Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 172 of 190
Found at i:50050729 original size:75 final size:79
Alignment explanation
Indices: 50050635--50050818 Score: 268
Period size: 82 Copynumber: 2.3 Consensus size: 79
50050625 CTTAATTTAA
*
50050635 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGA-T-TC-T-GGCACTTAACCTGCTAG
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTATCATCGGCACTTAACCTGCTAG
50050696 GTTTATAACCTGATT
65 GTTTATAACCTGATT
* *
50050711 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCATCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT---ATCATCGGCACTTAACCTGCT
50050776 AGGTTTATAACCTGATT
63 AGGTTTATAACCTGATT
*
50050793 TAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
50050819 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
75 33 0.34
76 5 0.05
80 2 0.02
81 1 0.01
82 56 0.58
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (79 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTATCATCGGCACTTAACCTGCTAGG
TTTATAACCTGATT
Found at i:50050736 original size:41 final size:41
Alignment explanation
Indices: 50050679--50050818 Score: 253
Period size: 41 Copynumber: 3.4 Consensus size: 41
50050669 GCCTGATTCT
*
50050679 GGCACTTAACCTGCTAGGTTTATAACCTGATTCAGATCACC
1 GGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACC
*
50050720 GGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCATC
1 GGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACC
*
50050761 GGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGATCACC
1 GGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACC
50050802 GGCACTTAGCCTGCTAG
1 GGCACTTAGCCTGCTAG
50050819 ACGTATAGTC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACC
Found at i:50051046 original size:2 final size:2
Alignment explanation
Indices: 50051039--50051083 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
50051029 GAAACACATT
50051039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50051081 TA T
1 TA T
50051084 CCGCATACGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50051442 original size:2 final size:2
Alignment explanation
Indices: 50051435--50051468 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
50051425 TATTTGATAC
* *
50051435 AT AT AT AT AT AT AT AT AT AT AT CT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50051469 CTCTATTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:50053660 original size:3 final size:3
Alignment explanation
Indices: 50053652--50053710 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
50053642 TACACTAGTT
50053652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50053700 TTA TTA TTA TT
1 TTA TTA TTA TT
50053711 CTGTTGTTAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50055389 original size:18 final size:18
Alignment explanation
Indices: 50055366--50055401 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50055356 TATTTTTCAT
*
50055366 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCCATGC
50055384 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCCATGC
50055402 CTTACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (18 bp):
TTGCTTCAATTTCCATGC
Found at i:50057061 original size:43 final size:43
Alignment explanation
Indices: 50056986--50057148 Score: 211
Period size: 43 Copynumber: 3.8 Consensus size: 43
50056976 AAGTCATATT
*
50056986 TTTAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGTC
* * * * * * *
50057029 TTTTGTGGTGTTTTTGGGAAAAGTGCCGCTAAAGGTTTTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGTC
**
50057072 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGG-TCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTC-TGGTC
*
50057115 TTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
50057149 TTAGCGGCGC
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 98 0.99
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGTC
Found at i:50058684 original size:20 final size:20
Alignment explanation
Indices: 50058661--50058706 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
50058651 TGTTAATATT
*
50058661 TTGTTATTTATTCAAATAGG
1 TTGTTACTTATTCAAATAGG
*
50058681 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAATAGG
50058701 TTGTTA
1 TTGTTA
50058707 AGCTTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTCAAATAGG
Found at i:50063254 original size:20 final size:20
Alignment explanation
Indices: 50063226--50063277 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
50063216 TAAATCTGTT
* *
50063226 AATATTTTGTTATTTATTCA
1 AATAGTTTGTTACTTATTCA
* *
50063246 AATAGTTTGGTACTTATTTA
1 AATAGTTTGTTACTTATTCA
*
50063266 AATAGGTTGTTA
1 AATAGTTTGTTA
50063278 AGGTTTACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (20 bp):
AATAGTTTGTTACTTATTCA
Found at i:50069210 original size:6 final size:6
Alignment explanation
Indices: 50069201--50069254 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
50069191 GCCGAGGCTG
* * * * * *
50069201 AAGCTC AAGCTC AAGCTC AAGCTC AGGCAC AGGCTC AGGCTC AGGCAC
1 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC
50069249 AAGCTC
1 AAGCTC
50069255 TGTCTCGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (6 bp):
AAGCTC
Found at i:50069224 original size:18 final size:18
Alignment explanation
Indices: 50069201--50069254 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
50069191 GCCGAGGCTG
* *
50069201 AAGCTCAAGCTCAAGCTC
1 AAGCTCAGGCACAAGCTC
*
50069219 AAGCTCAGGCACAGGCTC
1 AAGCTCAGGCACAAGCTC
*
50069237 AGGCTCAGGCACAAGCTC
1 AAGCTCAGGCACAAGCTC
50069255 TGTCTCGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (18 bp):
AAGCTCAGGCACAAGCTC
Found at i:50071526 original size:14 final size:13
Alignment explanation
Indices: 50071493--50071530 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
50071483 AAAATTCTGG
50071493 CTTACTGCTTTGC
1 CTTACTGCTTTGC
*
50071506 TTTACTGCTTGTGC
1 CTTACTGCTT-TGC
50071520 CTTACTGCTTT
1 CTTACTGCTTT
50071531 ACTTCTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.08, C:0.26, G:0.16, T:0.50
Consensus pattern (13 bp):
CTTACTGCTTTGC
Found at i:50071528 original size:22 final size:22
Alignment explanation
Indices: 50071503--50071552 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
50071493 CTTACTGCTT
50071503 TGCTTTACTGCTTGTGCCTTAC
1 TGCTTTACTGCTTGTGCCTTAC
* * *
50071525 TGCTTTACTTCTTTTGCTTTAC
1 TGCTTTACTGCTTGTGCCTTAC
50071547 TGCTTT
1 TGCTTT
50071553 CGATTAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.54
Consensus pattern (22 bp):
TGCTTTACTGCTTGTGCCTTAC
Found at i:50071576 original size:36 final size:36
Alignment explanation
Indices: 50071536--50071627 Score: 114
Period size: 36 Copynumber: 2.4 Consensus size: 36
50071526 GCTTTACTTC
50071536 TTTTGCTTTACTGCTTTCGATTAGAA-TCAGGGAAAA
1 TTTTGC-TTACTGCTTTCGATTAGAATTCAGGGAAAA
50071572 TTTTGGCTTACTGCTTTCGATTAGAATTTTCAGGGAAAA
1 TTTT-GCTTACTGCTTTCGATTAGAA--TTCAGGGAAAA
* *
50071611 TTCTGGATTACTGCTTT
1 TT-TTGCTTACTGCTTT
50071628 GCTTTACTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
36 23 0.47
37 2 0.04
39 23 0.47
40 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (36 bp):
TTTTGCTTACTGCTTTCGATTAGAATTCAGGGAAAA
Found at i:50071622 original size:39 final size:36
Alignment explanation
Indices: 50071543--50071627 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 36
50071533 TTCTTTTGCT
* *
50071543 TTACTGCTTTCGATTAGAATCAGGGAAAATTTTGGC
1 TTACTGCTTTCGATTAGAATCAGGGAAAATTCTGGA
50071579 TTACTGCTTTCGATTAGAATTTTCAGGGAAAATTCTGGA
1 TTACTGCTTTCGATTAGAA---TCAGGGAAAATTCTGGA
50071618 TTACTGCTTT
1 TTACTGCTTT
50071628 GCTTTACTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 19 0.43
39 25 0.57
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (36 bp):
TTACTGCTTTCGATTAGAATCAGGGAAAATTCTGGA
Found at i:50072932 original size:60 final size:60
Alignment explanation
Indices: 50072839--50072960 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
50072829 TCCAGGAGAG
50072839 CTTCAACTATTCCTATAAGGGCTAATGGAGCTGATTCTTGTACTATATTATCCAATTCAA
1 CTTCAACTATTCCTATAAGGGCTAATGGAGCTGATTCTTGTACTATATTATCCAATTCAA
*
50072899 CTTCAACTATTCCTGTAAGGGCTAATGGAGCTGATTCTTGTACTATATTATCCAATTCAA
1 CTTCAACTATTCCTATAAGGGCTAATGGAGCTGATTCTTGTACTATATTATCCAATTCAA
50072959 CT
1 CT
50072961 ATCGGTCCCG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (60 bp):
CTTCAACTATTCCTATAAGGGCTAATGGAGCTGATTCTTGTACTATATTATCCAATTCAA
Found at i:50075881 original size:45 final size:45
Alignment explanation
Indices: 50075819--50075963 Score: 145
Period size: 45 Copynumber: 3.2 Consensus size: 45
50075809 CCTGAGTTGT
* * *
50075819 AGCGGAGCAGACTGAAGATAGTAGATATTGCCTTCCTGTACTGAC
1 AGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGAC
* * * * *
50075864 AGCGAAGCAGA-TCGAAGACACCAG-CCTTGCCTCCCTGGGT-TTG-C
1 AGCGAAGCAGACT-GAAGATAGCAGATCTTGCCTTCCT--GTACTGAC
* *
50075908 AGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCATGTACTGAC
1 AGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGAC
50075953 AGCGAAGCAGA
1 AGCGAAGCAGA
50075964 TCTTGCCTTC
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.03
44 32 0.42
45 41 0.53
46 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (45 bp):
AGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGAC
Found at i:50075962 original size:31 final size:31
Alignment explanation
Indices: 50075927--50075996 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
50075917 GACTGAAGAT
*
50075927 AGCAGATCTTGCCTTCATGTACTGACAGCGA
1 AGCAGATCTTGCCTTCATGTACTAACAGCGA
50075958 AGCAGATCTTGCCTTCATGTACTAACAGCGA
1 AGCAGATCTTGCCTTCATGTACTAACAGCGA
50075989 AGCAGATC
1 AGCAGATC
50075997 GAAGACACCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (31 bp):
