Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 105 of 290
Found at i:36076417 original size:25 final size:23
Alignment explanation
Indices: 36076360--36076419 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
36076350 CAAATTATGC
*
36076360 ATAAGTAAATTTAAAAGAATATAT
1 ATAA-TAAATATAAAAGAATATAT
36076384 ATAATAAATATAAAAGAATATAT
1 ATAATAAATATAAAAGAATATAT
*
36076407 TTACATAAA-ATAA
1 ATA-ATAAATATAA
36076420 TATGAAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (23 bp):
ATAATAAATATAAAAGAATATAT
Found at i:36078917 original size:25 final size:24
Alignment explanation
Indices: 36078850--36078907 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
36078840 AATTGTATTT
**
36078850 TTTTATAATAATAA-AAA-TATAA
1 TTTTATAATTTTAATAAATTATAA
* *
36078872 TTTTATTATTTTAATAAATTATAT
1 TTTTATAATTTTAATAAATTATAA
36078896 TTTTATAATTTT
1 TTTTATAATTTT
36078908 TAAAGAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 11 0.38
23 3 0.10
24 15 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATAATTTTAATAAATTATAA
Found at i:36078963 original size:27 final size:27
Alignment explanation
Indices: 36078914--36078980 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
36078904 TTTTTAAAGA
* *
36078914 ATTAAATTAAATTAAATTATTATTATT
1 ATTAAATTAAAATAAATTATTATCATT
36078941 -TTAAAGTTAAAATATAATT-TTATCATT
1 ATTAAA-TTAAAATA-AATTATTATCATT
*
36078968 ATTAATTTAAAAT
1 ATTAAATTAAAAT
36078981 TTTATAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.15
27 21 0.62
28 8 0.24
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
ATTAAATTAAAATAAATTATTATCATT
Found at i:36078977 original size:67 final size:64
Alignment explanation
Indices: 36078906--36079102 Score: 180
Period size: 67 Copynumber: 3.1 Consensus size: 64
36078896 TTTTATAATT
36078906 TTTAAAGAATTAAATTAAATTAAATTATTATTATTTTAAAGTTAAAATATAATTTTATCATTATT
1 TTTAAA-AATTAAATTAAATTAAATT-TTATTATTTTAAAGTTAAAATATAATTTTAT-ATTATT
36078971 AA
63 AA
* *
36078973 TTTAAAATTTTATAAATT--ATTATAATTTTATTATTTT-AA--T-AAATCAT-ATTTT-TATAA
1 TTTAAAA--AT-TAAATTAAATTA-AATTTTATTATTTTAAAGTTAAAAT-ATAATTTTATATTA
36079030 TT--
61 TTAA
* * *
36079032 TTTAAAAAATTAAATTAAATTAAATTTTTATCATTTTAATGTTAGAATATAATTTTATAATTATT
1 TTT-AAAAATTAAATTAAATTAAA-TTTTATTATTTTAAAGTTAAAATATAATTTTAT-ATTATT
36079097 AA
63 AA
36079099 TTTA
1 TTTA
36079103 GAATTTTATA
Statistics
Matches: 105, Mismatches: 7, Indels: 37
0.70 0.05 0.25
Matches are distributed among these distances:
57 6 0.06
58 3 0.03
59 18 0.17
60 5 0.05
61 5 0.05
62 4 0.04
63 17 0.16
64 4 0.04
65 5 0.05
66 4 0.04
67 23 0.22
68 5 0.05
69 6 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (64 bp):
TTTAAAAATTAAATTAAATTAAATTTTATTATTTTAAAGTTAAAATATAATTTTATATTATTAA
Found at i:36078989 original size:59 final size:59
Alignment explanation
Indices: 36078926--36079118 Score: 181
Period size: 59 Copynumber: 3.1 Consensus size: 59
36078916 TAAATTAAAT
* * *
36078926 TAAATTATTATTATTTTAAAGTTAAAATATAATTTTATCATTATTAATTTAAAATTTTA
1 TAAATTATTATAATTTTAATGTTAAAATATAATTTTATAATTATTAATTTAAAATTTTA
* * * * *
36078985 TAAATTATTATAATTTTATTATTTTAATAAATCATATTTTTATAATTTTTAAAAAATT-AAATTA
1 TAAATTATTATAATTTTA--ATGTT-A-AAAT-ATAATTTTATAATTATT---AATTTAAAATTT
*
36079049 AA
58 TA
* * * *
36079051 TTAAATTTTTATCATTTTAATGTTAGAATATAATTTTATAATTATTAATTTAGAATTTTA
1 -TAAATTATTATAATTTTAATGTTAAAATATAATTTTATAATTATTAATTTAAAATTTTA
36079111 TAAATTAT
1 TAAATTAT
36079119 GAAGGACTTA
Statistics
Matches: 104, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
59 28 0.27
60 5 0.05
61 3 0.03
62 16 0.15
63 7 0.07
64 15 0.14
65 4 0.04
66 6 0.06
67 20 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (59 bp):
TAAATTATTATAATTTTAATGTTAAAATATAATTTTATAATTATTAATTTAAAATTTTA
Found at i:36079002 original size:26 final size:27
Alignment explanation
Indices: 36078965--36079016 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
36078955 TAATTTTATC
36078965 ATTATTAATTTAAAATTTT-ATAAATT
1 ATTATTAATTTAAAATTTTAATAAATT
**
36078991 ATTA-TAATTTTATTATTTTAATAAAT
1 ATTATTAA-TTTAAAATTTTAATAAAT
36079017 CATATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 3 0.14
26 13 0.59
27 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTATTAATTTAAAATTTTAATAAATT
Found at i:36079003 original size:8 final size:8
Alignment explanation
Indices: 36078953--36079033 Score: 51
Period size: 8 Copynumber: 10.1 Consensus size: 8
36078943 AAAGTTAAAA
36078953 TATAATTT
1 TATAATTT
* *
36078961 TATCATTA
1 TATAATTT
36078969 T-TAA-TT
1 TATAATTT
*
36078975 TAAAATTT
1 TATAATTT
36078983 TATAAATTAT
1 TAT-AATT-T
36078993 TATAATTT
1 TATAATTT
*
36079001 TATTATTT
1 TATAATTT
*
36079009 TAATAA-AT
1 T-ATAATTT
* *
36079017 CATATTTT
1 TATAATTT
36079025 TATAATTT
1 TATAATTT
36079033 T
1 T
36079034 TAAAAAATTA
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
6 2 0.04
7 7 0.13
8 29 0.55
9 11 0.21
10 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TATAATTT
Found at i:36079022 original size:126 final size:126
Alignment explanation
Indices: 36078867--36079118 Score: 432
Period size: 126 Copynumber: 2.0 Consensus size: 126
36078857 ATAATAAAAA
* *
36078867 TATAATTTTATTATTTTAATAAATTATATTTTTATAATTTTTAAAGAATTAAATTAAATTAAATT
1 TATAATTTTATTATTTTAATAAATCATATTTTTATAATTTTTAAAAAATTAAATTAAATTAAATT
* *
36078932 ATTATTATTTTAAAGTTAAAATATAATTTTATCATTATTAATTTAAAATTTTATAAATTAT
66 ATTATCATTTTAAAGTTAAAATATAATTTTATAATTATTAATTTAAAATTTTATAAATTAT
36078993 TATAATTTTATTATTTTAATAAATCATATTTTTATAATTTTTAAAAAATTAAATTAAATTAAATT
1 TATAATTTTATTATTTTAATAAATCATATTTTTATAATTTTTAAAAAATTAAATTAAATTAAATT
* * * *
36079058 TTTATCATTTTAATGTTAGAATATAATTTTATAATTATTAATTTAGAATTTTATAAATTAT
66 ATTATCATTTTAAAGTTAAAATATAATTTTATAATTATTAATTTAAAATTTTATAAATTAT
36079119 GAAGGACTTA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (126 bp):
TATAATTTTATTATTTTAATAAATCATATTTTTATAATTTTTAAAAAATTAAATTAAATTAAATT
ATTATCATTTTAAAGTTAAAATATAATTTTATAATTATTAATTTAAAATTTTATAAATTAT
Found at i:36088182 original size:40 final size:37
Alignment explanation
Indices: 36088096--36088226 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 37
36088086 TTTTCCTCAT
*
36088096 TGAAATACCATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTTACAACTCAGTATGGA
* *
36088132 -GAAATGCCATACCTACATTTCT-TAACTCAGTATGGA
1 TGAAATACCATACCTACATTT-TACAACTCAGTATGGA
36088168 TTTGATAATACCATACCTACATTTTACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTTACAACTCAGTATGGA
36088208 TG--ATACCATACCTACATTT
1 TGAAATACCATACCTACATTT
36088227 CACACTTTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 15
0.81 0.05 0.15
Matches are distributed among these distances:
35 47 0.57
36 1 0.01
38 2 0.02
39 3 0.04
40 30 0.36
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTTACAACTCAGTATGGA
Found at i:36092690 original size:15 final size:15
Alignment explanation
Indices: 36092670--36092703 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
36092660 CGTATGGGCT
36092670 TTGATTCAAGGTGGA
1 TTGATTCAAGGTGGA
36092685 TTGATTCAAGGTGGA
1 TTGATTCAAGGTGGA
36092700 TTGA
1 TTGA
36092704 GACTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.35
Consensus pattern (15 bp):
TTGATTCAAGGTGGA
Found at i:36094929 original size:49 final size:49
Alignment explanation
Indices: 36094857--36094954 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
