078 CTCTTTT
1 CTTTTTT
25603085 CTTTTTAT
1 CTTTTT-T
25603093 -TTTTTT
1 CTTTTTT
25603099 C-TTTTT
1 CTTTTTT
25603105 CTTTTCTT
1 CTTTT-TT
*
25603113 -TTTTTCC
1 CTTTTT-T
25603120 CTTTTTT
1 CTTTTTT
25603127 -TTTTTT
1 CTTTTTT
25603133 GAAATAGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
6 14 0.24
7 37 0.63
8 8 0.14
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:25603084 original size:21 final size:20
Alignment explanation
Indices: 25603060--25603132 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 20
25603050 GCCTCTCCTT
25603060 TTTTCTTTTTTCTTTTTTCTC
1 TTTTCTTTTTT-TTTTTTCTC
25603081 TTTTCTTTTTATTTTTTTCT-
1 TTTTCTTTTT-TTTTTTTCTC
* *
25603101 TTTTCTTTTCTTTTTTTCCC
1 TTTTCTTTTTTTTTTTTCTC
25603121 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
25603133 GAAATAGAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 15 0.32
20 13 0.28
21 18 0.38
22 1 0.02
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTTTCTC
Found at i:25603095 original size:19 final size:19
Alignment explanation
Indices: 25603073--25603129 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
25603063 TCTTTTTTCT
25603073 TTTTTCTCTTTTCTTTTTA
1 TTTTTCTCTTTTCTTTTTA
* *
25603092 TTTTTTTCTTTTTCTTTTCTT
1 TTTTTCTC-TTTTCTTTT-TA
*
25603113 TTTTTCCCTTTT-TTTTT
1 TTTTTCTCTTTTCTTTTT
25603130 TTTGAAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 11 0.34
20 13 0.41
21 7 0.22
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTCTTTTCTTTTTA
Found at i:25609724 original size:16 final size:17
Alignment explanation
Indices: 25609705--25609765 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
25609695 TTATAACCAC
25609705 AATATA-ATATAATATA
1 AATATATATATAATATA
25609721 AATATATGATAAGTAATATA
1 AATATAT-AT-A-TAATATA
25609741 AA-ATATATATAATA-A
1 AATATATATATAATATA
*
25609756 AATGTATATA
1 AATATATATA
25609766 ATGTATAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 3 0.08
16 17 0.44
17 1 0.03
18 4 0.10
19 5 0.13
20 9 0.23
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
AATATATATATAATATA
Found at i:25609739 original size:20 final size:20
Alignment explanation
Indices: 25609714--25609752 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25609704 CAATATAATA
25609714 TAATAT-AAATATATGATAAG
1 TAATATAAAATATAT-ATAAG
25609734 TAATATAAAATATATATAA
1 TAATATAAAATATATATAA
25609753 TAAAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATATAAAATATATATAAG
Found at i:25609755 original size:14 final size:14
Alignment explanation
Indices: 25609738--25609767 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25609728 GATAAGTAAT
25609738 ATAAAATATATATA
1 ATAAAATATATATA
*
25609752 ATAAAATGTATATA
1 ATAAAATATATATA
25609766 AT
1 AT
25609768 GTATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAAAATATATATA
Found at i:25613816 original size:43 final size:42
Alignment explanation
Indices: 25613729--25613845 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
25613719 TCGGGCCAAT
***
25613729 TAAGACCATATCTGGGATATGGAATCGATATGAGACTTTGTG
1 TAAGACCATATCTGGGATATGGAATCGATATGAGACTCCATG
* * *
25613771 TAAGACCATAGCTGGGCTATTGACATCGATATGAGA-TCCCATG
1 TAAGACCATATCTGGGATATGGA-ATCGATATGAGACT-CCATG
* *
25613814 TAAGACCATATCTGGGATATGGCATTGATATG
1 TAAGACCATATCTGGGATATGGAATCGATATG
25613846 GTACTATGAG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGAATCGATATGAGACTCCATG
Found at i:25614077 original size:35 final size:35
Alignment explanation
Indices: 25614030--25614105 Score: 143
Period size: 35 Copynumber: 2.1 Consensus size: 35
25614020 TATGATTGTG
25614030 CAAGTTATGATATTAAGGTTTTAATAATATTCATGC
1 CAAG-TATGATATTAAGGTTTTAATAATATTCATGC
25614066 CAAGTATGATATTAAGGTTTTAATAATATTCATGC
1 CAAGTATGATATTAAGGTTTTAATAATATTCATGC
25614101 CAAGT
1 CAAGT
25614106 TGGACTATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (35 bp):
CAAGTATGATATTAAGGTTTTAATAATATTCATGC
Found at i:25626370 original size:39 final size:39
Alignment explanation
Indices: 25626316--25626464 Score: 237
Period size: 39 Copynumber: 3.8 Consensus size: 39
25626306 TGTTCGGGTA
* *
25626316 ATATCCAGGCTAAGCCCGAAGACAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