AGCAGATCTTGCCTTCATGTACTAACAGCGA
Found at i:50076063 original size:44 final size:44
Alignment explanation
Indices: 50076015--50076130 Score: 187
Period size: 44 Copynumber: 2.6 Consensus size: 44
50076005 CAGCCTCATT
* * *
50076015 TCCCTGGACAGCAGCGGAATAGGTTGAAGGTTGCAATTCCTATC
1 TCCCTGGACAGCAGTGGAATAGGTTGAAGATTACAATTCCTATC
* *
50076059 TCCCTGAACAGCAGTAGAATAGGTTGAAGATTACAATTCCTATC
1 TCCCTGGACAGCAGTGGAATAGGTTGAAGATTACAATTCCTATC
50076103 TCCCTGGACAGCAGTGGAATAGGTTGAA
1 TCCCTGGACAGCAGTGGAATAGGTTGAA
50076131 TATTGTAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
TCCCTGGACAGCAGTGGAATAGGTTGAAGATTACAATTCCTATC
Found at i:50076163 original size:44 final size:44
Alignment explanation
Indices: 50076015--50076165 Score: 160
Period size: 44 Copynumber: 3.4 Consensus size: 44
50076005 CAGCCTCATT
* * * * *
50076015 TCCCTGGACAGCAGCGGAATAGGTTGAAGGTTGCAATTCCTATC
1 TCCCTGAACAGCAGTGGAATAGGTTGAAGATTACAATTCATATC
* *
50076059 TCCCTGAACAGCAGTAGAATAGGTTGAAGATTACAATTCCTATC
1 TCCCTGAACAGCAGTGGAATAGGTTGAAGATTACAATTCATATC
* * ** *
50076103 TCCCTGGACAGCAGTGGAATAGGTTGAATATTGTAGA-TCATGTC
1 TCCCTGAACAGCAGTGGAATAGGTTGAAGATTACA-ATTCATATC
* *
50076147 TCCCTAAACAGTAGTGGAA
1 TCCCTGAACAGCAGTGGAA
50076166 CAGATCAAAG
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 90 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TCCCTGAACAGCAGTGGAATAGGTTGAAGATTACAATTCATATC
Found at i:50076299 original size:88 final size:88
Alignment explanation
Indices: 50076207--50076397 Score: 312
Period size: 88 Copynumber: 2.2 Consensus size: 88
50076197 AGGTAGTAGG
** *
50076207 GAAGTAGATTTAAG-CCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAG
1 GAAGTAGATCGAAGACC-CCAGCCTTATCTCCCTGAGCAGCAGTGGAGGAGGTTGAAAATAGCAG
50076271 ATCTTGTCTTCCTGTATTGGCAGC
65 ATCTTGTCTTCCTGTATTGGCAGC
*
50076295 GAAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGGAGGTTGAAAATAGCAGA
1 GAAGTAGATCGAAGACCCCAGCCTTATCTCCCTGAGCAGCAGTGGAGGAGGTTGAAAATAGCAGA
*
50076360 TCTTGTCTTCCTTTATTGGCAGC
66 TCTTGTCTTCCTGTATTGGCAGC
*
50076383 GAAGTAGTTCGAAGA
1 GAAGTAGATCGAAGA
50076398 AACCAATCCT
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 94 0.98
89 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (88 bp):
GAAGTAGATCGAAGACCCCAGCCTTATCTCCCTGAGCAGCAGTGGAGGAGGTTGAAAATAGCAGA
TCTTGTCTTCCTGTATTGGCAGC
Found at i:50076365 original size:44 final size:44
Alignment explanation
Indices: 50076233--50076367 Score: 128
Period size: 44 Copynumber: 3.1 Consensus size: 44
50076223 ACCAGCCTTA
50076233 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
* *** * * * * * *** *
50076277 TCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCCAG-CCTTG
1 TCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
*
50076321 TCTCCCTGAGCAGCAGTGGAGGAGGTTGAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
50076365 TCT
1 TCT
50076368 TCCTTTATTG
Statistics
Matches: 62, Mismatches: 27, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
43 18 0.29
44 25 0.40
45 19 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (44 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
Found at i:50076451 original size:88 final size:87
Alignment explanation
Indices: 50076226--50076433 Score: 283
Period size: 88 Copynumber: 2.4 Consensus size: 87
50076216 TTAAGCCACC
50076226 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGT-GGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
50076291 CAGCGAAGTAGATCGAAGACCCC
65 CAGCGAAGTAGATCGAAGAACCA
* * *
50076314 AGCCTTGTCTCCCTGAGCAGCAGTGGAGGAGGTTGAAAATAGCAGATCTTGTCTTCCTTTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGA-GTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
50076379 CAGCGAAGTAGTTCGAAGAAACCA
65 CAGCGAAGTAGATCGAAG-AACCA
* * **
50076403 ATCC-TATCTCCTTGAAGTTGCAGTGGAGTGG
1 AGCCTTATCTCCCTG-AGCAGCAGTGGAGTGG
50076434 ATTAAAACTA
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
88 88 0.84
89 17 0.16
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (87 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGC
AGCGAAGTAGATCGAAGAACCA
Found at i:50078128 original size:3 final size:3
Alignment explanation
Indices: 50078122--50078165 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
50078112 TTACTACTAC
50078122 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
50078166 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:50078279 original size:6 final size:6
Alignment explanation
Indices: 50078268--50078507 Score: 337
Period size: 6 Copynumber: 40.8 Consensus size: 6
50078258 NNNNNNNNAT
50078268 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
*
50078316 ---TAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
*
50078361 TATTAT TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
* * *
50078409 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAT TATTAT TATTAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
* * * * * * *
50078457 TATTAT TATTA- T-TTAT TATTAT TATTAT TATTAT TATTAT TATTAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
50078503 TATTA
1 TATTA
50078508 GGTCTTTCAT
Statistics
Matches: 226, Mismatches: 3, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
3 3 0.01
4 3 0.01
5 2 0.01
6 218 0.96
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.55
Consensus pattern (6 bp):
TATTAC
Found at i:50078555 original size:82 final size:82
Alignment explanation
Indices: 50078506--50078671 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
50078496 TTATTATTAT
* *
50078506 TAGGTCTTTCATTTCACATGTTTTACTTGTTTAAGTCAATATGTATTATTATGTATACTACTTGT
1 TAGGTCTTTCATTTCACATGTTTCACTTGTTTAAGTCAATATGTATTATTATGTATACTACTTAT
*
50078571 TTGATTTTCCTTTCACG
66 TTGATTTTCATTTCACG
*
50078588 TAGGTCTTTCATTTCACATGTTTCACTTGTTTAAGTCAATATGTATTATTATGTATACTACTTGT
1 TAGGTCTTTCATTTCACATGTTTCACTTGTTTAAGTCAATATGTATTATTATGTATACTACTTAT
*
50078653 TTGATTTTCCTTTCACG
66 TTGATTTTCATTTCACG
50078670 TA
1 TA
50078672 ACATTTTGAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (82 bp):
TAGGTCTTTCATTTCACATGTTTCACTTGTTTAAGTCAATATGTATTATTATGTATACTACTTAT
TTGATTTTCATTTCACG
Found at i:50080414 original size:22 final size:21
Alignment explanation
Indices: 50080388--50080428 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
50080378 TATGTTCATT
50080388 TAAAT-TTAATTATTAAAATATG
1 TAAATATTAA-TA-TAAAATATG
50080410 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
50080429 AAATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATG
Found at i:50080570 original size:2 final size:2
Alignment explanation
Indices: 50080563--50080588 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50080553 TATGAACAGA
50080563 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
50080589 CTCAATCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50084487 original size:13 final size:12
Alignment explanation
Indices: 50084469--50084507 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50084459 AAATCTTAAT
50084469 ATTTCTTTTACTA
1 ATTTCTTTTA-TA
* *
50084482 ATTTCTTTTTTT
1 ATTTCTTTTATA
50084494 ATTTCTTTTATA
1 ATTTCTTTTATA
50084506 AT
1 AT
50084508 CCTTAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTCTTTTATA
Found at i:50084645 original size:13 final size:12
Alignment explanation
Indices: 50084605--50084637 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
50084595 TTTTTTACTG
50084605 TTTTATTTAATA
1 TTTTATTTAATA
*
50084617 TTTCATTTAATA
1 TTTTATTTAATA
50084629 TTTTATTTA
1 TTTTATTTA
50084638 TCTATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:50090420 original size:115 final size:115
Alignment explanation
Indices: 50090216--50090424 Score: 391
Period size: 115 Copynumber: 1.8 Consensus size: 115
50090206 CCTGATAATA
*
50090216 TAGTACGAGTGTGCACAAGACCCTATTGGCATGCCAATCGTATCCTAACATTTACTGAGTTCACC
1 TAGTACGAGTGTGCACAAGACCCTATTGGCATGCCAATCATATCCTAACATTTACTGAGTTCACC
* *
50090281 CAAGCATCTTTAATACACACAAAAAAATTTATCATCCAAGCTAATCAATC
66 CAAGCATCTTTAACACACAAAAAAAAATTTATCATCCAAGCTAATCAATC
50090331 TAGTACGAGTGTGCACAAGACCCTATTGGCATGCCAATCATATCCTAACATTTACTGAGTTCACC
1 TAGTACGAGTGTGCACAAGACCCTATTGGCATGCCAATCATATCCTAACATTTACTGAGTTCACC
50090396 CAAGCATCTTTAACACACAAAAAAAAATT
66 CAAGCATCTTTAACACACAAAAAAAAATT
50090425 CTTTACTATT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 91 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (115 bp):
TAGTACGAGTGTGCACAAGACCCTATTGGCATGCCAATCATATCCTAACATTTACTGAGTTCACC
CAAGCATCTTTAACACACAAAAAAAAATTTATCATCCAAGCTAATCAATC
Found at i:50094718 original size:5 final size:5
Alignment explanation
Indices: 50094710--50094752 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
50094700 TATTTAATTT
*
50094710 ATATA ATATA ATACA ATATA ATATA ATA-A A-ATA ATAT- ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
50094753 AACATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 8 0.24
5 24 0.73
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:50094730 original size:15 final size:14
Alignment explanation
Indices: 50094710--50094753 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
50094700 TATTTAATTT
50094710 ATATAATATAATACA
1 ATATAATATAATA-A
50094725 ATATAATATAATAA
1 ATATAATATAATAA
50094739 A-ATAATATATATAA
1 ATATAATATA-ATAA
50094753 A
1 A
50094754 ACATAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.29
14 7 0.25
15 13 0.46
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAATATAATAA
Found at i:50097422 original size:18 final size:19
Alignment explanation
Indices: 50097380--50097426 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
50097370 CTTATGATTA
* *
50097380 TTATAAAATATTATAAAAC
1 TTATAAAAAATCATAAAAC
*
50097399 TTATAAAAAATCAT-AAAT
1 TTATAAAAAATCATAAAAC