36094847 GCTCACAATA
* *
36094857 TTACAGAAGATGGTCTAAGAAGGGAAAGGAAATGCACTTGGAAGAAGAG
1 TTACAGAAGATGGTCTAAGAAGGGAAAGGAAACGCACCTGGAAGAAGAG
* *
36094906 TTACAGAAGATGGTGTAAGAAGGGAAAGGAAACGCACCTGGAAGGAGAG
1 TTACAGAAGATGGTCTAAGAAGGGAAAGGAAACGCACCTGGAAGAAGAG
36094955 GCACTACACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.09, G:0.35, T:0.14
Consensus pattern (49 bp):
TTACAGAAGATGGTCTAAGAAGGGAAAGGAAACGCACCTGGAAGAAGAG
Found at i:36100158 original size:38 final size:38
Alignment explanation
Indices: 36100110--36100270 Score: 241
Period size: 38 Copynumber: 4.2 Consensus size: 38
36100100 GGCTCAAAGG
* * * *
36100110 CCCGAATATAATACCAGCACTAGGCCTGCGGGACTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
36100148 CCCGGATATAATACCAGCGCGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
36100186 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
36100224 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
36100262 CCCAGATAT
1 CCCGGATAT
36100271 NNNNNNNNNN
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 114 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.19
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:36106812 original size:23 final size:23
Alignment explanation
Indices: 36106786--36106830 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
36106776 TAGATAAGTG
*
36106786 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
36106809 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
36106831 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:36106933 original size:253 final size:252
Alignment explanation
Indices: 36106486--36106990 Score: 877
Period size: 253 Copynumber: 2.0 Consensus size: 252
36106476 TGAAATGAAT
* *
36106486 GTAAAGTTAGCCATTAGTATGGTTAACAAACCTGGTTATAGATAGGTGATGACGTTATCTTATAT
1 GTAAAGTTAGCCACTAGTATGGTTAACAAACCTGGTTATAGATAAGTGATGACGTTATCTTATAT
36106551 AAATGCATGAATCTATCATGAAAATATGTTAATTGATTTGGTTGATGTGGATTGGTCTCGATTTA
66 AAATGCATGAATCTATCATGAAAATATGTTAATTGATTTGGTTGATGTGGATTGGTCTCGATTTA
* * *
36106616 ATATTGCAGGGAAGGTTAGATATTTATAAAGGGGCTATATTGAATATAAAAAAATTTAATTCGTA
131 ATATTACAGGGAAGGTTAGATATTTATAAAGGAGCTATATTAAATATAAAAAAATTTAATTCGTA
* *
36106681 AACTCCGGTAATGCCTCGTACCCTATTCCGGCAATGAATACGGGTAGGGGTATTACA
196 AACTCCGATAATGCCTCATACCCTATTCCGGCAATGAATACGGGTAGGGGTATTACA
*
36106738 GTAAAGTTAGCCACTAGTATGGTTAACAAACCTGGTTTTAGATAAGTGATGACGTTATCTTATA-
1 GTAAAGTTAGCCACTAGTATGGTTAACAAACCTGGTTATAGATAAGTGATGACGTTATCTTATAT
* *
36106802 AATATGCATGAATTTATCTTGAAAATATGTTGAATTGATTTGGTTGATGTGGATTGGTCTCGATT
66 AA-ATGCATGAATCTATCATGAAAATATGTT-AATTGATTTGGTTGATGTGGATTGGTCTCGATT
*
36106867 TAATATTACAGGGAAGGTTAGATATTTATAAATGAGCTATATTAAATATAAAAAAATTTAATTCG
129 TAATATTACAGGGAAGGTTAGATATTTATAAAGGAGCTATATTAAATATAAAAAAATTTAATTCG
*
36106932 TAAACTCCGATAATGCCTCATACCCTATTTCGGCAATGAATACGGGTAGGGGTATTACA
194 TAAACTCCGATAATGCCTCATACCCTATTCCGGCAATGAATACGGGTAGGGGTATTACA
36106991 ATTATACAAA
Statistics
Matches: 239, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
251 2 0.01
252 87 0.36
253 150 0.63
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (252 bp):
GTAAAGTTAGCCACTAGTATGGTTAACAAACCTGGTTATAGATAAGTGATGACGTTATCTTATAT
AAATGCATGAATCTATCATGAAAATATGTTAATTGATTTGGTTGATGTGGATTGGTCTCGATTTA
ATATTACAGGGAAGGTTAGATATTTATAAAGGAGCTATATTAAATATAAAAAAATTTAATTCGTA
AACTCCGATAATGCCTCATACCCTATTCCGGCAATGAATACGGGTAGGGGTATTACA
Found at i:36110194 original size:13 final size:13
Alignment explanation
Indices: 36110170--36110207 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
36110160 AGTTAATACT
36110170 ATTTAT-ATTTTA
1 ATTTATAATTTTA
36110182 A-TTATAAATTTTA
1 ATTTAT-AATTTTA
36110195 ATTTATAATTTTA
1 ATTTATAATTTTA
36110208 TATATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.17
12 1 0.04
13 14 0.61
14 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTATAATTTTA
Found at i:36120901 original size:14 final size:14
Alignment explanation
Indices: 36120884--36120912 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36120874 AATACAAAAC
36120884 ATAGACTCAAATAG
1 ATAGACTCAAATAG
36120898 ATAGACTCAAATAG
1 ATAGACTCAAATAG
36120912 A
1 A
36120913 ATAATGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
ATAGACTCAAATAG
Found at i:36123485 original size:9 final size:9
Alignment explanation
Indices: 36123458--36123512 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
36123448 ACTAGAATTC
36123458 TATAAAAAT
1 TATAAAAAT
*
36123467 CATAAAAAT
1 TATAAAAAT
36123476 TATAAAAAT
1 TATAAAAAT
**
36123485 TGATATAAGTT
1 T-ATA-AAAAT
*
36123496 TATAAAATT
1 TATAAAAAT
36123505 TATAAAAA
1 TATAAAAA
36123513 AATCATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 28 0.74
10 6 0.16
11 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:36127434 original size:23 final size:24
Alignment explanation
Indices: 36127388--36127434 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36127378 TCCAGGCTAT
36127388 AACAGGAAACTCATAAGAGTTTAA
1 AACAGGAAACTCATAAGAGTTTAA
* *
36127412 AACAGGAAGCTCAT-TGAGTTTAA
1 AACAGGAAACTCATAAGAGTTTAA
36127435 CAGGTAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (24 bp):
AACAGGAAACTCATAAGAGTTTAA
Found at i:36127518 original size:23 final size:24
Alignment explanation
Indices: 36127473--36127518 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
36127463 GAGCTTCGGA
*
36127473 TAGCCATATAACAGGAAGTTCAAGT
1 TAGCCATAT-ACAGGAAGCTCAAGT
36127498 TAGCCATAT-CAGGAAGCTCAA
1 TAGCCATATACAGGAAGCTCAA
36127519 AAAGAGCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (24 bp):
TAGCCATATACAGGAAGCTCAAGT
Found at i:36127536 original size:25 final size:24
Alignment explanation
Indices: 36127499--36127550 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
36127489 AGTTCAAGTT
36127499 AGCCATATCAGGAAGCTCAAAAAG
1 AGCCATATCAGGAAGCTCAAAAAG
* *
36127523 AGCCTATATCAGGACGCTCATAAAG
1 AGCC-ATATCAGGAAGCTCAAAAAG
36127548 AGC
1 AGC
36127551 TGTGTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.15
Consensus pattern (24 bp):
AGCCATATCAGGAAGCTCAAAAAG
Found at i:36129191 original size:44 final size:43
Alignment explanation
Indices: 36129143--36129248 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 43
36129133 AGTATGGTTA
* *
36129143 AATCACATACAATGGTAAACCA-GAAGTTTACATTAGTATAATTG
1 AATCACATA-AATAGTAAACCATG-AGTTTACATTAGAATAATTG
* *
36129187 AATCACGTGAAATAGTAAACCATGAGTTTATATTAGAATAATTG
1 AATCACAT-AAATAGTAAACCATGAGTTTACATTAGAATAATTG
*
36129231 AATCACATAAAAAGTAAA
1 AATCACATAAATAGTAAA
36129249 TCAAAAGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 9 0.17
44 43 0.80
45 2 0.04
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (43 bp):
AATCACATAAATAGTAAACCATGAGTTTACATTAGAATAATTG
Found at i:36132676 original size:31 final size:32
Alignment explanation
Indices: 36132640--36132705 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
36132630 TTCTATGCAT
*
36132640 TTCTCATCTTCACCACTTTC-CTTCTTTTTTC
1 TTCTCATCTTCACCACTTTCACTTCTATTTTC
* *
36132671 TTCTCATTTTCTCCACTTTCATCTTCTATTTTC
1 TTCTCATCTTCACCACTTTCA-CTTCTATTTTC
36132704 TT
1 TT
36132706 GCTTCTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 18 0.60
33 12 0.40
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.58
Consensus pattern (32 bp):
TTCTCATCTTCACCACTTTCACTTCTATTTTC
Found at i:36133105 original size:3 final size:3