25626355 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
25626394 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTCGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
25626433 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
25626465 GGCTACCATA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 94 0.91
40 9 0.09
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:25626481 original size:78 final size:78
Alignment explanation
Indices: 25626316--25626494 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 78
25626306 TGTTCGGGTA
* * *
25626316 ATATCCAGGCTAAGCCCGAAGACAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTCGTGATATCCGGGCTAAGCCCGAAGGCAAT
* ***
25626381 TGTGCAAGTTGTG
66 TGTGCAAGCTACC
*
25626394 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTCGTGATATCCGGGTTAAGTCCCGAAGGC-A
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTCGTGATATCCGGGCTAAG-CCCGAAGGCAA
**
25626458 TTGTGCGGGCTACC
65 TTGTGCAAGCTACC
*
25626472 ATAAT-CGGGCTATGTCCCGAAGG
1 AT-ATCCGGGCTAAG-CCCGAAGG
25626495 TGTTTGAACG
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 68 0.78
79 19 0.22
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTCGTGATATCCGGGCTAAGCCCGAAGGCAAT
TGTGCAAGCTACC
Found at i:25631299 original size:26 final size:26
Alignment explanation
Indices: 25631260--25631315 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
25631250 TCTTATCTCT
*
25631260 ATTTTACCCTTAGTAAAATTTTGACG
1 ATTTTACCCGTAGTAAAATTTTGACG
*
25631286 ATTTTATCCGTAGTAAAATTTTGACG
1 ATTTTACCCGTAGTAAAATTTTGACG
25631312 ATTT
1 ATTT
25631316 GGCCCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (26 bp):
ATTTTACCCGTAGTAAAATTTTGACG
Found at i:25631496 original size:6 final size:6
Alignment explanation
Indices: 25631485--25631509 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25631475 AATTTCCATC
25631485 TTCATT TTCATT TTCATT TTCATT T
1 TTCATT TTCATT TTCATT TTCATT T
25631510 CCAAATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCATT
Found at i:25638377 original size:10 final size:10
Alignment explanation
Indices: 25638362--25638389 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25638352 TTCCTCTAGT
25638362 AAGTTAATCC
1 AAGTTAATCC
25638372 AAGTTAATCC
1 AAGTTAATCC
25638382 AAGTTAAT
1 AAGTTAAT
25638390 GCATTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (10 bp):
AAGTTAATCC
Found at i:25639479 original size:15 final size:15
Alignment explanation
Indices: 25639459--25639490 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
25639449 TGAAGGCTAA
25639459 AGTAAAAGGTTCTTT
1 AGTAAAAGGTTCTTT
25639474 AGTAAAAGGTTCTTT
1 AGTAAAAGGTTCTTT
25639489 AG
1 AG
25639491 CACTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (15 bp):
AGTAAAAGGTTCTTT
Found at i:25642042 original size:24 final size:24
Alignment explanation
Indices: 25642015--25642082 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
25642005 GAGGGATTCT
* *
25642015 CTATTGCACTAAGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
25642039 CTATGGCACTATGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
*
25642063 CCATGGCACTATGTGTGCGA
1 CTATGGCACTATGTGTGCGA
25642083 ACATAATAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (24 bp):
CTATGGCACTATGTGTGCGATTTA
Found at i:25645571 original size:37 final size:37
Alignment explanation
Indices: 25645520--25645595 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
25645510 ATGATCGATG
*
25645520 TTGTTGTAAATAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTAAATAGCC--ATGAGATGTGGCTTATAATGAT
**
25645557 TTGTTGTATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTAAATAGCCATGAGATGTGGCTTATAATGAT
25645594 TT
1 TT
25645596 TGGCTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 3 0.09
36 2 0.06
37 29 0.85
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (37 bp):
TTGTTGTAAATAGCCATGAGATGTGGCTTATAATGAT
Found at i:25647335 original size:3 final size:3
Alignment explanation
Indices: 25647317--25647367 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
25647307 AGTTAGCATC
* * * * *
25647317 AAG AAA AAG AAG -AG AAG AAG AAG AAA AAG AAG AAG GAG GAG AAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25647364 AAG A