50097417 TTATAAAAAA
1 TTATAAAAAA
50097427 GACTATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
TTATAAAAAATCATAAAAC
Found at i:50097705 original size:205 final size:205
Alignment explanation
Indices: 50097447--50098075 Score: 808
Period size: 221 Copynumber: 3.0 Consensus size: 205
50097437 AATTAATTTT
* *
50097447 TTTATAAAATTAATAAAATATATTTAAAATATTTAAAAACTTATAACTGATATAAAAAAATTTAG
1 TTTATAAAATTAATAAAACATATTTAAAATATTTAAAAACTTATAAATGATATAAAAAAATTTAG
* * * * * **
50097512 AAATTCCAATAAAAAGATATTTAAGCCCCTAAATAAAAATAAACACATGACATCTGCCTGCCAGT
66 AAATTACAATAAAAAGACATTTAAGCCCCTAAATAATAATGAACACATGACATCTACCTAACAGT
* *
50097577 TAATGGGAATAATTTTTAGATTGTTAGGGTCATTTTCATGTTGAATAAAATGTTCTCGATCTTAA
131 TAATGGGAATAATTTTTAGATCGTTAGGGTCATTTTCATGTTGAATAAAATGTTCTCGATCTTCA
50097642 ACAAATAATC
196 ACAAATAATC
* *
50097652 TTTATATAATTAATGAAACATATTTAAAATATTTAAAAACTTATAAATGATATAAAAAATCTAAT
1 TTTATAAAATTAATAAAACATATTTAAAATATTTAAAAACTTATAAATG--AT-----A--T-A-
* * * * *
50097717 AAATTATTACATTTAGAAAGTACAATAAAAAGACATTGAATCCCCTAAATAATATTGAACATATG
55 AAA--A--A-ATTTAGAAATTACAATAAAAAGACATTTAAGCCCCTAAATAATAATGAACACATG
* * * *
50097782 GCATCTACCCAATAGTTAATGGGAATAGTTTTTAGATCGTTAGGGTCATTTTCATGTTGAATAAA
115 ACATCTACCTAACAGTTAATGGGAATAATTTTTAGATCGTTAGGGTCATTTTCATGTTGAATAAA
* *
50097847 ATGTTCTCGATCTTCTACAAATAATT
180 ATGTTCTCGATCTTCAACAAATAATC
50097873 TTTATAAAATTAATAAAACATATTTAAAATATTTAAAAACTTATAAATGATATAAAAAAATTTAG
1 TTTATAAAATTAATAAAACATATTTAAAATATTTAAAAACTTATAAATGATATAAAAAAATTTAG
* *
50097938 AAATTATAATAAAAAGACATTTAAGCCCCTAAATAATAATGAACACATGACATCTATCTAACAGT
66 AAATTACAATAAAAAGACATTTAAGCCCCTAAATAATAATGAACACATGACATCTACCTAACAGT
* * * * * * * *
50098003 TAATGAGAATGATTTTCAAATCATTAGGGTCATTTTCATATTGAATAAAATGTTCTCAATCTTCC
131 TAATGGGAATAATTTTTAGATCGTTAGGGTCATTTTCATGTTGAATAAAATGTTCTCGATCTTCA
50098068 ACAAATAA
196 ACAAATAA
50098076 AGTGATAATT
Statistics
Matches: 363, Mismatches: 45, Indels: 32
0.82 0.10 0.07
Matches are distributed among these distances:
205 170 0.47
206 1 0.00
207 2 0.01
208 1 0.00
210 3 0.01
211 1 0.00
212 2 0.01
214 2 0.01
215 1 0.00
216 3 0.01
218 1 0.00
219 2 0.01
220 1 0.00
221 173 0.48
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (205 bp):
TTTATAAAATTAATAAAACATATTTAAAATATTTAAAAACTTATAAATGATATAAAAAAATTTAG
AAATTACAATAAAAAGACATTTAAGCCCCTAAATAATAATGAACACATGACATCTACCTAACAGT
TAATGGGAATAATTTTTAGATCGTTAGGGTCATTTTCATGTTGAATAAAATGTTCTCGATCTTCA
ACAAATAATC
Found at i:50097931 original size:21 final size:22
Alignment explanation
Indices: 50097907--50097952 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
50097897 TAAAATATTT
*
50097907 AAAAACTTATAAATGAT-ATAA
1 AAAAACTTAGAAATGATAATAA
* *
50097928 AAAAATTTAGAAATTATAATAA
1 AAAAACTTAGAAATGATAATAA
50097950 AAA
1 AAA
50097953 GACATTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAACTTAGAAATGATAATAA
Found at i:50098528 original size:17 final size:18
Alignment explanation
Indices: 50098506--50098552 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
50098496 ACTAGAACTA
50098506 TTATAAGTTT-TAT-ATTT
1 TTATAA-TTTATATGATTT
50098523 TTATAATTTATATGATTT
1 TTATAATTTATATGATTT
50098541 TATATATATTTA
1 T-TATA-ATTTA
50098553 ATAATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 9 0.35
18 5 0.19
19 4 0.15
20 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTATAATTTATATGATTT
Found at i:50098561 original size:21 final size:18
Alignment explanation
Indices: 50098507--50098564 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 18
50098497 CTAGAACTAT
50098507 TATAAGTTT-TATATTTT-
1 TATAA-TTTATATATTTTA
50098524 TATAATTTATATGATTTTA
1 TATAATTTATAT-ATTTTA
50098543 TATATATTTAATAATATTTTA
1 TATA-ATTT-AT-ATATTTTA
50098564 T
1 T
50098565 GCTTTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.09
17 8 0.23
18 5 0.14
19 4 0.11
20 4 0.11
21 9 0.26
22 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TATAATTTATATATTTTA
Found at i:50099694 original size:11 final size:12
Alignment explanation
Indices: 50099631--50099695 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 12
50099621 AACTAATCCT
50099631 CTCTCAAATTTG
1 CTCTCAAATTTG
50099643 CTCTC-AATTTG
1 CTCTCAAATTTG
50099654 CTCTC-AATTTG
1 CTCTCAAATTTG
*
50099665 CTCTCAAA-TTC
1 CTCTCAAATTTG
50099676 CT-TCCAAATTT-
1 CTCT-CAAATTTG
50099687 CTCTCAAAT
1 CTCTCAAAT
50099696 CCATATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
10 1 0.02
11 37 0.77
12 10 0.21
ACGTcount: A:0.25, C:0.29, G:0.05, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTG
Found at i:50101514 original size:108 final size:109
Alignment explanation
Indices: 50101300--50101523 Score: 416
Period size: 110 Copynumber: 2.1 Consensus size: 109
50101290 TGAAAATTAA
50101300 CTAA-CCTTTTATAATCTAAAAAAAATAGAGGGATTAGAATTGAAATTTATCCACTATATTATTA
1 CTAAGCCTTTTATAATCTAAAAAAAATAGAGGGATTAGAATTGAAATTTATCCACTATATTATTA
50101364 TGTCAAAAAAAATGGAAAATGGACAAGTGTCAAGTAAAGAAGGCC
66 TGTC-AAAAAAATGGAAAATGGACAAGTGTCAAGTAAAGAAGGCC
*
50101409 CTAAGCCTTTTATAATCTAAAAAAAATAGAGGGATTAGAATTGAAATTTATCCATTATATTATTA
1 CTAAGCCTTTTATAATCTAAAAAAAATAGAGGGATTAGAATTGAAATTTATCCACTATATTATTA
50101474 TGTC-AAAAAATGGAAAATGGACAAGTGTCAAGTAAAGAAGGCC
66 TGTCAAAAAAATGGAAAATGGACAAGTGTCAAGTAAAGAAGGCC
50101517 CTAAGCC
1 CTAAGCC
50101524 CTTCTTTTAT
Statistics
Matches: 113, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
108 46 0.41
109 4 0.04
110 63 0.56
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (109 bp):
CTAAGCCTTTTATAATCTAAAAAAAATAGAGGGATTAGAATTGAAATTTATCCACTATATTATTA
TGTCAAAAAAATGGAAAATGGACAAGTGTCAAGTAAAGAAGGCC
Found at i:50102521 original size:237 final size:237
Alignment explanation
Indices: 50102106--50102547 Score: 625
Period size: 237 Copynumber: 1.9 Consensus size: 237
50102096 TGTGTGGACA
* * ** *
50102106 GGGCGTGTAACTCACTAGACTCCTGTACGACACCAACATGGATTTTTTATTTTTAGGTTTTTGAC
1 GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAAGGATTTTGGATTTTTAGGTTTTCGAC
* * *
50102171 ACTTTGAGAAGGTATATATAAGGAAATAAAAAGGGAGAACAATAGTCGTCTTATTTTTGCACAAA
66 ACTTTGAGAAGGCATATATAAGGAAATAAAAAGGGAGAACAATAGTCCTCTTATTCTTGCACAAA
* * *
50102236 AATTACCCAAAAGAACACCCCTGAAGTTGATTTTGAAACAGTTCTCCATCAAGATTGAAGATTCC
131 AATTACCCAAAAGAACACCCCTGAAGTTGATTCTGAAACAGATCTCCATCAAGATTAAAGATTCC
50102301 AAGCTAATTTGGAAGCTATACACAGTCAACAGTGTTCTACAC
196 AAGCTAATTTGGAAGCTATACACAGTCAACAGTGTTCTACAC
* * **
50102343 GGGCGTGTAACTCGCTGGACTCATGTACGACACCAGTAAGGATTTTCGGA-TTTTAGGTTTTCGA
1 GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAAGGATTTT-GGATTTTTAGGTTTTCGA
* * * * * *
50102407 CACTTTGAGAAGGCATATATAAGGAAATGAGAAGGGAGAATAGTAGTCCTCTTGTTCTTGCACGA
65 CACTTTGAGAAGGCATATATAAGGAAATAAAAAGGGAGAACAATAGTCCTCTTATTCTTGCACAA
* * ***
50102472 AAATTACCCAAAAGAACATCCTTGAAGTTGATTCTGAGGTAGATCTCCATCAAGATTAAAGATTC
130 AAATTACCCAAAAGAACACCCCTGAAGTTGATTCTGAAACAGATCTCCATCAAGATTAAAGATTC
*
50102537 CAAGCTGATTT
195 CAAGCTAATTT
50102548 CTGAGGAAGT
Statistics
Matches: 177, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
237 176 0.99
238 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (237 bp):
GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAAGGATTTTGGATTTTTAGGTTTTCGAC
ACTTTGAGAAGGCATATATAAGGAAATAAAAAGGGAGAACAATAGTCCTCTTATTCTTGCACAAA
AATTACCCAAAAGAACACCCCTGAAGTTGATTCTGAAACAGATCTCCATCAAGATTAAAGATTCC
AAGCTAATTTGGAAGCTATACACAGTCAACAGTGTTCTACAC
Found at i:50103822 original size:21 final size:21
Alignment explanation
Indices: 50103784--50103823 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50103774 TCACTTATTT
*
50103784 AAATGAAATTTTTTAAAATTA
1 AAATGAAATTTTTAAAAATTA
50103805 AAATGATAA-TTTTAAAAAT
1 AAATGA-AATTTTTAAAAAT
50103824 AAACAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATGAAATTTTTAAAAATTA
Found at i:50107557 original size:14 final size:14
Alignment explanation
Indices: 50107538--50107615 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 14
50107528 TTAATTGCCA
50107538 GTAAAATATTTTCT
1 GTAAAATATTTTCT
50107552 GTAAAATGA-TTTCT
1 GTAAAAT-ATTTTCT
*
50107566 GGAAAATGTTTTACTTTTCT
1 GTAAAA-----TA-TTTTCT
*
50107586 GTAAAATGATTTACT
1 GTAAAAT-ATTTTCT
*
50107601 GGAAAATATTTTCT
1 GTAAAATATTTTCT
50107615 G
1 G
50107616 GTGTTTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
14 24 0.48
15 13 0.26
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.20
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (14 bp):
GTAAAATATTTTCT
Found at i:50107584 original size:34 final size:35
Alignment explanation
Indices: 50107546--50107612 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
50107536 CAGTAAAATA
*
50107546 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
50107580 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
50107613 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:50107586 original size:20 final size:20
Alignment explanation
Indices: 50107561--50107600 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50107551 TGTAAAATGA
*
50107561 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
50107581 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
50107601 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:50108259 original size:31 final size:29
Alignment explanation
Indices: 50108221--50108297 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
50108211 CTAACGGCTC
* *
50108221 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
50108252 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
50108281 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
50108298 CTAAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:50115963 original size:43 final size:42
Alignment explanation
Indices: 50115895--50116163 Score: 325