Alignment explanation
Indices: 36133097--36133124 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36133087 ACCTACTTCT
36133097 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36133125 ACTCCTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36136285 original size:18 final size:17
Alignment explanation
Indices: 36136255--36136297 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
36136245 AATTAATAGT
36136255 TAATATAATAATATATTA
1 TAAT-TAATAATATATTA
*
36136273 TAATTAATAAATATCTTA
1 TAATTAAT-AATATATTA
*
36136291 TACTTAA
1 TAATTAA
36136298 AGTATAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTAATAATATATTA
Found at i:36136827 original size:24 final size:23
Alignment explanation
Indices: 36136800--36136860 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
36136790 TCTTTTATTC
36136800 TTTTTATTATTTATTTCATAACAAT
1 TTTTTATTATTTATTT--TAACAAT
* *
36136825 TTTAATAATT-TTTATTTTTACAAT
1 TTT--TTATTATTTATTTTAACAAT
36136849 TTTTTATTATTT
1 TTTTTATTATTT
36136861 TGTAAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 9 0.30
25 3 0.10
26 7 0.23
27 4 0.13
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTATTATTTATTTTAACAAT
Found at i:36136947 original size:19 final size:18
Alignment explanation
Indices: 36136925--36136975 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
36136915 TCTTATAATT
36136925 TTTTTATAATTTATTAGAA
1 TTTTTATAATTT-TTAGAA
*
36136944 TTTTTAT-ATTTTTATAA
1 TTTTTATAATTTTTAGAA
* *
36136961 TATTTATAATATTTA
1 TTTTTATAATTTTTA
36136976 TATTATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.39
18 10 0.36
19 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTATAATTTTTAGAA
Found at i:36136966 original size:9 final size:9
Alignment explanation
Indices: 36136927--36137028 Score: 61
Period size: 9 Copynumber: 11.3 Consensus size: 9
36136917 TTATAATTTT
*
36136927 TTTATAATT
1 TTTATAATA
* *
36136936 TATTAGAATT
1 T-TTATAATA
*
36136946 TTTAT-ATT
1 TTTATAATA
36136954 TTTATAATA
1 TTTATAATA
36136963 TTTATAATA
1 TTTATAATA
*
36136972 TTTATATTA
1 TTTATAATA
36136981 TTATATAAT-
1 TT-TATAATA
*
36136990 TTTAATAA-G
1 TTT-ATAATA
36136999 TTTAT-ATCAA
1 TTTATAAT--A
36137009 TTT-TAATA
1 TTTATAATA
*
36137017 TTTTTAATA
1 TTTATAATA
36137026 TTT
1 TTT
36137029 GTTGACTTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
7 1 0.01
8 15 0.19
9 43 0.56
10 18 0.23
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTATAATA
Found at i:36136968 original size:17 final size:18
Alignment explanation
Indices: 36136927--36136997 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
36136917 TTATAATTTT
* *
36136927 TTTATAATTTATTAGAATT
1 TTTATAATTT-TTATAATA
36136946 TTTAT-ATTTTTATAATA
1 TTTATAATTTTTATAATA
* *
36136963 TTTATAATATTTATATTA
1 TTTATAATTTTTATAATA
*
36136981 TTATATAATTTTAATAA
1 TT-TATAATTTTTATAA
36136998 GTTTATATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 11 0.26
18 16 0.37
19 16 0.37
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTATAATA
Found at i:36137022 original size:20 final size:19
Alignment explanation
Indices: 36136965--36137022 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
36136955 TTATAATATT
*
36136965 TATAATATTT-ATATTATTA
1 TATAAT-TTTAATATTTTTA
**
36136984 TATAATTTTAATAAGTTTA
1 TATAATTTTAATATTTTTA
36137003 TATCAATTTTAATATTTTTA
1 TAT-AATTTTAATATTTTTA
36137023 ATATTTGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.09
19 15 0.47
20 14 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TATAATTTTAATATTTTTA
Found at i:36137347 original size:9 final size:10
Alignment explanation
Indices: 36137321--36137346 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36137311 TTATTTTTGT
36137321 AATTTTTATC
1 AATTTTTATC
36137331 AATTTTTATC
1 AATTTTTATC
36137341 AATTTT
1 AATTTT
36137347 AAGAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTATC
Found at i:36137433 original size:265 final size:260
Alignment explanation
Indices: 36136947--36138077 Score: 1347
Period size: 265 Copynumber: 4.4 Consensus size: 260
36136937 ATTAGAATTT
* * * *
36136947 TTATATTTTTAT-AATATTTATAATATT-TATATTATTATATAATTTTAATAAGTTTATATCAAT
1 TTATATATTTATAAATATTTATATTATTATATATT-TTTTATAGTTTTAATAAGTTTATATCAAT
* * * *
36137010 TTTAATATTTTTAATATTTGTTGACTTTA-TTTAT-TATT-TATTATTTTATTTTTTGTGATTTT
65 TTTAATATTTTTAATATTTGTTGATTTTATTTTTTATATTGTATTATTTTAATTTTTGTAATTTT
* * * *
36137072 TATCAATTTTAAGGGAAAAATATTAGATTGTGCCTGAAACTCCCATGTGTCACCATCTGCTTGAT
130 TATCAATTTTAAGGGAAAAATATTAGATCGTGCCTGAAACTACCATGTGTCACCATATGATTGAT
* * * *
36137137 CCATCACTTTATTTTAACGGTCAATGTGGTCAATGATAGAAACCGTTAACGGAAGGGCTTAATTG
195 CCATCAATTTATTTTAACGGTCAACGTGGTCAATGACAGAAACCGTTAACGAAAGGGCTTAATTG
36137202 A
260 A
*
36137203 TTATATATTTATAAATATTTATATTATTATATATTTTTTATAGTTTTCATAAGTTTATATCAATT
1 TTATATATTTATAAATATTTATATTATTATATATTTTTTATAGTTTTAATAAGTTTATATCAATT
* * *
36137268 TTAATATTTTTAATATTTGCTGATTTTATTTTTTATAATTGTTTTATTTTTGTAATTTTTATCAA
66 TTAATATTTTTAATATTTGTTGATTTTATTTTTTAT-ATTGTATTA--TTT-TAATTTTTGT-AA
* ** *
36137333 TTTTTATCAATTTTAAGAGAAAAATATTAGATCGTGTTTGAAACTACCATGTATCACCATATGAT
126 TTTTTATCAATTTTAAGGGAAAAATATTAGATCGTGCCTGAAACTACCATGTGTCACCATATGAT
* * ** *
36137398 TGATCCATCAGTCTATTTTAACCTTCAACGTGGTCAATGACAGAAACCGTTAACGAAATGGCTTA
191 TGATCCATCAATTTATTTTAACGGTCAACGTGGTCAATGACAGAAACCGTTAACGAAAGGGCTTA
36137463 ATTGA
256 ATTGA
* * * *
36137468 TTATATATTGATAAATATTTA-ATTATTATATAATCTATTATAGTTTTAATAAGTTTATATTAAT
1 TTATATATTTATAAATATTTATATTATTATAT-ATTTTTTATAGTTTTAATAAGTTTATATCAAT
* * * * *
36137532 TTTAATATTTTTAATATTTTTTGATTTTATTTTTTATTTTATAAAATT-TTTTACTTTTCTTTTA
65 TTTAATATTTTTAATATTTGTTGATTTTATTTTTTATATTGT---ATTATTTTA-ATTT-TTGTA
* * * * * *
36137596 ATTTTTATCAGTTTTAAGGGAAAAATATTAGATTGTGCCTGAAACT-GC-TATGT--CCATCTTA
125 ATTTTTATCAATTTTAAGGGAAAAATATTAGATCGTGCCTGAAACTACCATGTGTCACCATATGA
** * * * *** * * *
36137657 TTGATCTGTCAATTTATTTTAACGGTCAACATGAT-AGATGACTGAAATTATTAATGGAAGAGCT
190 TTGATCCATCAATTTATTTTAACGGTCAACGTGGTCA-ATGACAGAAACCGTTAACGAAAGGGCT
36137721 TAATTGA
254 TAATTGA
* *
36137728 TTATATATTTATAAATATTTCTATTATTATATATATTTTTTATAGTTTTAATAATTTTATATCAA
1 TTATATATTTATAAATATTTATATTA-T-TATATATTTTTTATAGTTTTAATAAGTTTATATCAA
*
36137793 TTTTAATATTTTTAATATTTGCTGATTTTA-----T-T-TTG---TATTTT-A-TTTTGTAATTT
64 TTTTAATATTTTTAATATTTGTTGATTTTATTTTTTATATTGTATTATTTTAATTTTTGTAATTT
* * * *
36137846 TTATCAGTTTTAAGGGAAAAATATTAGATCGTGCTTGAAACTTCCATGTGTCACCATATAATTGA
129 TTATCAATTTTAAGGGAAAAATATTAGATCGTGCCTGAAACTACCATGTGTCACCATATGATTGA
** **
36137911 TCTGTCAATTTATTTTATTGGTCAACGTGGTCAATGACAGAAACCGTTAACGAAAGGGCTTAATT
194 TCCATCAATTTATTTTAACGGTCAACGTGGTCAATGACAGAAACCGTTAACGAAAGGGCTTAATT
36137976 GA
259 GA
36137978 TTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGTTTTAATAAGTTTATATCAAT
1 TTATATATTTATAAATATTTATATTATTATAT-ATTTTTTATAGTTTTAATAAGTTTATATCAAT
*
36138043 TTTAATATTTTTAATATTTATTGATTTTATTTTTT
65 TTTAATATTTTTAATATTTGTTGATTTTATTTTTT
36138078 GTAATTTTAA
Statistics
Matches: 745, Mismatches: 98, Indels: 66
0.82 0.11 0.07
Matches are distributed among these distances:
246 48 0.06
247 3 0.00
248 9 0.01
249 60 0.08
250 93 0.12
251 1 0.00
254 1 0.00
255 2 0.00
256 12 0.02
257 68 0.09
258 10 0.01
259 2 0.00
260 81 0.11
261 8 0.01
262 59 0.08
263 11 0.01
264 69 0.09
265 206 0.28