1 AAG A
25647368 GAAACAATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25648188 original size:31 final size:30
Alignment explanation
Indices: 25648147--25648204 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
25648137 ATAACTGTTC
*
25648147 TGTCACTTTTTTATAACGTT-AGTGACTATTT
1 TGTCAATTTTTTA-AA-GTTAAGTGACTATTT
25648178 TGTCAATTTTTTAAAGTTAAGTGACTA
1 TGTCAATTTTTTAAAGTTAAGTGACTA
25648205 AAATGAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 10 0.40
31 12 0.48
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (30 bp):
TGTCAATTTTTTAAAGTTAAGTGACTATTT
Found at i:25651010 original size:28 final size:29
Alignment explanation
Indices: 25650942--25651010 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
25650932 AATAAAGCCC
*
25650942 TTTTTAATAAAATTACAAAAATAGATTGAT
1 TTTTTAATAAAATTACAAAAATA-ATTGAA
*
25650972 TTTTTTA-AAAATTACAAAAAT-A-TGCAA
1 TTTTTAATAAAATTACAAAAATAATTG-AA
*
25650999 TTTTTGATAAAA
1 TTTTTAATAAAA
25651011 ACACTTCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 2 0.06
27 8 0.24
28 4 0.12
29 14 0.41
30 6 0.18
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (29 bp):
TTTTTAATAAAATTACAAAAATAATTGAA
Found at i:25654749 original size:46 final size:48
Alignment explanation
Indices: 25654643--25654764 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 48
25654633 TGTCTTCGAC
* * *
25654643 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATAACTAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCA-ATATAT-ACTAAT
* * *
25654693 ATGGGCTTACATGTCTCATTCCTGTCTCCAAAGCC-ATATAT-CTTAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATACTAAT
* *
25654739 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
25654765 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
48 6 0.10
50 30 0.48
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATACTAAT
Found at i:25656408 original size:13 final size:13
Alignment explanation
Indices: 25656390--25656437 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
25656380 TAAAACACGA
*
25656390 AAAAAATATTAGT
1 AAAAAATATTAAT
**
25656403 AAAAAAATATTTCT
1 -AAAAAATATTAAT
*
25656417 TAAAAATATTAAT
1 AAAAAATATTAAT
25656430 AAAAAATA
1 AAAAAATA
25656438 GAATTTAGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:25656420 original size:15 final size:14
Alignment explanation
Indices: 25656389--25656435 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
25656379 ATAAAACACG
25656389 AAAAAAATATTAGT
1 AAAAAAATATTAGT
**
25656403 AAAAAAATATTTCT
1 AAAAAAATATTAGT
* *
25656417 -TAAAAATATTAAT
1 AAAAAAATATTAGT
25656430 AAAAAA
1 AAAAAA
25656436 TAGAATTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
AAAAAAATATTAGT
Found at i:25656541 original size:31 final size:31
Alignment explanation
Indices: 25656475--25656545 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
25656465 AAAAATTTAA
** **
25656475 GAGAGAATTTGAGAGATTTTCGAGAGTTGATT
1 GAGA-AATTTGAGAGATTTAAGAGAGTAAATT
25656507 GAGAAATTTGAGAGATTTAAGAGAG-AAATGT
1 GAGAAATTTGAGAGATTTAAGAGAGTAAAT-T
25656538 GAGAAATT
1 GAGAAATT
25656546 AGCAAGTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.06
31 28 0.82
32 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.30, T:0.30
Consensus pattern (31 bp):
GAGAAATTTGAGAGATTTAAGAGAGTAAATT
Found at i:25657408 original size:10 final size:10
Alignment explanation
Indices: 25657393--25657426 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
25657383 TTTAGAAGTT
25657393 TTAAAATCAA
1 TTAAAATCAA
*
25657403 TTAAAATCAT
1 TTAAAATCAA
25657413 TTAAAA-CAA
1 TTAAAATCAA
25657422 TTAAA
1 TTAAA
25657427 GAGTGATTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (10 bp):
TTAAAATCAA
Found at i:25662620 original size:26 final size:24
Alignment explanation
Indices: 25662578--25662625 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
25662568 ACATATTGGG
*
25662578 AGATAAATTTTTATTATTTTTTTA
1 AGATAAATTTTTATTATCTTTTTA
25662602 AGATAAATATTTTATTTATCTTTT
1 AGATAAAT-TTTTA-TTATCTTTT
25662626 CTATTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 5 0.24
26 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
AGATAAATTTTTATTATCTTTTTA
Done.