Period size: 43 Copynumber: 6.4 Consensus size: 42
50115885 ACGTCGCTAA
* **
50115895 CTTTTGCGGCGCTTACAAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTT
* *
50115938 CTTTAGTGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
* * *
50115981 CTTTAGCGGCGCTTATGAAAAAACGCCGCTATAGATTATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
50116023 CTTTAGCGGCGCTTAGG-AAAAACGCCGTTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
50116064 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAGA-TCATGTT
*
50116107 CTATAGCGGCGCTT-GGTCAAAAAA-GCCGCTAATAG-T-AGTGTT
1 CTTTAGCGGCGCTTAGG--AAAAAACGCCGCTAA-AGATCA-TGTT
50116149 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
50116164 TTTCACAAAC
Statistics
Matches: 198, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
41 39 0.20
42 68 0.34
43 91 0.46
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:50116055 original size:126 final size:126
Alignment explanation
Indices: 50115914--50116163 Score: 364
Period size: 126 Copynumber: 2.0 Consensus size: 126
50115904 CGCTTACAAA
* * *
50115914 AAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAGGAAATAAACGCCGCT-AAAGATCAT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAAAAACGCCGCTAAAAG-TAAT
* *
50115978 GTTCTTTAGCGGCGCTT-ATGAAAAAACGCCGCT-ATAGATTA-TGTTCTTTAGCGGCGCTTAGG
65 GTTCTATAGCGGCGCTTGATCAAAAAA-GCCGCTAATAG--TAGTGTTCTTTAGCGGCGCTTAGG
* *
50116040 AAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAAAAACGCCGCTAAAAGTAATG
*
50116105 TTCTATAGCGGCGCTTGGTCAAAAAAGCCGCTAATAGTAGTGTTCTTTAGCGGCGCTTA
66 TTCTATAGCGGCGCTTGATCAAAAAAGCCGCTAATAGTAGTGTTCTTTAGCGGCGCTTA
50116164 TTTCACAAAC
Statistics
Matches: 112, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
125 2 0.02
126 95 0.85
127 15 0.13
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAAAAACGCCGCTAAAAGTAATG
TTCTATAGCGGCGCTTGATCAAAAAAGCCGCTAATAGTAGTGTTCTTTAGCGGCGCTTAGG
Found at i:50116635 original size:21 final size:21
Alignment explanation
Indices: 50116611--50116679 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
50116601 GCTTCTATCG
* *
50116611 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCCCTCGCTGTCGCCT
50116632 CTGCTTCCCTCGCTGTCGCCT
1 CTGCTTCCCTCGCTGTCGCCT
50116653 CTGCTTCCCTCGCTGTCGCCT
1 CTGCTTCCCTCGCTGTCGCCT
50116674 CTGCTT
1 CTGCTT
50116680 TAAGTTGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.01, C:0.43, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGTCGCCT
Found at i:50119407 original size:27 final size:27
Alignment explanation
Indices: 50119359--50119410 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
50119349 TCTTACATTT
* *
50119359 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
50119386 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
50119411 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:50119846 original size:17 final size:18
Alignment explanation
Indices: 50119810--50119853 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
50119800 ACCCCGGCCA
*
50119810 AACCCCTAAAACCTCTCT
1 AACCCTTAAAACCTCTCT
*
50119828 AACCCTTAAATCCTC-CT
1 AACCCTTAAAACCTCTCT
*
50119845 AAACCTTAA
1 AACCCTTAA
50119854 TTAACCCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (18 bp):
AACCCTTAAAACCTCTCT
Found at i:50122189 original size:41 final size:40
Alignment explanation
Indices: 50122144--50122383 Score: 255
Period size: 41 Copynumber: 5.9 Consensus size: 40
50122134 TTTTGTTACT
* ** *
50122144 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTAAATGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGA-GC
* * *
50122185 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-TAGAGC
* * ** *
50122226 ATTAGTGGCGCTCAGATAAAAACGCCGCTAAATATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT-AGAGC
* * *
50122267 ATTAGCGGTGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-TAGAGC
* ** *
50122308 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAATATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT-AGAGC
*
50122349 ATTAGCGGCGCTTAGGTAAAAACGCCGCTAAAGGT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT
50122384 TTAAAAATCG
Statistics
Matches: 161, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
41 159 0.99
42 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGAGC
Found at i:50122250 original size:82 final size:82
Alignment explanation
Indices: 50122183--50122382 Score: 364
Period size: 82 Copynumber: 2.4 Consensus size: 82
50122173 AAAGGTAAAT
* *
50122183 GCATTAGCGGCGCTTAGATACAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
50122248 CGCCGCTAAATATCCGA
66 CGCCGCTAAATATCCGA
*
50122265 GCATTAGCGGTGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
50122330 CGCCGCTAAATATCCGA
66 CGCCGCTAAATATCCGA
*
50122347 GCATTAGCGGCGCTTAGGTAAAAACGCCGCTAAAGG
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
50122383 TTTAAAAATC
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 113 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
CGCCGCTAAATATCCGA
Found at i:50131078 original size:33 final size:33
Alignment explanation
Indices: 50131036--50131101 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
50131026 TTGTTGGTGG
50131036 TTTGTTTTCTAACACGATCACCTGACTAGTGTC
1 TTTGTTTTCTAACACGATCACCTGACTAGTGTC
50131069 TTTGTTTTCTAACACGATCACCTGACTAGTGTC
1 TTTGTTTTCTAACACGATCACCTGACTAGTGTC
50131102 AACCACTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (33 bp):
TTTGTTTTCTAACACGATCACCTGACTAGTGTC
Found at i:50133452 original size:119 final size:119
Alignment explanation
Indices: 50133318--50133535 Score: 355
Period size: 119 Copynumber: 1.8 Consensus size: 119
50133308 ATAACCGAAG
* * * * *
50133318 CTATCCTTTTTCATTGTCCGATAGTCGTCACCATTCATTTCCATTGTTGATGGTCGTCACCATCC
1 CTATCCCTTTTCATTGTCCGATAATCGTCACCATCCATTTCCATTATTGATGGTAGTCACCATCC
*
50133383 CTTTTCATAATTTGATAGCCGAAGTTATCCCTTTTCATAATTCGATAGTCATAT
66 CTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGTCATAT
* * *
50133437 CTATCCCTTTTCATTGTTCGATAATCGTCACCATCCTTTTTCATTATTGATGGTAGTCACCATCC
1 CTATCCCTTTTCATTGTCCGATAATCGTCACCATCCATTTCCATTATTGATGGTAGTCACCATCC
50133502 CTTTTCATAATTTGATAGCCGAAGCTATCCCTTT
66 CTTTTCATAATTTGATAGCCGAAGCTATCCCTTT
50133536 CCATTAGTCG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 90 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (119 bp):
CTATCCCTTTTCATTGTCCGATAATCGTCACCATCCATTTCCATTATTGATGGTAGTCACCATCC
CTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGTCATAT
Found at i:50133478 original size:30 final size:30
Alignment explanation
Indices: 50133320--50133519 Score: 138
Period size: 30 Copynumber: 6.7 Consensus size: 30
50133310 AACCGAAGCT
* * *
50133320 ATCCTTTTTCATTGTCCGATAGTCGTCACC
1 ATCCCTTTTCATTATTCGATAGTCGTCACC
* * * * *
50133350 ATTCATTTCCATTGTT-GATGGTCGTCACC
1 ATCCCTTTTCATTATTCGATAGTCGTCACC
* * * * **
50133379 ATCCCTTTTCATAATTTGATAGCCG-AAGTT
1 ATCCCTTTTCATTATTCGATAGTCGTCA-CC
* * *
50133409 ATCCCTTTTCATAATTCGATAGTCAT-ATCT
1 ATCCCTTTTCATTATTCGATAGTCGTCA-CC
* *
50133439 ATCCCTTTTCATTGTTCGATAATCGTCACC
1 ATCCCTTTTCATTATTCGATAGTCGTCACC
* * *
50133469 ATCCTTTTTCATTATT-GATGGTAGTCACC
1 ATCCCTTTTCATTATTCGATAGTCGTCACC
* *
50133498 ATCCCTTTTCATAATTTGATAG
1 ATCCCTTTTCATTATTCGATAG
50133520 CCGAAGCTAT
Statistics
Matches: 132, Mismatches: 33, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
29 48 0.36
30 83 0.63
31 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATTATTCGATAGTCGTCACC
Found at i:50133532 original size:30 final size:29
Alignment explanation
Indices: 50133379--50133535 Score: 104
Period size: 30 Copynumber: 5.3 Consensus size: 29
50133369 GGTCGTCACC
* *
50133379 ATCCCTTTTCATAATTTGATAGCCGAAGTT
1 ATCCCTTTTCATAATTTGATAGTCGAA-CT
*
50133409 ATCCCTTTTCATAATTCGATAGTC-ATATCT
1 ATCCCTTTTCATAATTTGATAGTCGA-A-CT
** * * * *
50133439 ATCCCTTTTCATTGTTCGATAATCGTCACC
1 ATCCCTTTTCATAATTTGATAGTCG-AACT
* * * *
50133469 ATCCTTTTTCATTATTGATGGTAGTC--ACC
1 ATCCCTTTTCATAATT--TGATAGTCGAACT
*
50133498 ATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAA-CT
50133528 ATCCCTTT
1 ATCCCTTT
50133536 CCATTAGTCG
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.06
29 19 0.19
30 69 0.69
31 1 0.01
32 5 0.05
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAATTTGATAGTCGAACT
Found at i:50157985 original size:3 final size:3
Alignment explanation
Indices: 50157977--50158031 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
50157967 ACAAAATTAT
50157977 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50158025 ATA ATA A
1 ATA ATA A
50158032 CTAAACATGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50167392 original size:3 final size:3
Alignment explanation
Indices: 50167384--50167417 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
50167374 ACATGTAAAA
50167384 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
50167418 CAATGATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50169584 original size:15 final size:14
Alignment explanation
Indices: 50169559--50169594 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
50169549 AACTCTATTT
*
50169559 TAATTATATTATGA
1 TAATTATATTAAGA
50169573 TAATTGATATTAAGA
1 TAATT-ATATTAAGA
50169588 TAATTAT
1 TAATTAT
50169595 TAAGGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:50176839 original size:2 final size:2
Alignment explanation
Indices: 50176834--50176864 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50176824 AAAATCTATC
50176834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50176865 TTAGGATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50177908 original size:13 final size:14
Alignment explanation
Indices: 50177890--50177924 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