267 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.49
Consensus pattern (260 bp):
TTATATATTTATAAATATTTATATTATTATATATTTTTTATAGTTTTAATAAGTTTATATCAATT
TTAATATTTTTAATATTTGTTGATTTTATTTTTTATATTGTATTATTTTAATTTTTGTAATTTTT
ATCAATTTTAAGGGAAAAATATTAGATCGTGCCTGAAACTACCATGTGTCACCATATGATTGATC
CATCAATTTATTTTAACGGTCAACGTGGTCAATGACAGAAACCGTTAACGAAAGGGCTTAATTGA
Found at i:36137544 original size:20 final size:21
Alignment explanation
Indices: 36137511--36137549 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
36137501 TCTATTATAG
36137511 TTTTAATAAGTTT-ATATTAA
1 TTTTAATAAGTTTAATATTAA
**
36137531 TTTTAATATTTTTAATATT
1 TTTTAATAAGTTTAATATT
36137550 TTTTGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAATAAGTTTAATATTAA
Found at i:36137594 original size:29 final size:29
Alignment explanation
Indices: 36137537--36137602 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
36137527 TTAATTTTAA
* *
36137537 TATTTTTAATATTTTTTGATTTTATTTTT
1 TATTTTTAAAATTTTTTGATTTTACTTTT
36137566 TATTTTATAAAATTTTTT-ACTTTT-CTTTT
1 TATTTT-TAAAATTTTTTGA-TTTTACTTTT
*
36137595 AATTTTTA
1 TATTTTTA
36137603 TCAGTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.06
29 16 0.50
30 14 0.44
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (29 bp):
TATTTTTAAAATTTTTTGATTTTACTTTT
Found at i:36137771 original size:9 final size:9
Alignment explanation
Indices: 36137760--36137812 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
36137750 ATTATTATAT
*
36137760 ATATTTTTT
1 ATATTTTTA
*
36137769 ATAGTTTTA
1 ATATTTTTA
*
36137778 ATAATTTTA
1 ATATTTTTA
*
36137787 TATCAATTTTA
1 -AT-ATTTTTA
36137798 ATATTTTTA
1 ATATTTTTA
36137807 ATATTT
1 ATATTT
36137813 GCTGATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 27 0.71
10 4 0.11
11 7 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
ATATTTTTA
Found at i:36137803 original size:19 final size:18
Alignment explanation
Indices: 36137760--36137804 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
36137750 ATTATTATAT
* *
36137760 ATATTTTTTATAGTTTTA
1 ATATTTTATATAATTTTA
36137778 ATAATTTTATATCAATTTTA
1 AT-ATTTTATAT-AATTTTA
36137798 ATATTTT
1 ATATTTT
36137805 TAATATTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTATATAATTTTA
Found at i:36137812 original size:28 final size:27
Alignment explanation
Indices: 36137728--36137812 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 27
36137718 GCTTAATTGA
* *
36137728 TTATAT-ATTTATAAATATTTCTATTATT
1 TTATATAATTT-T-AATATTTTTAATATT
* * * *
36137756 ATATATATTTTTTATAGTTTTAATAATT
1 TTATATAATTTTAATATTTTTAAT-ATT
36137784 TTATATCAATTTTAATATTTTTAATATT
1 TTATAT-AATTTTAATATTTTTAATATT
36137812 T
1 T
36137813 GCTGATTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
27 8 0.18
28 18 0.41
29 18 0.41
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATATAATTTTAATATTTTTAATATT
Found at i:36137834 original size:12 final size:13
Alignment explanation
Indices: 36137817--36137846 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
36137807 ATATTTGCTG
36137817 ATTTTATTTTGT-
1 ATTTTATTTTGTA
36137829 ATTTTATTTTGTA
1 ATTTTATTTTGTA
36137842 ATTTT
1 ATTTT
36137847 TATCAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (13 bp):
ATTTTATTTTGTA
Found at i:36138179 original size:239 final size:240
Alignment explanation
Indices: 36137580--36138560 Score: 1171
Period size: 245 Copynumber: 4.0 Consensus size: 240
36137570 TTATAAAATT
* *
36137580 TTTTACTTTTCTTTTAATTTTTATCAGTTTTAAGGGAAAAATATTAGATTGTGCCTGAAACTG-C
1 TTTTA-TTTT-TTGTAATTTTTATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACTGCC
* * * * *
36137644 -TATGT--CCATCTTATTGATCTGTCAATTTATTTTAACGGTCAACATGAT-AGATGACTGAAAT
64 ATGTGTCACCATCTGATTGATCTGTCAATTTATTTTAATGGTCAACATGGTCA-ATGACAGAAAT
* * * *
36137705 TATTAATGGAAGAGCTTAATTGATTATATATTTATAAATATTTCTATTATTATATATATTTTTTA
128 TATTAACGAAAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATA-ATTTTTTA
* *
36137770 TAGTTTTAATAATTTTATATCAATTTTAATATTTTTAATATTTGCTGATTTTA
192 TAGTTTTAATAAGTTTATATCAATTTTAATATTTTTAATA-TT--T-ATTTGA
* * *
36137823 TTTTGTATTTTATTTTGTAATTTTTATCAGTTTTAAGGGAAAAATATTAGATCGTGCTTGAAACT
1 -TTT-TA--TT-TTTTGTAATTTTTATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACT
* * * * *
36137888 TCCATGTGTCACCATATAATTGATCTGTCAATTTATTTTATTGGTCAACGTGGTCAATGACAGAA
61 GCCATGTGTCACCATCTGATTGATCTGTCAATTTATTTTAATGGTCAACATGGTCAATGACAGAA
***
36137953 ACCGTTAACGAAAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTT
126 ATTATTAACGAAAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTT
36138018 ATAGTTTTAATAAGTTTATATCAATTTTAATATTTTTAATATTTA-TTGA
191 ATAGTTTTAATAAGTTTATATCAATTTTAATATTTTTAATATTTATTTGA
* *
36138067 TTTTATTTTTTGTAATTTTAATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAATTGCCAT
1 TTTTATTTTTTGTAATTTTTATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACTGCCAT
* * * * * *
36138132 GTGTCACTATCTGATTGATCTGTCAGTTTATTTTAATGGTTAACGTGGTCGATGACTGAAATTAT
66 GTGTCACCATCTGATTGATCTGTCAATTTATTTTAATGGTCAACATGGTCAATGACAGAAATTAT
* * * * *
36138197 TAACGGAA-GGCTTAATTAATTATATATTTATAAATTTTTATATT-TTTTAT-ATTTTTAATAAG
131 TAACGAAAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTAT-AG
* * * * *
36138259 -TTTATATAATTTTA-AT-ATTTTTAATATTTGCTGATTTTATTTTTATTTTA
195 TTTTA-ATAAGTTTATATCAATTTTAATA--T--T--TTTAATATTTATTTGA
* *
36138309 TTTTATATATATTTGTAATTTTTATTAGTTTTAAGGGTAAAATA-GTAGATTGTGCCTGAAACTG
1 TTTTAT-T-T-TTTGTAATTTTTATCAGTTTTAAGGGAAAAATATG-AGATTGTGCCTGAAACTG
* * * * *
36138373 CCATGTGTTACCATCTGATTGATCTGTCAGTTTATTTTAATAGTCATCATGGTCAATGACAAAAA
62 CCATGTGTCACCATCTGATTGATCTGTCAATTTATTTTAATGGTCAACATGGTCAATGACAGAAA
* *
36138438 TTGTTAACGAAATGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTA
127 TTATTAACGAAAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTA
*
36138503 TAGTTTTAATAAGTTTATATCAATTTTAATATTTTTAATATTT-GTTGA
192 TAGTTTTAATAAGTTTATATCAATTTTAATATTTTTAATATTTATTTGA
36138551 TTTTATTTTT
1 TTTTATTTTT
36138561 ATTTTATTTT
Statistics
Matches: 636, Mismatches: 74, Indels: 59
0.83 0.10 0.08
Matches are distributed among these distances:
235 9 0.01
236 14 0.02
237 16 0.03
238 34 0.05
239 116 0.18
240 3 0.00
241 10 0.02
242 20 0.03
243 12 0.02
244 8 0.01
245 117 0.18
246 85 0.13
247 19 0.03
248 20 0.03
249 56 0.09
250 96 0.15
251 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (240 bp):
TTTTATTTTTTGTAATTTTTATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACTGCCAT
GTGTCACCATCTGATTGATCTGTCAATTTATTTTAATGGTCAACATGGTCAATGACAGAAATTAT
TAACGAAAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGT
TTTAATAAGTTTATATCAATTTTAATATTTTTAATATTTATTTGA
Found at i:36138245 original size:9 final size:9
Alignment explanation
Indices: 36138220--36138287 Score: 68
Period size: 9 Copynumber: 7.7 Consensus size: 9
36138210 AATTAATTAT
*
36138220 ATATTTATA
1 ATATTTTTA
36138229 A-ATTTTT-
1 ATATTTTTA
*
36138236 ATATTTTTT
1 ATATTTTTA
36138245 ATATTTTTA
1 ATATTTTTA
**
36138254 ATAAGTTTA
1 ATATTTTTA
*
36138263 TATAATTTTA
1 -ATATTTTTA
36138273 ATATTTTTA
1 ATATTTTTA
36138282 ATATTT
1 ATATTT
36138288 GCTGATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
7 1 0.02
8 11 0.22
9 30 0.60
10 8 0.16
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (9 bp):
ATATTTTTA
Found at i:36138266 original size:19 final size:19
Alignment explanation
Indices: 36138223--36138275 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
36138213 TAATTATATA
* *
36138223 TTTATAAATTTTT-AT-AT
1 TTTATATATTTTTAATAAG
*
36138240 TTTTTATATTTTTAATAAG
1 TTTATATATTTTTAATAAG
*
36138259 TTTATATAATTTTAATA
1 TTTATATATTTTTAATA
36138276 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 11 0.38
18 2 0.07
19 16 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATATATTTTTAATAAG
Found at i:36138271 original size:28 final size:28
Alignment explanation
Indices: 36138216--36138284 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
36138206 GCTTAATTAA
* * *
36138216 TTATATATTT-ATAAATTTTTATATTTT
1 TTATATTTTTAATAAATTTATATAATTT
*
36138243 TTATATTTTTAATAAGTTTATATAATTT
1 TTATATTTTTAATAAATTTATATAATTT
*
36138271 TAATATTTTTAATA
1 TTATATTTTTAATA
36138285 TTTGCTGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 9 0.25
28 27 0.75
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTATATTTTTAATAAATTTATATAATTT
Found at i:36138401 original size:484 final size:480
Alignment explanation
Indices: 36137580--36138560 Score: 1395
Period size: 484 Copynumber: 2.0 Consensus size: 480
36137570 TTATAAAATT
* * *
36137580 TTTTACTTTTCTTTTAATTTTTATCAGTTTTAAGGGAAAAATATTAGATTGTGCCTGAAACTGCT
1 TTTTA-TTTT-TTGTAATTTTAATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACTGCT
*
36137645 ATGTCCATCTTATTGATCTGTCAATTTATTTTAACGGTCAACATGATAGATGACTGAAATTATTA
64 ATGTCCATCTGATTGATCTGTCAATTTATTTTAACGGTCAACATGATAGATGACTGAAATTATTA
* *
36137710 ATGGAAGAGCTTAATTGATTATATATTTATAAATATTTCTATTATTATATATATTTTTTATAGTT
129 ACGGAAGAGCTTAATTAATTATATATTTAT-AATA----TATTATTATATATATTTTTTATAGTT
*
36137775 TTAATAATTTTATATCAATTTTAATATTTTTAATATTTGCTGATTTTATTTTGTATTTTATTTTG
189 TTAATAAGTTTATATCAATTTTAATATTTTTAATATTTGCTGATTTTATTTTGTATTTTATTTTG
* * *
36137840 TAATTTTTATCAGTTTTAAGGGAAAAATATTAGATCGTGCTTGAAACTTCCATGTGTCACCATAT
254 TAATTTTTATCAGTTTTAAGGGAAAAATAGTAGATCGTGCCTGAAACTGCCATGTGTCACCATAT
* * * *
36137905 AATTGATCTGTCAATTTATTTTATTGGTCAACGTGGTCAATGACAGAAACCGTTAACGAAAGGGC
319 AATTGATCTGTCAATTTATTTTAATAGTCAACATGGTCAATGACAAAAACCGTTAACGAAAGGGC
36137970 TTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGTTTTAATAAGTTT
384 TTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGTTTTAATAAGTTT
36138035 ATATCAATTTTAATATTTTTAATATTTATTGA
449 ATATCAATTTTAATATTTTTAATATTTATTGA
*
36138067 TTTTATTTTTTGTAATTTTAATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAATTGCCAT
1 TTTTATTTTTTGTAATTTTAATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACTG-C-T
* * * * * * *
36138132 GTGTCACTATCTGATTGATCTGTCAGTTTATTTTAATGGTTAACGTGGTCGATGACTGAAATTAT
64 ATGTC-C-ATCTGATTGATCTGTCAATTTATTTTAACGGTCAACATGATAGATGACTGAAATTAT
*
36138197 TAACGGAAG-GCTTAATTAATTATATATTTAT-A-A-A-T-TT-T-TATATTTTTTATATTTTTA
127 TAACGGAAGAGCTTAATTAATTATATATTTATAATATATTATTATATATATTTTTTATAGTTTTA
*
36138254 ATAAGTTTATAT-AATTTTAATATTTTTAATATTTGCTGATTTTATTTTTATTTTATTTTATATA
192 ATAAGTTTATATCAATTTTAATATTTTTAATATTTGCTGATTTTA---TT-TTGTA--TT-T-TA
* * * *
36138318 TATTTGTAATTTTTATTAGTTTTAAGGGTAAAATAGTAGATTGTGCCTGAAACTGCCATGTGTTA
249 T-TTTGTAATTTTTATCAGTTTTAAGGGAAAAATAGTAGATCGTGCCTGAAACTGCCATGTGTCA
* * * * **
36138383 CCATCTGATTGATCTGTCAGTTTATTTTAATAGTCATCATGGTCAATGACAAAAATTGTTAACGA
313 CCATATAATTGATCTGTCAATTTATTTTAATAGTCAACATGGTCAATGACAAAAACCGTTAACGA
*
36138448 AATGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGTTTTAAT
378 AAGGGCTTAATTGATTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGTTTTAAT
*
36138513 AAGTTTATATCAATTTTAATATTTTTAATATTTGTTGA
443 AAGTTTATATCAATTTTAATATTTTTAATATTTATTGA
36138551 TTTTATTTTT
1 TTTTATTTTT
36138561 ATTTTATTTT
Statistics
Matches: 445, Mismatches: 36, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
475 32 0.07
476 29 0.07
477 1 0.00
478 4 0.01
479 5 0.01
480 1 0.00
481 2 0.00
482 1 0.00
483 3 0.01
484 222 0.50
485 49 0.11
486 6 0.01
487 10 0.02
488 22 0.05
489 58 0.13
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (480 bp):
TTTTATTTTTTGTAATTTTAATCAGTTTTAAGGGAAAAATATGAGATTGTGCCTGAAACTGCTAT
GTCCATCTGATTGATCTGTCAATTTATTTTAACGGTCAACATGATAGATGACTGAAATTATTAAC
GGAAGAGCTTAATTAATTATATATTTATAATATATTATTATATATATTTTTTATAGTTTTAATAA
GTTTATATCAATTTTAATATTTTTAATATTTGCTGATTTTATTTTGTATTTTATTTTGTAATTTT
TATCAGTTTTAAGGGAAAAATAGTAGATCGTGCCTGAAACTGCCATGTGTCACCATATAATTGAT
CTGTCAATTTATTTTAATAGTCAACATGGTCAATGACAAAAACCGTTAACGAAAGGGCTTAATTG
ATTATATATTTATAAATATTTATATTATTATATAATTTTTTATAGTTTTAATAAGTTTATATCAA
TTTTAATATTTTTAATATTTATTGA
Found at i:36138569 original size:16 final size:16
Alignment explanation
Indices: 36138550--36138609 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
36138540 ATATTTGTTG
36138550 ATTTTATTTTTATTTT
1 ATTTTATTTTTATTTT
* *
36138566 ATTTTATTATT-TTAT
1 ATTTTATTTTTATTTT
*
36138581 AATTT-TTTTTATTTT
1 ATTTTATTTTTATTTT
*
36138596 -TTGTAATTTTTATT
1 ATT-TTATTTTTATT
36138610 AATTTTAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
14 5 0.15
15 11 0.32
16 18 0.53
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:36138575 original size:13 final size:12
Alignment explanation
Indices: 36138550--36138597 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
36138540 ATATTTGTTG
36138550 ATTTTA-TTTTT
1 ATTTTATTTTTT
36138561 ATTTTATTTTATT
1 ATTTTATTTT-TT
*
36138574 ATTTTATAATTTT
1 ATTTTAT-TTTTT
36138587 -TTTTATTTTTT
1 ATTTTATTTTTT
36138598 GTAATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 10 0.31
12 9 0.28
13 11 0.34
14 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:36138602 original size:19 final size:20
Alignment explanation
Indices: 36138553--36138606 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
36138543 TTTGTTGATT
36138553 TTATTTT-T-ATTTTATTTTA
1 TTATTTTATAATTTT-TTTTA
36138572 TTATTTTATAATTTTTTTTA
1 TTATTTTATAATTTTTTTTA
*
36138592 TT-TTTTGTAATTTTT
1 TTATTTTATAATTTTT
36138607 ATTAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 19 0.59
20 8 0.25
21 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (20 bp):
TTATTTTATAATTTTTTTTA
Found at i:36138604 original size:10 final size:9
Alignment explanation
Indices: 36138526--36138615 Score: 54
Period size: 10 Copynumber: 9.1 Consensus size: 9
36138516 TTTATATCAA
*
36138526 TTTTAATAT
1 TTTTAATTT
36138535 TTTTAATATT
1 TTTTAAT-TT
* *
36138545 TGTTGATTTT
1 T-TTTAATTT
*
36138555 ATTTTTATTT
1 -TTTTAATTT
*
36138565 TATTTTATTAT
1 T-TTTAATT-T
36138576 TTTATAATTT
1 TTT-TAATTT
*
36138586 TTTTTATTT
1 TTTTAATTT
36138595 TTTGTAATTT
1 TTT-TAATTT
36138605 TTATTAATTT
1 TT-TTAATTT
36138615 T
1 T
36138616 AAGGGAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
9 16 0.25
10 36 0.56
11 12 0.19
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTAATTT
Found at i:36138615 original size:19 final size:19
Alignment explanation
Indices: 36138567--36138615 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
36138557 TTTTATTTTA
36138567 TTTTATT-A-TTTTATAAT
1 TTTTATTAATTTTTATAAT
* * *
36138584 TTTTTTTATTTTTTGTAAT
1 TTTTATTAATTTTTATAAT
36138603 TTTTATTAATTTT
1 TTTTATTAATTTT
36138616 AAGGGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 6 0.24
19 19 0.76
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATTAATTTTTATAAT
Found at i:36139633 original size:11 final size:11
Alignment explanation