50177880 ATCTTTTATA
50177890 TAAAAATA-AATAT
1 TAAAAATATAATAT
50177903 TAAAAATATAATAT
1 TAAAAATATAATAT
*
50177917 TAGAAATA
1 TAAAAATA
50177925 CATTAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAAAATATAATAT
Found at i:50181375 original size:26 final size:26
Alignment explanation
Indices: 50181340--50181406 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
50181330 AAAATTTAAA
*
50181340 ATTTACCAAAATGT-TATAATTTTTTT
1 ATTTACCAAAATATATATAA-TTTTTT
*
50181366 ATTTACCAAAAAATATATAATTTTTT
1 ATTTACCAAAATATATATAATTTTTT
50181392 ATTTACCAAAATATA
1 ATTTACCAAAATATA
50181407 ACAAAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 32 0.86
27 5 0.14
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (26 bp):
ATTTACCAAAATATATATAATTTTTT
Found at i:50181427 original size:18 final size:19
Alignment explanation
Indices: 50181396--50181433 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50181386 TTTTTTATTT
* *
50181396 ACCAAAATATAACA-AAAA
1 ACCAAAAAAAAACAGAAAA
50181414 ACCAAAAAAAAACAGAAAA
1 ACCAAAAAAAAACAGAAAA
50181433 A
1 A
50181434 ATAACCTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.76, C:0.16, G:0.03, T:0.05
Consensus pattern (19 bp):
ACCAAAAAAAAACAGAAAA
Found at i:50181506 original size:27 final size:27
Alignment explanation
Indices: 50181465--50181571 Score: 169
Period size: 27 Copynumber: 4.0 Consensus size: 27
50181455 ACTCTCTGGG
*
50181465 ACAAGGGAACACTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
50181492 ACAAGGGAACCCTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
50181519 ACAAGGGTTCCCTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
50181546 ACAAGGGTTCCCTGTTGGCGGCACCA
1 ACAAGGGAACCCTGTTGGCGGCACCA
50181572 CTTGTGTTAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.15
Consensus pattern (27 bp):
ACAAGGGAACCCTGTTGGCGGCACCAA
Found at i:50181865 original size:3 final size:3
Alignment explanation
Indices: 50181857--50181894 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
50181847 AATTTTATAG
50181857 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
50181895 AGATGTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:50181953 original size:63 final size:63
Alignment explanation
Indices: 50181872--50182017 Score: 153
Period size: 61 Copynumber: 2.4 Consensus size: 63
50181862 TTATTATTAT
* *
50181872 TATTATTATTATTATTA-TTATTAA-GATGTTACTTAGTATTATTGTTAGTA-A-AAAATTAGTA
1 TATTATTATTA-TGTTAGTTATTAATAATGTTACTTAGTATTATT-TT-GTATATAAAATTAGTA
*
50181933 T
63 A
* * *
50181934 TATT-TT-TGTA-GTTAGTTATTAATAATTTTAGTTAGTATTATTTTGTATATAAAATTATTAA
1 TATTATTAT-TATGTTAGTTATTAATAATGTTACTTAGTATTATTTTGTATATAAAATTAGTAA
50181995 TATTATTATTATGTTAGTTATTA
1 TATTATTATTATGTTAGTTATTA
50182018 GGATTAGTGG
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
59 6 0.09
60 11 0.16
61 33 0.47
62 8 0.11
63 12 0.17
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.55
Consensus pattern (63 bp):
TATTATTATTATGTTAGTTATTAATAATGTTACTTAGTATTATTTTGTATATAAAATTAGTAA
Found at i:50182654 original size:18 final size:18
Alignment explanation
Indices: 50182633--50182669 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50182623 GTTGGTGGTA
* *
50182633 AAGAAGAATGTGGTTGCG
1 AAGAAGAAGGTGGTGGCG
50182651 AAGAAGAAGGTGGTGGCG
1 AAGAAGAAGGTGGTGGCG
50182669 A
1 A
50182670 TCATTGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.43, T:0.16
Consensus pattern (18 bp):
AAGAAGAAGGTGGTGGCG
Found at i:50185355 original size:27 final size:27
Alignment explanation
Indices: 50185282--50185361 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
50185272 ATAACACGAG
**
50185282 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
50185309 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
50185336 TGGTGCCGCCAACAGTGTTCCCTTGT
1 TGGTGCCGCCAACAGGGTTCCCTTGT
50185362 CCCAGGGAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.14, C:0.30, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:50185450 original size:29 final size:28
Alignment explanation
Indices: 50185417--50185486 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
50185407 TTTTTTTTTG
50185417 ATATATTTTGGTAAATAAAAAAAAATTAT
1 ATATATTTTGGTAAAT-AAAAAAAATTAT
*
50185446 ATATATTTTGGTAAATAAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
50185474 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
50185487 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 11 0.28
28 12 0.31
29 16 0.41
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:50185900 original size:156 final size:154
Alignment explanation
Indices: 50185523--50186130 Score: 771
Period size: 152 Copynumber: 4.0 Consensus size: 154
50185513 TAAAAACCCC
*
50185523 CCGAAATAAGGGTTTTTTTAAAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAATATA
1 CCGAAATAAGGGTTTTTTT-AAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATA
* *
50185588 ATGTACTAAAATAATATAAAATAATAAAATTAGAAAATAG--TATTTTTTTTGAAGTAATAAATT
65 ATGTACTAAAATAATATAAAATAATAAAA-TAGAAAATAGTATATTTTTTTTAAAGTAATAAAAT
* *
50185651 CT-GGGGAAAAAATACGAACAAAGGG
129 CTAGGGAAAAAAATACGAACAAAAGG
* * * *
50185676 TCGAAATAAGGGTTTTTTAAAAATTTATTTAAAAAATACAGTAAATTAATACATTTTAAACATAA
1 CCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAA
* *
50185741 TGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTTAAAGTAATAAACTC
66 TGTACTAAAATAATATAAAATAATAAAA-TAGAAAATAGTATATTTTTTTTAAAGTAATAAAATC
*
50185806 TAGGGAAAAAAATACAAACAAAAGG
130 TAGGGAAAAAAATACGAACAAAAGG
* * * *
50185831 CCGAAATAAGGGTTCTTTTTAAAATTTATTTAAAAAATACGGTCAATTAATACATTTCAAACATG
1 CCGAAATAAGGGTT-TTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATA
* * *
50185896 ATGTACTAAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAA
65 ATGTACTAAAATAATATAAAATAATAAAATA-GAAAATAGTATATTTTT-TTTAAAGTAATAAAA
* *
50185961 T-TCGGGAAAAAAATACGAACAAATGG
128 TCTAGGGAAAAAAATACGAACAAAAGG
* * * * *
50185987 CCGAAATAA-TGATTTTTT--AATTTATTTAAAAAGCACACTAAATTAATACATTTCAAATATAA
1 CCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAA
* * *
50186049 TGTACTAAAAT-A-ATAAAA-AAT-AAA-A-AAAATAGTATA-GTTTTTAAAAGTAATAAAATCC
66 TGTACTAAAATAATATAAAATAATAAAATAGAAAATAGTATATTTTTTTTAAAGTAATAAAATCT
* *
50186107 A-GG-AAAAAATACGAATAAAGGG
131 AGGGAAAAAAATACGAACAAAAGG
50186129 CC
1 CC
50186131 AAAACACGAA
Statistics
Matches: 407, Mismatches: 41, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
142 19 0.05
143 17 0.04
144 3 0.01
145 10 0.02
147 1 0.00
148 3 0.01
149 3 0.01
150 6 0.01
151 1 0.00
152 129 0.32
153 17 0.04
154 28 0.07
155 37 0.09
156 119 0.29
157 14 0.03
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (154 bp):
CCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAA
TGTACTAAAATAATATAAAATAATAAAATAGAAAATAGTATATTTTTTTTAAAGTAATAAAATCT
AGGGAAAAAAATACGAACAAAAGG
Found at i:50194870 original size:37 final size:37
Alignment explanation
Indices: 50194821--50194895 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 37
50194811 CTCATTATAC
50194821 AAAATTTCTTTAAAAAATCCAAACACATC-AAAATTT
1 AAAATTTCTTTAAAAAATCCAAACACATCAAAAATTT
50194857 AAAATTTTCTTTAAAAAATCCAAACACATCAAAAATTT
1 AAAA-TTTCTTTAAAAAATCCAAACACATCAAAAATTT
50194895 A
1 A
50194896 GTTTATTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 4 0.11
37 25 0.68
38 8 0.22
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (37 bp):
AAAATTTCTTTAAAAAATCCAAACACATCAAAAATTT
Found at i:50195680 original size:17 final size:18
Alignment explanation
Indices: 50195649--50195686 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50195639 AGGAATAAAT
50195649 ATTAAATTTATATATG-A
1 ATTAAATTTATATATGTA
50195666 ATTATAATTTA-ATATGTA
1 ATTA-AATTTATATATGTA
50195684 ATT
1 ATT
50195687 TTATATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTAAATTTATATATGTA
Found at i:50196138 original size:19 final size:19
Alignment explanation
Indices: 50196116--50196152 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50196106 GTCATAACAA
*
50196116 CTTATAAATATTATAAAAG
1 CTTATAAACATTATAAAAG
*
50196135 CTTATAAACATTCTAAAA
1 CTTATAAACATTATAAAA
50196153 AAATTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (19 bp):
CTTATAAACATTATAAAAG
Found at i:50197240 original size:42 final size:42
Alignment explanation
Indices: 50197120--50197247 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 42
50197110 TTATTAAGCA
* * *
50197120 TTTTCTAAGCGCCGCTAAAGAACATGGTCGTTAGCGACGTTA
1 TTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT
* *
50197162 CTTTCTAAGCGCCGCTAAAGAACATGGTCTCTAGCGGCGTTT
1 TTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT
* * *
50197204 TTTTCTAAGCGCCGCTAAAGAAAATGTTCTTTAGCGGTGTTT
1 TTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT
50197246 TT
1 TT
50197248 ATACAAAAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (42 bp):
TTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT
Found at i:50197654 original size:21 final size:21
Alignment explanation
Indices: 50197628--50197678 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
50197618 TTCTTTTGAA
*
50197628 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
50197649 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
50197670 CCTCTGCTT
1 CCTCTGCTT
50197679 TAAATTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.47, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:50202480 original size:7 final size:7
Alignment explanation
Indices: 50202465--50202503 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
50202455 AGAAAATAAC
*
50202465 AAAATAG
1 AAAACAG
50202472 AAAACAG
1 AAAACAG
50202479 AAAACAG
1 AAAACAG
*
50202486 AAAATAG
1 AAAACAG
50202493 AAAACAG
1 AAAACAG
50202500 AAAA
1 AAAA