Indices: 36139602--36139645 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
36139592 TAATAACAGG
36139602 AAAATAATAGC
1 AAAATAATAGC
*
36139613 AATATAATAGC
1 AAAATAATAGC
* *
36139624 AAAATGATAGT
1 AAAATAATAGC
*
36139635 AAAATAGTAGC
1 AAAATAATAGC
36139646 GAAACAACAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.23
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:36139645 original size:22 final size:22
Alignment explanation
Indices: 36139593--36139645 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
36139583 ATATCTAAAT
* *
36139593 AATAACAGGAAAATAATAGCAA
1 AATAATAGCAAAATAATAGCAA
* * *
36139615 TATAATAGCAAAATGATAGTAA
1 AATAATAGCAAAATAATAGCAA
*
36139637 AATAGTAGC
1 AATAATAGC
36139646 GAAACAACAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.21
Consensus pattern (22 bp):
AATAATAGCAAAATAATAGCAA
Found at i:36140262 original size:28 final size:30
Alignment explanation
Indices: 36140222--36140277 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
36140212 TTTATAATTA
* **
36140222 ATTTTAATTTTTATGATA-TAAAAATAAAT
1 ATTTTAATATTTAAAATAGTAAAAATAAAT
36140251 ATTTT-ATATTTAAAATAGTAAAAATAA
1 ATTTTAATATTTAAAATAGTAAAAATAA
36140278 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (30 bp):
ATTTTAATATTTAAAATAGTAAAAATAAAT
Found at i:36142648 original size:20 final size:21
Alignment explanation
Indices: 36142602--36142656 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 21
36142592 CGAAACTAAA
*
36142602 TTAAATTTTTTATTATATGCT
1 TTAAATTTTATATTATATGCT
* **
36142623 TAAAATTTTATA-TATATTTT
1 TTAAATTTTATATTATATGCT
36142643 TTAAA--TTATATTAT
1 TTAAATTTTATATTAT
36142657 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 5 0.18
19 3 0.11
20 10 0.36
21 10 0.36
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTAAATTTTATATTATATGCT
Found at i:36148782 original size:25 final size:25
Alignment explanation
Indices: 36148760--36148843 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
36148750 GTATGCTCTC
*
36148760 ACGAGCTGTGAATCT-GGAAGCTCAT
1 ACGAGCTGTAAAT-TGGGAAGCTCAT
*
36148785 ACGAGCTGTAAATTGGGAAGTTCAT
1 ACGAGCTGTAAATTGGGAAGCTCAT
*
36148810 ACGAGCTGTAAATTGGGAAGCTTAT
1 ACGAGCTGTAAATTGGGAAGCTCAT
36148835 ACGAGCTGT
1 ACGAGCTGT
36148844 GGTGTGCCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (25 bp):
ACGAGCTGTAAATTGGGAAGCTCAT
Found at i:36160891 original size:18 final size:18
Alignment explanation
Indices: 36160865--36160899 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36160855 TAATTAGAGT
*
36160865 TTAATAAGGTGAATTAGC
1 TTAAAAAGGTGAATTAGC
*
36160883 TTAAAAAGGTTAATTAG
1 TTAAAAAGGTGAATTAG
36160900 GTATAAGGAT
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:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (18 bp):
TTAAAAAGGTGAATTAGC
Found at i:36161069 original size:16 final size:17
Alignment explanation
Indices: 36161048--36161087 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
36161038 ATATATATTA
36161048 TATATTATTAATT-GAT
1 TATATTATTAATTAGAT
*
36161064 TATATTA-TAATTATAT
1 TATATTATTAATTAGAT
36161080 TATATTAT
1 TATATTAT
36161088 GAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTAATTAGAT
Found at i:36161865 original size:17 final size:15
Alignment explanation
Indices: 36161843--36161876 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
36161833 GAGAGAGAAA
36161843 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
36161860 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
36161875 GA
1 GA
36161877 GAAATAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:36161880 original size:17 final size:18
Alignment explanation
Indices: 36161842--36161880 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
36161832 GGAGAGAGAA
36161842 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
36161860 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
36161876 AGAAA
1 AGAAA
36161881 TAGGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:36162665 original size:51 final size:50
Alignment explanation
Indices: 36162597--36162730 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 50
36162587 CAAACACTTA
* *
36162597 TGTGCCAACTACTGTTACTATTACCGTTACTGTTACCGATTC-GACACTTTG
1 TGTGTCAAATACTGTTACT-TTACCGTTACTGTTACCGATTCAG-CACTTTG
*
36162648 TGTGTCAAATACTG-----TTACCGTTACTGTTACAGATTCAGCACTTTG
1 TGTGTCAAATACTGTTACTTTACCGTTACTGTTACCGATTCAGCACTTTG
** * *
36162693 TGTGTTGAATACTGTTACTGTTACTGTTACTGCTACCG
1 TGTGTCAAATACTGTTACT-TTACCGTTACTGTTACCG
36162731 TTACTAATTC
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
45 40 0.59
46 1 0.01
51 27 0.40
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (50 bp):
TGTGTCAAATACTGTTACTTTACCGTTACTGTTACCGATTCAGCACTTTG
Found at i:36162667 original size:45 final size:45
Alignment explanation
Indices: 36162612--36162722 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
36162602 CAACTACTGT
* *
36162612 TACTATTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCAAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCAAA
**
36162657 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
*
36162702 TACTGTTACTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
36162723 TGCTACCGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
Found at i:36162713 original size:6 final size:6
Alignment explanation
Indices: 36162702--36162735 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
36162692 GTGTGTTGAA
* *
36162702 TACTGT TACTGT TACTGT TACTGC TACCGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
36162736 AATTCCTGTT
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:0.24, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:36162875 original size:18 final size:18
Alignment explanation
Indices: 36162852--36162999 Score: 188
Period size: 18 Copynumber: 8.2 Consensus size: 18
36162842 TAAAAGTATC
* *
36162852 GAATAACTGATTGTTACT
1 GAATAATTGACTGTTACT
*
36162870 GAATAATTAACTGTTACT
1 GAATAATTGACTGTTACT
*
36162888 GAATAAATGACTGTTACT
1 GAATAATTGACTGTTACT
* * *
36162906 GAATAACTGATTATTACT
1 GAATAATTGACTGTTACT
*
36162924 GAATAATTGACTGTTTCT
1 GAATAATTGACTGTTACT
*
36162942 GAATAAATGACTGTTACT
1 GAATAATTGACTGTTACT
*
36162960 GAATAATCGACTGTTACT
1 GAATAATTGACTGTTACT
* *
36162978 GAACAATTGATTGTTACT
1 GAATAATTGACTGTTACT
36162996 GAAT
1 GAAT
36163000 GATATTGATA
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 110 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (18 bp):
GAATAATTGACTGTTACT
Found at i:36162911 original size:54 final size:54
Alignment explanation
Indices: 36162852--36162999 Score: 226
Period size: 54 Copynumber: 2.7 Consensus size: 54
36162842 TAAAAGTATC
*
36162852 GAATAACTGATTGTTACTGAATAATTAACTGTTACTGAATAAATGACTGTTACT
1 GAATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAAATGACTGTTACT
* *
36162906 GAATAACTGATTATTACTGAATAATTGACTGTTTCTGAATAAATGACTGTTACT
1 GAATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAAATGACTGTTACT
* * *
36162960 GAATAA-TCGACTGTTACTGAACAATTGATTGTTACTGAAT
1 GAATAACT-GATTGTTACTGAATAATTGACTGTTACTGAAT
36163000 GATATTGATA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 84 0.99
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (54 bp):
GAATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAAATGACTGTTACT
Found at i:36164071 original size:42 final size:42