50202504 TAAAGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.74, C:0.08, G:0.13, T:0.05
Consensus pattern (7 bp):
AAAACAG
Found at i:50202504 original size:14 final size:14
Alignment explanation
Indices: 50202452--50202505 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
50202442 CACTTCATTC
*
50202452 AACAGAAAATAACAA
1 AACAGAAAAT-AGAA
* *
50202467 AATAGAAAACAGAA
1 AACAGAAAATAGAA
50202481 AACAGAAAATAGAA
1 AACAGAAAATAGAA
50202495 AACAGAAAATA
1 AACAGAAAATA
50202506 AAGAAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 26 0.76
15 8 0.24
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.07
Consensus pattern (14 bp):
AACAGAAAATAGAA
Found at i:50203383 original size:6 final size:6
Alignment explanation
Indices: 50203372--50203442 Score: 142
Period size: 6 Copynumber: 11.8 Consensus size: 6
50203362 TCAATTCTGT
50203372 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
50203420 ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATA
50203443 TATAAATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:50204723 original size:47 final size:47
Alignment explanation
Indices: 50204664--50204759 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
50204654 GTTTTGTTAA
* * **
50204664 TTTAGGTAATATTT-TAAAAAATTAGATAAAATTATCAATTTCAGTTT
1 TTTAAGTAATATTTAT-AAAAATTAGATAAAAATAAAAATTTCAGTTT
* *
50204711 TTTAAGTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAATTTCAGTTT
50204758 TT
1 TT
50204760 ATTTCTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 41 0.98
48 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (47 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAATTTCAGTTT
Found at i:50204795 original size:22 final size:23
Alignment explanation
Indices: 50204747--50204796 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
50204737 TAAAAATAAA
*
50204747 AATTTTAGTTTTTATTTCTTTTT
1 AATTTTAGTTTTAATTTCTTTTT
50204770 -ATTTTA-TTTTAATTT-TTTTGT
1 AATTTTAGTTTTAATTTCTTTT-T
50204791 AATTTT
1 AATTTT
50204797 TACAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 11 0.46
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (23 bp):
AATTTTAGTTTTAATTTCTTTTT
Found at i:50204803 original size:9 final size:9
Alignment explanation
Indices: 50204791--50204833 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
50204781 ATTTTTTTGT
50204791 AATTTTTAC
1 AATTTTTAC
50204800 AATTTTTTTAC
1 AA--TTTTTAC
50204811 AA-TTTTAC
1 AATTTTTAC
50204819 AATTTTTAC
1 AATTTTTAC
50204828 AATTTT
1 AATTTT
50204834 AAATTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.26
9 14 0.45
11 9 0.29
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTTAC
Found at i:50204805 original size:8 final size:8
Alignment explanation
Indices: 50204805--50204838 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
50204795 TTTACAATTT
50204805 TTTTACAA
1 TTTTACAA
50204813 TTTTACAA
1 TTTTACAA
50204821 TTTTTACAA
1 -TTTTACAA
50204830 TTTTA-AA
1 TTTTACAA
50204837 TT
1 TT
50204839 ATTATATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTACAA
Found at i:50204805 original size:19 final size:19
Alignment explanation
Indices: 50204780--50204838 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 19
50204770 ATTTTATTTT
**
50204780 AATTTTTTTGTAATTTTTAC
1 AATTTTTTTACAA-TTTTAC
50204800 AATTTTTTTACAATTTTAC
1 AATTTTTTTACAATTTTAC
50204819 AA--TTTTTACAATTTTA-
1 AATTTTTTTACAATTTTAC
50204835 AATT
1 AATT
50204839 ATTATATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 2 0.06
17 14 0.40
19 8 0.23
20 11 0.31
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTTTTTTACAATTTTAC
Found at i:50204852 original size:21 final size:20
Alignment explanation
Indices: 50204827--50204881 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
50204817 ACAATTTTTA
50204827 CAATTTTAAATTATT-ATATT
1 CAATTTTAAATTATTCATA-T
*
50204847 CAAATTATTATA-TATTGCATAT
1 C-AATT-TTAAATTATT-CATAT
50204869 CAATTTTAAATTA
1 CAATTTTAAATTA
50204882 ATAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 6 0.21
23 3 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
CAATTTTAAATTATTCATAT
Found at i:50205009 original size:7 final size:7
Alignment explanation
Indices: 50204997--50205044 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
50204987 TACTCCAAAT
50204997 CCCTAAC
1 CCCTAAC
50205004 CCCTAAC
1 CCCTAAC
50205011 CCCTAAC
1 CCCTAAC
* *
50205018 CCTTAAT
1 CCCTAAC
50205025 CCCTAAC
1 CCCTAAC
50205032 CCCTAAC
1 CCCTAAC
50205039 CCCTAA
1 CCCTAA
50205045 ACCTTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:50205030 original size:28 final size:28
Alignment explanation
Indices: 50204994--50205050 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
50204984 CCCTACTCCA
*
50204994 AATCCCTAACCCCTAACCCCTAACCCTT
1 AATCCCTAACCCCTAACCCCTAAACCTT
50205022 AATCCCTAACCCCTAACCCCTAAACCTT
1 AATCCCTAACCCCTAACCCCTAAACCTT
50205050 A
1 A
50205051 TTTAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (28 bp):
AATCCCTAACCCCTAACCCCTAAACCTT
Found at i:50205162 original size:7 final size:7
Alignment explanation
Indices: 50205152--50205221 Score: 113
Period size: 7 Copynumber: 10.0 Consensus size: 7
50205142 CTCTTAACAT
50205152 CTAACCC
1 CTAACCC
50205159 CTAACCC
1 CTAACCC
50205166 CTAACCC
1 CTAACCC
50205173 CTAACCC
1 CTAACCC
*
50205180 TTAACCC
1 CTAACCC
50205187 CTAACCC
1 CTAACCC
*
50205194 TTAACCC
1 CTAACCC
50205201 CTAACCC
1 CTAACCC
50205208 CTAACCC
1 CTAACCC
*
50205215 TTAACCC
1 CTAACCC
50205222 ATAAACCTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAACCC
Found at i:50205277 original size:14 final size:15
Alignment explanation
Indices: 50205255--50205288 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50205245 CTTAAACCAG
*
50205255 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
50205269 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
50205284 AATCT
1 AATCT
50205289 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:50205362 original size:19 final size:20
Alignment explanation
Indices: 50205335--50205376 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
50205325 AATCCTAAAT
* *
50205335 TAACCATATATA-TATACCC
1 TAACAATATATATTAAACCC
*
50205354 TAACAATATTTATTAAACCC
1 TAACAATATATATTAAACCC
50205374 TAA
1 TAA
50205377 ACTATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
TAACAATATATATTAAACCC
Found at i:50205730 original size:114 final size:114
Alignment explanation
Indices: 50205531--50206203 Score: 1041
Period size: 114 Copynumber: 5.9 Consensus size: 114
50205521 ATCCCTGAGT
** * *
50205531 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCC-TCGAAAGCTCAAAAAACGGCGTCGATGGG
1 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGTCGTTGGG
* *
50205595 CTGAAGTATTTTTGTGGCGCTTTACCAAAAACGCCGCTAAAGACCTGACC
65 CTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
*
50205645 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAATGGCGTCGTTGGGC
1 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCGTTGGGC
* *
50205710 TGAAGTATTTTTGCGACGCTTTCCCAAAAACACCGCTAAAGACCTGACC
66 TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
* ** *
50205759 ATTAGCGGCGGTTACATAAAAACGCCACTAAATCC-TCGAAAGCTCAGAAAACGGCGTCGTTAGG
1 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGTCGTTGGG
* *
50205823 CTAAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAAC
65 CTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
*
50205873 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACAGCGTCGTTGGGC
1 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCGTTGGGC
*
50205938 TGAAGTATTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
66 TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
* * * *
50205987 -TGTAGCGACGCTTACAGAAAAACGCCATTAAATCCTTCTCAGCTCAGTAAACGGCGTCGTTGGG
1 AT-TAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCGTTGGG
50206051 CTGAAGTA-TTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
65 CTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
** * * *
50206100 AGCAGCGGCGCTTACATAAAAACGCCATTAAATTCTTCTCAGCTCAGACAACGGCGTCGTTGGGC
1 ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCGTTGGGC
50206165 -GAAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
66 TG-AAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
50206204 TGCTTATTTT
Statistics
Matches: 513, Mismatches: 39, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
112 1 0.00
113 105 0.20
114 403 0.79
115 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (114 bp):
ATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCGTTGGGC
TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGACC
Found at i:50207036 original size:51 final size:51
Alignment explanation
Indices: 50206978--50207090 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
50206968 TTCCAAAATT
50206978 CTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTTC
* * *
50207029 CTCTCAATTTCCTTCGAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTTC
*
50207080 CCCTCAATTTC
1 CTCTCAATTTC
50207091 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.28, G:0.01, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTTC
Found at i:50207125 original size:30 final size:30
Alignment explanation
Indices: 50207091--50207155 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
50207081 CCTCAATTTC
*
50207091 ATTTTTTAAAATAATTTTAAAATTTTTTAT
1 ATTTTTAAAAATAATTTTAAAATTTTTTAT
*
50207121 ATTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTAAAAATAATTTTAAAATTTTTTAT
50207151 ATTTT
1 ATTTT
50207156 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTTTAAAAATAATTTTAAAATTTTTTAT
Found at i:50208056 original size:21 final size:19
Alignment explanation
Indices: 50208028--50208066 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
50208018 TAACGAGGTA
50208028 AATTTTATATTACATTTTGG
1 AATTTTATA-TACATTTTGG
*
50208048 AATTATTATATAGATTTTG
1 AATT-TTATATACATTTTG
50208067 TTAGAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (19 bp):
AATTTTATATACATTTTGG
Found at i:50208249 original size:7 final size:7
Alignment explanation
Indices: 50208237--50208261 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50208227 AGTCGATTGA
50208237 TATTTAG
1 TATTTAG
50208244 TATTTAG
1 TATTTAG
50208251 TATTTAG
1 TATTTAG
50208258 TATT
1 TATT
50208262 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:50208938 original size:18 final size:18
Alignment explanation
Indices: 50208912--50208946 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50208902 AGGTGTGTTT
* *
50208912 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
50208930 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
50208947 TACTTTGCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:50209457 original size:29 final size:29
Alignment explanation
Indices: 50209425--50209643 Score: 264
Period size: 29 Copynumber: 8.0 Consensus size: 29
50209415 TAATTTACTA
*
50209425 AAAAACCCTAACCGTAAACTAACTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
50209454 AAAAACCCTAACCCTAAACTAACTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
* *
50209483 GAAAACCCTAACCCTAACCTAACTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
*
50209512 AAAAA--C---CCC-AACCTAACTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
* *
50209535 AAAAATCCTAACCCTAACCTAACTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
*
50209564 AAAAACTCTAACCCTAAACTAACTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
*
50209593 AAAAACCCTAA--C----CTAGCTTAATT
1 AAAAACCCTAACCCTAAACTAACTTAATT
* *
50209616 TAAAACCCTAACCCTAACCTAACTTAAT
1 AAAAACCCTAACCCTAAACTAACTTAAT
50209644 CACACTTCTG
Statistics
Matches: 167, Mismatches: 11, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
23 39 0.23
24 3 0.02
25 2 0.01
27 2 0.01
28 3 0.02
29 118 0.71
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (29 bp):
AAAAACCCTAACCCTAAACTAACTTAATT
Found at i:50209538 original size:81 final size:81
Alignment explanation
Indices: 50209443--50209643 Score: 330
Period size: 81 Copynumber: 2.5 Consensus size: 81
50209433 TAACCGTAAA
* * *
50209443 CTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTGAAAACCCTAACCCTAACCTAACTT
1 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTT
50209508 AATTAAAAACCCCAAC
66 AATTAAAAACCCCAAC
* *
50209524 CTAACTTAATTAAAAATCCTAACCCTAACCTAACTTAATTAAAAACTCTAACCCTAAACTAACTT
1 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTT
*
50209589 AATTAAAAACCCTAAC
66 AATTAAAAACCCCAAC
* *
50209605 CTAGCTTAATTTAAAACCCTAACCCTAACCTAACTTAAT
1 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
50209644 CACACTTCTG
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
81 111 1.00
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.26
Consensus pattern (81 bp):
CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTT
AATTAAAAACCCCAAC
Found at i:50209606 original size:52 final size:53
Alignment explanation
Indices: 50209434--50209643 Score: 234
Period size: 52 Copynumber: 3.9 Consensus size: 53
50209424 AAAAAACCCT
* *
50209434 AACCGTAAACTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTGAAAACCC
1 AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATT--AAA--C
*
50209491 TAACCCTAACCTAACTTAATTAAAAACCCCAA-CCT-AACTTAA-TTAA--AAATCC
1 -AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAAC-TAACTTAATTAAA--C
*
50209543 TAACCCTAACCTAACTTAATTAAAAACTCTAACCCTAAACTAACTTAATTAAA-
1 -AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAC
* * *
50209596 AACCCTAACCTAGCTTAATTTAAAACCCTAACCCTAACCTAACTTAAT
1 AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAAT
50209644 CACACTTCTG
Statistics
Matches: 136, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
52 79 0.58
53 6 0.04
54 7 0.05
56 10 0.07
57 6 0.04
58 28 0.21
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.26
Consensus pattern (53 bp):
AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAC
Found at i:50209627 original size:23 final size:23
Alignment explanation
Indices: 50209492--50209642 Score: 131
Period size: 23 Copynumber: 6.0 Consensus size: 23
50209482 TGAAAACCCT
50209492 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAACTTAATTAAA
*
50209515 AACCCCAACCTAACTTAATTAAAAA
1 AACCCTAACCTAACTTAATT--AAA
50209540 TCCTAACCCTAACCTAACTTAATTAAAAA
1 ----AACCCTAACCTAACTTAATT--AAA
*
50209569 CTCTAACCCTAAACTAACTTAATTAAA
1 ----AACCCTAACCTAACTTAATTAAA
* *
50209596 AACCCTAACCTAGCTTAATTTAA
1 AACCCTAACCTAACTTAATTAAA
*
50209619 AACCCTAACCCTAACCTAACTTAA
1 AACCCTAA-CCTAACTTAA-TTAA
50209643 TCACACTTCT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
23 47 0.43
24 8 0.07
25 6 0.06
27 3 0.03
29 45 0.41
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.26
Consensus pattern (23 bp):
AACCCTAACCTAACTTAATTAAA
Found at i:50210755 original size:124 final size:126
Alignment explanation
Indices: 50210463--50210815 Score: 622
Period size: 124 Copynumber: 2.8 Consensus size: 126
50210453 CCAAAACTTG
* *
50210463 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
50210528 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAACATTATTTCTTACATGAC
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAACATTATTTCTTACATGAC
* *
50210589 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTTAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
50210654 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAA-AAAAA-ATTATTTCTTACATGAC
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAACATTATTTCTTACATGAC
50210713 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
50210778 TAGAAGCGATTTTATACAATTTGAC-CAGAAACGTCAAC
66 TAGAAGCAATTTTATACTATTTG-CTCAGAAACGTCAAC
50210816 TCGAATTAAT
Statistics
Matches: 217, Mismatches: 8, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
124 113 0.52
125 6 0.03
126 98 0.45
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAACATTATTTCTTACATGAC
Found at i:50211846 original size:125 final size:122
Alignment explanation
Indices: 50211567--50211846 Score: 364
Period size: 124 Copynumber: 2.3 Consensus size: 122
50211557 AATTTTTGAG
* ** ** *
50211567 TTGACGTATCTG-GTCAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACAAGGATGCTATTTGAGAAGAAATTGT
* * *
50211631 GAAATCGTGGCCTCGTGGACGCGATTTCGGTACAGTGGTCATGTAAGAAATAATTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTT
* * * * *
50211689 TTGATGTTTTCTGAGCAAATAGTATAAAATCGCTGATACAATGATGCTATATTGGGTAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACAAGGATGCTAT-TTGAGAAGAAATTG
*
50211754 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGTAAGAAATAA-TTTTT
*
50211815 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
50211847 GCCCTCGTGG
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
122 5 0.04
123 33 0.24
124 46 0.34
125 41 0.30
126 10 0.07
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (122 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACAAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTT
Found at i:50213155 original size:23 final size:23
Alignment explanation
Indices: 50213129--50213394 Score: 208
Period size: 23 Copynumber: 11.2 Consensus size: 23
50213119 TACAGTTAGC
50213129 TTAGGGTTTTTAATTAAATTAAGTTAGG
1 TTAGGGTTTTTAATTAAATT-A---A-G
50213157 TTAGGGTTTTTAATTAAATTAAG
1 TTAGGGTTTTTAATTAAATTAAG
* *
50213180 TTA-GG-TTTTAAGTTAAGTTAGG
1 TTAGGGTTTTTAA-TTAAATTAAG
* *
50213202 TTAGGG-TTTTACATTAAGTTAGG
1 TTAGGGTTTTTA-ATTAAATTAAG
50213225 TTAGGGTTTTTAATT--A--AA-
1 TTAGGGTTTTTAATTAAATTAAG
* *
50213243 TTA-GGTTTTTAATTCAATTAGG
1 TTAGGGTTTTTAATTAAATTAAG
*
50213265 TTAGGGTTTTTAATTCAATTAAG
1 TTAGGGTTTTTAATTAAATTAAG
* **
50213288 TTAGGTTTGGGTTTTTAATTCAATTTGG
1 TTA-----GGGTTTTTAATTAAATTAAG
50213316 TTAGGGTTTTTAATTAAATTAAGTTAGG
1 TTAGGGTTTTTAATTAAATT-A---A-G
*
50213344 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAAG
*
50213367 TTAGTGTTTTTAATTAAATTAAG
1 TTAGGGTTTTTAATTAAATTAAG
50213390 TTAGG
1 TTAGG
50213395 TTAGGGTTTT
Statistics
Matches: 203, Mismatches: 15, Indels: 45
0.77 0.06 0.17
Matches are distributed among these distances:
17 11 0.05
18 3 0.01
19 2 0.01
21 7 0.03
22 16 0.08
23 93 0.46
24 7 0.03
27 2 0.01
28 62 0.31
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAAG
Found at i:50213184 original size:51 final size:51
Alignment explanation
Indices: 50213107--50213413 Score: 346
Period size: 51 Copynumber: 6.4 Consensus size: 51
50213097 NNNNNNNNNN
* * *
50213107 TAGGG-TTTTAAATACAGTTAGCTTAGGGTTTTTAATTAAATTAAGTTAGGT
1 TAGGGTTTTTAATTA-AATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
* *
50213158 TAGGGTTTTTAATTAAATTAAGTTA-GG---TT--TTAAGTTAAGTTAGGT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
*
50213203 TAGGG-TTTTACATTAAGTTAGGTTAGGG--TTT--TT-AATTAA---A--T
1 TAGGGTTTTTA-ATTAAATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
* *
50213244 TA-GGTTTTTAATTCAATTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
* * *
50213294 TTGGGTTTTTAATTCAATTTGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
*
50213345 TAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTAAATTAAGTTAGGT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
*
50213396 TAGGGTTTTTAATCAAAT
1 TAGGGTTTTTAATTAAAT
50213414 AATGTCAAAA
Statistics
Matches: 222, Mismatches: 18, Indels: 32
0.82 0.07 0.12
Matches are distributed among these distances:
40 17 0.08
41 8 0.04
42 3 0.01
43 1 0.00
44 7 0.03
45 38 0.17
46 7 0.03
47 6 0.03
48 1 0.00
50 4 0.02
51 122 0.55
52 8 0.04
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (51 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
Found at i:50213195 original size:17 final size:17
Alignment explanation
Indices: 50213170--50213203 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50213160 GGGTTTTTAA
50213170 TTAAATTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
*
50213187 TTAAGTTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
50213204 AGGGTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTAAATTAAGTTAGGTT
Found at i:50213245 original size:28 final size:28
Alignment explanation
Indices: 50213114--50213186 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
50213104 NNNTAGGGTT
*
50213114 TTAAA-TACAGTTAGCTTAGGGTTTTTAA
1 TTAAATTA-AGTTAGGTTAGGGTTTTTAA
50213142 TTAAATTAAGTTAGGTTAGGGTTTTTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAA
50213170 TTAAATTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
50213187 TTAAGTTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 41 0.95
29 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (28 bp):
TTAAATTAAGTTAGGTTAGGGTTTTTAA
Found at i:50213252 original size:18 final size:17
Alignment explanation
Indices: 50213229--50213266 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
50213219 GTTAGGTTAG
50213229 GGTTTTTAATTAAATTA
1 GGTTTTTAATTAAATTA
*
50213246 GGTTTTTAATTCAATTA
1 GGTTTTTAATTAAATTA
50213263 GGTT
1 GGTT
50213267 AGGGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (17 bp):
GGTTTTTAATTAAATTA
Found at i:50213293 original size:28 final size:28
Alignment explanation
Indices: 50213260--50213413 Score: 193
Period size: 28 Copynumber: 5.9 Consensus size: 28
50213250 TTTAATTCAA
*
50213260 TTAGGTTAGGGTTTTTAATTCAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAATTAAG
* *
50213288 TTAGGTTTGGGTTTTTAATTCAA-T---
1 TTAGGTTAGGGTTTTTAATTAAATTAAG
50213312 TT-GGTTAGGGTTTTTAATTAAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAATTAAG
50213339 TTAGGTTAGGGTTTTTAATT--A--AA-
1 TTAGGTTAGGGTTTTTAATTAAATTAAG
*
50213362 TTAGGTTAGTGTTTTTAATTAAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAATTAAG
*
50213390 TTAGGTTAGGGTTTTTAATCAAAT
1 TTAGGTTAGGGTTTTTAATTAAAT
50213414 AATGTCAAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
23 37 0.34
24 5 0.05
25 1 0.01
26 1 0.01
27 5 0.05
28 61 0.55
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.49
Consensus pattern (28 bp):
TTAGGTTAGGGTTTTTAATTAAATTAAG
Found at i:50215536 original size:26 final size:26
Alignment explanation
Indices: 50215501--50215562 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
50215491 CTTTTATAAC
*
50215501 AAAAAATAAATTAATAAATATC-TAAA-
1 AAAATATAAA-TAA-AAATATCTTAAAT
*
50215527 AATATATAAATAAAAATATCTTAAAT
1 AAAATATAAATAAAAATATCTTAAAT
50215553 AAAATATAAA
1 AAAATATAAA
50215563 ATTTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 7 0.23
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAATATAAATAAAAATATCTTAAAT
Found at i:50215551 original size:15 final size:14
Alignment explanation
Indices: 50215523--50215564 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
50215513 AATAAATATC
50215523 TAAAAATATATAAA
1 TAAAAATATATAAA
*
50215537 TAAAAATATCTTAAA
1 TAAAAATAT-ATAAA
50215552 T-AAAATATA-AAA
1 TAAAAATATATAAA
50215564 T
1 T
50215565 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
14 16 0.64
15 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATATATAAA
Found at i:50215774 original size:22 final size:22
Alignment explanation
Indices: 50215744--50215785 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50215734 ATTTGGAGAT
*
50215744 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
50215766 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
50215786 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:50215793 original size:30 final size:30
Alignment explanation
Indices: 50215757--50215815 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
50215747 TTGAAGGAAA
* *
50215757 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
50215787 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
50215816 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:50215806 original size:52 final size:51
Alignment explanation
Indices: 50215735--50215837 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
50215725 TTAATATGGA
* * *
50215735 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
*
50215786 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
50215838 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 38 0.83
53 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:50215812 original size:22 final size:22
Alignment explanation
Indices: 50215787--50215864 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
50215777 ATTTGAGAGT
*
50215787 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
*
50215809 TTGAGAGAATTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
50215831 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
50215853 TTGAGAGAATTT
1 TTGAGAGAATTT
50215865 GTTTGTGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:50228318 original size:10 final size:10
Alignment explanation
Indices: 50228305--50228383 Score: 53
Period size: 10 Copynumber: 8.4 Consensus size: 10
50228295 TAAACTTATT
50228305 AAAATTATAA
1 AAAATTATAA
50228315 AAAA-TATTAA
1 AAAATTA-TAA
*
50228325 AAACTTAT-A
1 AAAATTATAA
*
50228334 AATA-T-TAA
1 AAAATTATAA
* *
50228342 AAAACTCTAA
1 AAAATTATAA
50228352 AAAA-TATAA
1 AAAATTATAA
* *
50228361 TAAATT-CAA
1 AAAATTATAA
50228370 AAAATTATAA
1 AAAATTATAA
50228380 AAAA
1 AAAA
50228384 ATTAATTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
7 1 0.02
8 5 0.09
9 20 0.38
10 25 0.47
11 2 0.04
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:50228324 original size:18 final size:20
Alignment explanation
Indices: 50228277--50228326 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
50228267 AAAAGTATTT
*
50228277 AAAACATTAAAATTTATATA
1 AAAATATTAAAATTTATATA
**
50228297 AACTTATTAAAA-TTATA-A
1 AAAATATTAAAATTTATATA
50228315 AAAATATTAAAA
1 AAAATATTAAAA
50228327 ACTTATAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATATTAAAATTTATATA
Found at i:50228327 original size:19 final size:19
Alignment explanation
Indices: 50228263--50228335 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
50228253 AAAAATAAAG
* ** *
50228263 ATTAAAAAGTATTTAAAAC
1 ATTAAAAATTATAAAAAAT
* **
50228282 ATTAAAATTTATATAAACTT
1 ATTAAAAATTATA-AAAAAT
50228302 ATT-AAAATTATAAAAAAT
1 ATTAAAAATTATAAAAAAT
50228320 ATTAAAAACTTATAAA
1 ATTAAAAA-TTATAAA
50228336 TATTAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 7 0.17
19 22 0.54
20 12 0.29
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (19 bp):
ATTAAAAATTATAAAAAAT
Found at i:50228381 original size:9 final size:9
Alignment explanation
Indices: 50228284--50228382 Score: 67
Period size: 9 Copynumber: 10.7 Consensus size: 9
50228274 TTTAAAACAT
*
50228284 TAAAATTTA
1 TAAAAATTA
*
50228293 TATAAACTTA
1 TA-AAAATTA
*
50228303 TTAAAATTA
1 TAAAAATTA
*
50228312 TAAAAAATA
1 TAAAAATTA
50228321 TTAAAAACTTA
1 -TAAAAA-TTA
*
50228332 TAAATATTA
1 TAAAAATTA
* *
50228341 -AAAAACTC
1 TAAAAATTA
*
50228349 TAAAAAATA
1 TAAAAATTA
50228358 TAATAAATTCA
1 TAA-AAATT-A
50228369 -AAAAATTA
1 TAAAAATTA
50228377 TAAAAA
1 TAAAAA
50228383 AATTAATTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
8 6 0.09
9 37 0.53
10 24 0.34
11 3 0.04
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:50228961 original size:9 final size:9
Alignment explanation
Indices: 50228919--50229146 Score: 100
Period size: 9 Copynumber: 24.8 Consensus size: 9
50228909 TTTTATTTTT
50228919 ATTTTTATA
1 ATTTTTATA
*
50228928 AGTTTATATCA
1 A-TTTTTAT-A
*
50228939 ATTTTAATA
1 ATTTTTATA
*
50228948 CTTTTTATA
1 ATTTTTATA
*
50228957 ATTTTTTTATG
1 A--TTTTTATA
50228968 ATTTTATATA
1 ATTTT-TATA
*
50228978 ATTTTAATATG
1 ATTTT--TATA
* *
50228989 CTTTTTAAA
1 ATTTTTATA
**
50228998 ATTTAAAT-
1 ATTTTTATA
50229006 ATATTTTATTA
1 AT-TTTTA-TA
50229017 A-TTTTATA
1 ATTTTTATA
*
50229025 TTTTTTATA
1 ATTTTTATA
*
50229034 ATTTATT-TG
1 ATTT-TTATA
50229043 ATTTTTAT-
1 ATTTTTATA
50229051 A-TTTTATA
1 ATTTTTATA
50229059 ATTTTTATA
1 ATTTTTATA
* *
50229068 AGTGTATATTA
1 A-TTTTTA-TA
50229079 ATTTTTAT-
1 ATTTTTATA
50229087 -TTTTTAT-
1 ATTTTTATA
50229094 A-TTTTATA
1 ATTTTTATA
*
50229102 TTTTATTA-A
1 ATTT-TTATA
50229111 TATTTTTAT-
1 -ATTTTTATA
*
50229120 TTTTTTGATA
1 ATTTTT-ATA
50229130 ATTTTTATGA
1 ATTTTTAT-A
50229140 ATTTTTA
1 ATTTTTA
50229147 ATCTTTTTTA
Statistics
Matches: 165, Mismatches: 29, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
7 19 0.12
8 13 0.08
9 62 0.38
10 49 0.30
11 22 0.13
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:50229019 original size:39 final size:40
Alignment explanation
Indices: 50228930--50229068 Score: 129
Period size: 34 Copynumber: 3.7 Consensus size: 40
50228920 TTTTTATAAG
***
50228930 TTTATATCAATTTTAATA-CTTTTTATAATTTTTTTATGAT
1 TTTATAT-AATTTTAATATCTTTTTATAATTTAAATATGAT
*
50228970 TTTATATAATTTTAATATGCTTTTTAAAATTTAAATAT-AT
1 TTTATATAATTTTAATAT-CTTTTTATAATTTAAATATGAT
*
50229010 TTTAT-TAATTTT-ATAT-TTTTTATAATTT--ATTTGAT
1 TTTATATAATTTTAATATCTTTTTATAATTTAAATATGAT
*
50229045 TTT-TAT-ATTTT-ATA-ATTTTTATAA
1 TTTATATAATTTTAATATCTTTTTATAA
50229069 GTGTATATTA
Statistics
Matches: 88, Mismatches: 6, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
34 21 0.24
35 6 0.07
36 11 0.12
38 4 0.05
39 17 0.19
40 14 0.16
41 15 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (40 bp):
TTTATATAATTTTAATATCTTTTTATAATTTAAATATGAT
Done.