Alignment explanation
Indices: 36163952--36164155 Score: 228
Period size: 42 Copynumber: 4.8 Consensus size: 42
36163942 TACCTTACCA
* * * * * *
36163952 ATGCCATATCCCAAATATGGTCTTACATGTAATGTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
36163994 ATGCCAATAGCCTAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* *
36164037 ATGCCATATCCCAGATATGGTCTTATACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
36164079 ATGCCATATCCCAGATATGGTCTTACACGTAGTTTAATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
36164121 ATTCCATATCCTAGATATGGTCTTATACATAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
36164156 TACATGTAGT
Statistics
Matches: 137, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 105 0.77
43 32 0.23
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:36164165 original size:54 final size:54
Alignment explanation
Indices: 36164098--36164211 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
36164088 CCCAGATATG
* *
36164098 GTCTTACACGTAGTTTAATATTGATTCCATATCCTAGATATGGTCTTA-TACATA
1 GTCTTACACGTAGTCTAATATTGATTCCATATCCCAGATATGGTCTTACT-CATA
* *
36164152 GTCTTACATGTAGTCTCATATTGATTCCATATCCCAGATATGGTCTTACTCATA
1 GTCTTACACGTAGTCTAATATTGATTCCATATCCCAGATATGGTCTTACTCATA
36164206 GTCTTA
1 GTCTTA
36164212 GTAACCCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (54 bp):
GTCTTACACGTAGTCTAATATTGATTCCATATCCCAGATATGGTCTTACTCATA
Found at i:36166336 original size:10 final size:10
Alignment explanation
Indices: 36166317--36166366 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
36166307 ATAAATTCTA
36166317 AAAGATAAAT
1 AAAGATAAAT
36166327 ACAA-ATAAAT
1 A-AAGATAAAT
*
36166337 AAAGATAATT
1 AAAGATAAAT
36166347 AAAGATAAAT
1 AAAGATAAAT
36166357 GAAA-ATAAAT
1 -AAAGATAAAT
36166367 CCTAAAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36167158 original size:96 final size:97
Alignment explanation
Indices: 36166984--36167167 Score: 282
Period size: 96 Copynumber: 1.9 Consensus size: 97
36166974 TTATTATTTA
* * *
36166984 TTTATTTTTCCTTAAGAATATATCGAATCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCTAA
1 TTTATTTTTCCTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTAA
*
36167049 CCCCGTTTACTCAG-CACAACACACTCCTAATT
66 CCCCGGTTACTCAGTC-CAACACACTCCTAATT
* * *
36167081 TTTATTTTT-CTTAAGAACATATCGAACCTTTTTACGCGAAGAGAGATGAGAGCCAAGCACCTCA
1 TTTATTTTTCCTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTAA
36167145 CCCCGGTTACTCAGTCCAACACA
66 CCCCGGTTACTCAGTCCAACACA
36167168 TTCTTAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 69 0.87
97 10 0.13
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTCCTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTAA
CCCCGGTTACTCAGTCCAACACACTCCTAATT
Found at i:36175859 original size:10 final size:10
Alignment explanation
Indices: 36175832--36175869 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
36175822 TTAAATTCTA
*
36175832 AAAGATAAAT
1 AAAGATAATT
36175842 ACAA-ATAATT
1 A-AAGATAATT
36175852 AAAGATAATT
1 AAAGATAATT
36175862 AAAGATAA
1 AAAGATAA
36175870 ATGAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:36180297 original size:26 final size:26
Alignment explanation
Indices: 36180261--36180318 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
36180251 CATGAAATTC
*
36180261 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
36180287 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36180313 TTATCA
1 TTATCA
36180319 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36181208 original size:19 final size:19
Alignment explanation
Indices: 36181184--36181221 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36181174 CTTTCTTATA
36181184 AGCTTTGAGTTTGAGTACT
1 AGCTTTGAGTTTGAGTACT
36181203 AGCTTTGAGTTTGAGTACT
1 AGCTTTGAGTTTGAGTACT
36181222 TACTTCTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (19 bp):
AGCTTTGAGTTTGAGTACT
Found at i:36189221 original size:19 final size:20
Alignment explanation
Indices: 36189199--36189246 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
36189189 CAAAAAGATT
*
36189199 ATAAAAATATTTTTAAAAA-
1 ATAAAAATATTATTAAAAAG
36189218 AT-AAAA-ATTATTAAAAAG
1 ATAAAAATATTATTAAAAAG
36189236 TATAAAAATAT
1 -ATAAAAATAT
36189247 AAAAAGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 10 0.42
18 4 0.17
19 4 0.17
20 4 0.17
21 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAAATATTATTAAAAAG
Found at i:36191435 original size:5 final size:6
Alignment explanation
Indices: 36191420--36191444 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36191410 GAGGAAAATT
36191420 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
36191445 AATGAGATAT
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:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:36194578 original size:150 final size:150
Alignment explanation
Indices: 36194144--36194571 Score: 538
Period size: 150 Copynumber: 2.9 Consensus size: 150
36194134 AATCGTGATT
* * ** * *
36194144 GTTCCAATAATCAAGAACCTATAGGTTGGCCTTTGCTTGGGCATCGTTTACTAGGACCCGAATCT
1 GTTCTAATAATCAAGAACCTTTAGGTTGGCCTTTGCTCAGGCATCATTTACTAGGAGCCGAATCT
* * *
36194209 GTAAATAATCCCCTTGAGTC-TCTTCGAGGGCGTAGAAGCCATAGTTTTGATGGAAATGAAATTA
66 GTAAATAATCCCCTTGAG-CATCGTCGAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAATTA
36194273 GAGAACAAGAACCTGCACAAC
130 GAGAACAAGAACCTGCACAAC
* * * * * *
36194294 GTTTTGATAATCAAGAACCTTTAGGTTGGCCGTTGCTCA-GAAGTCATTTACTGGGAGCCGAATT
1 GTTCTAATAATCAAGAACCTTTAGGTTGGCCTTTGCTCAGGCA-TCATTTACTAGGAGCCGAATC
* * ** *
36194358 TGTAAATAATCCCCTGGAGCATCGTCGAAGGTGTAGAAGCCATAGTTCCCATGGAAGTGAAATTA
65 TGTAAATAATCCCCTTGAGCATCGTCGAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAATTA
*
36194423 GAGAACAAGAACAC-GTACAAC
130 GAGAACAAGAAC-CTGCACAAC
* * * * *
36194444 GTTCTAATAATCAAGAATCTTTAGGTTGGCCTTTCCTCAGGCATCATTTCCTAGAAGTCGAATCT
1 GTTCTAATAATCAAGAACCTTTAGGTTGGCCTTTGCTCAGGCATCATTTACTAGGAGCCGAATCT
* * * *
36194509 ATAAGTGATCCCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAATT
66 GTAAATAATCCCCTTGAGCATCGTCGAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAATT
36194572 CAAGAACCTT
Statistics
Matches: 233, Mismatches: 41, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
149 3 0.01
150 227 0.97
151 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (150 bp):
GTTCTAATAATCAAGAACCTTTAGGTTGGCCTTTGCTCAGGCATCATTTACTAGGAGCCGAATCT
GTAAATAATCCCCTTGAGCATCGTCGAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAATTAG
AGAACAAGAACCTGCACAAC
Found at i:36194660 original size:117 final size:117
Alignment explanation
Indices: 36194454--36194919 Score: 496
Period size: 117 Copynumber: 4.0 Consensus size: 117
36194444 GTTCTAATAA
* * * * * *
36194454 TCAAGAATCTTTAGGTTGGCCTTTCCTCAGGCATCATTTCCTAGAAGTC-GAATCTATAAGTGAT
1 TCAAGAACCTTTAGGCTGGCCTTTCCTCAGGCATCATTTCTTGGGAG-CAGAATCTATAAGTAAT
*
36194518 CCCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAAT
65 CCCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATGGAAATGAAAT
** * * *
36194571 TCAAGAACCTTTAGTTTGGCCTTTCCTCGGGCGTTATTTCTTGGGAGCAGAATCTATAAGTAATC
1 TCAAGAACCTTTAGGCTGGCCTTTCCTCAGGCATCATTTCTTGGGAGCAGAATCTATAAGTAATC
* * * *
36194636 ACCTTGAGCATCGTCAAAGGCGTAGAAGCTATGGTTCCAATGGAAATGAAAT
66 CCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATGGAAATGAAAT
* * * * * *
36194688 TCTAGAATCTTTAGGCCGGCCTTTCCTCAGGCGTCATTT-TCTGGGAGCTGAATCTGTAAGTAAT
1 TCAAGAACCTTTAGGCTGGCCTTTCCTCAGGCATCATTTCT-TGGGAGCAGAATCTATAAGTAAT
* *** * ** *
36194752 CCCCTTGAGCATCGTCAAAGGTGTAGCTTCCATAGTTCCGGTCAAAATGAAAA
65 CCCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATGGAAATGAAAT
* * *
36194805 TCAAGAACCTTTCGGCTGGCCTCTT-CTCAGGCATCATTTCTTGGGAGCTAG-ATCTGTAAGTGA
1 TCAAGAACCTTTAGGCTGGCCT-TTCCTCAGGCATCATTTCTTGGGAGC-AGAATCTATAAGTAA
* ** * * *
36194868 TCCCTTTGAGCATCGTGGAAGGCATAG-A--CTTAGTTCCGATGAAAATGAAAT
64 TCCCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATGGAAATGAAAT
36194919 T
1 T
36194920 AGAGAACAAG
Statistics
Matches: 292, Mismatches: 52, Indels: 13
0.82 0.15 0.04
Matches are distributed among these distances:
114 20 0.07
116 2 0.01
117 266 0.91
118 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (117 bp):
TCAAGAACCTTTAGGCTGGCCTTTCCTCAGGCATCATTTCTTGGGAGCAGAATCTATAAGTAATC
CCCTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATGGAAATGAAAT
Found at i:36194879 original size:234 final size:234
Alignment explanation
Indices: 36194457--36194883 Score: 565
Period size: 234 Copynumber: 1.8 Consensus size: 234
36194447 CTAATAATCA
** *
36194457 AGAATCTTTAGGTTGGCCTTTCCTCAGGCATCATTTCCTAGAAGTCGAATCTATAAGTGATCCCC
1 AGAATCTTTAGGCCGGCCTTTCCTCAGGCATCATTTCCTAGAAGTCGAATCTATAAGTAATCCCC
* ** * **
36194522 TTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCTGATGGAAATGAAATTCAAGAACCTTTAGTT
66 TTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATCAAAATGAAAATCAAGAACCTTTAGGC
* * *
36194587 TGGCCTTTCCTCGGGCGTTATTTCTTGGGAGCAGAATCTATAAGTAATCACCTTGAGCATCGTCA
131 TGGCCTTTCCTCAGGCATCATTTCTTGGGAGCAGAATCTATAAGTAATCACCTTGAGCATCGTCA
36194652 AAGGCGTAGAAGCTATGGTTCCAATGGAAATGAAATTCT
196 AAGGCGTAGAAGCTATGGTTCCAATGGAAATGAAATTCT
* * * * *
36194691 AGAATCTTTAGGCCGGCCTTTCCTCAGGCGTCATTTTCTGGGAG-CTGAATCTGTAAGTAATCCC
1 AGAATCTTTAGGCCGGCCTTTCCTCAGGCATCATTTCCTAGAAGTC-GAATCTATAAGTAATCCC
* *** * *
36194755 CTTGAGCATCGTCAAAGGTGTAGCTTCCATAGTTCCGGTCAAAATGAAAATCAAGAACCTTTCGG
65 CTTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATCAAAATGAAAATCAAGAACCTTTAGG
* *
36194820 CTGGCCTCTT-CTCAGGCATCATTTCTTGGGAGCTAG-ATCTGTAAGTGATC-CCTTTGAGCATC
130 CTGGCCT-TTCCTCAGGCATCATTTCTTGGGAGC-AGAATCTATAAGTAATCACC-TTGAGCATC
36194882 GT
192 GT
36194884 GGAAGGCATA
Statistics
Matches: 164, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
233 3 0.02
234 157 0.96
235 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (234 bp):
AGAATCTTTAGGCCGGCCTTTCCTCAGGCATCATTTCCTAGAAGTCGAATCTATAAGTAATCCCC
TTGAGCATCGTCAAAGGCGTAGAAGCCATAGTTCCGATCAAAATGAAAATCAAGAACCTTTAGGC
TGGCCTTTCCTCAGGCATCATTTCTTGGGAGCAGAATCTATAAGTAATCACCTTGAGCATCGTCA
AAGGCGTAGAAGCTATGGTTCCAATGGAAATGAAATTCT
Found at i:36197541 original size:28 final size:28
Alignment explanation
Indices: 36197509--36197591 Score: 166
Period size: 28 Copynumber: 3.0 Consensus size: 28
36197499 ATCACAATCC
36197509 TAAGTTGAAACTATTAAATTCAGCATCA
1 TAAGTTGAAACTATTAAATTCAGCATCA
36197537 TAAGTTGAAACTATTAAATTCAGCATCA
1 TAAGTTGAAACTATTAAATTCAGCATCA
36197565 TAAGTTGAAACTATTAAATTCAGCATC
1 TAAGTTGAAACTATTAAATTCAGCATC
36197592 TTTGTGCCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (28 bp):
TAAGTTGAAACTATTAAATTCAGCATCA
Found at i:36204357 original size:20 final size:20
Alignment explanation
Indices: 36204320--36204357 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36204310 TAAAAATAAA
*
36204320 TCAAAATAATTTTCAAAATT
1 TCAAAATAATTTTAAAAATT
36204340 TCAAAAT-ATTTATAAAAA
1 TCAAAATAATTT-TAAAAA
36204358 ATCAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAAAATAATTTTAAAAATT
Found at i:36204362 original size:19 final size:20
Alignment explanation
Indices: 36204317--36204365 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
36204307 CAATAAAAAT
36204317 AAATCAAAATAATTTTCAAA
1 AAATCAAAATAATTTTCAAA
**
36204337 ATTTCAAAAT-ATTTAT-AAA
1 AAATCAAAATAATTT-TCAAA
36204356 AAATCAAAAT
1 AAATCAAAAT
36204366 TTCATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATCAAAATAATTTTCAAA
Found at i:36205261 original size:19 final size:19
Alignment explanation
Indices: 36205234--36205282 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
36205224 ATGAAATTAG
*
36205234 AATTGAGTTAAAAAAAACA
1 AATTAAGTTAAAAAAAACA
**
36205253 AATTAAGTTTTAAAAAACA
1 AATTAAGTTAAAAAAAACA
36205272 AATTAAGTTAA
1 AATTAAGTTAA
36205283 GTTAATTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (19 bp):
AATTAAGTTAAAAAAAACA
Found at i:36205650 original size:22 final size:23
Alignment explanation
Indices: 36205622--36205666 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36205612 ATGCAATCTT
36205622 AGATATAA-TATGTAATCTTAGA
1 AGATATAATTATGTAATCTTAGA
* *
36205644 AGATATAATTTTGTAATTTTAGA
1 AGATATAATTATGTAATCTTAGA
36205667 GATTTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (23 bp):
AGATATAATTATGTAATCTTAGA
Found at i:36210036 original size:26 final size:26
Alignment explanation
Indices: 36210000--36210051 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36209990 TGCCATAGTG
36210000 TCTTTCAACTATGGTCTTACTCATTT
1 TCTTTCAACTATGGTCTTACTCATTT
36210026 TCTTTCAACTATGGTCTTACTCATTT
1 TCTTTCAACTATGGTCTTACTCATTT
36210052 CCTGTCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (26 bp):
TCTTTCAACTATGGTCTTACTCATTT
Found at i:36210098 original size:46 final size:46
Alignment explanation
Indices: 36210026--36210143 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
36210016 TTACTCATTT
*
36210026 TCTTTCAACTATGGTCTTACTCATTTCCTGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGTCATGGTA
* * *
36210072 TCTTTCAACCATGGTCTTATTTATTTCTTGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGTCATGGTA
*
36210118 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACTCATTT
36210144 GAATCGCGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGTCATGGTA
Found at i:36210253 original size:33 final size:33
Alignment explanation
Indices: 36210201--36210356 Score: 138
Period size: 33 Copynumber: 4.7 Consensus size: 33
36210191 TCTGGTATAA
* * *
36210201 TGCCATAGTCCAACTATGGTCTTACACATGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
* **
36210234 TGCCATGGCCCAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAGCCATGGTCTTACACAT-GTAT
* ** *
36210267 TGCCATATCCCAAACATGGTCTTATCATCA-GGA-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-CATGTAT
* * *
36210300 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
*
36210333 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
36210357 TCCATCAATT
Statistics
Matches: 95, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
31 2 0.02
32 4 0.04
33 85 0.89
34 3 0.03
35 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACATGTAT
Found at i:36212582 original size:536 final size:536
Alignment explanation
Indices: 36211570--36212642 Score: 2110
Period size: 536 Copynumber: 2.0 Consensus size: 536
36211560 TCACATCATT
36211570 TCCTTGCTTTTTCAATAATATTACACTTAAAAATATATTGAAATCTTGATATTCTTGTTTTATTG
1 TCCTTGCTTTTTCAATAATATTACACTTAAAAATATATTGAAATCTTGATATTCTTGTTTTATTG
36211635 ATTTCAATCTCTAACTTGATTTTCTCTCTCCTCTAGCTTCTATTTCTTGAATCTAACTTGATATT
66 ATTTCAATCTCTAACTTGATTTTCTCTCTCCTCTAGCTTCTATTTCTTGAATCTAACTTGATATT
36211700 CTAACTCCCCATAGTCTCCTTGTCATCTTTCTTTCTTGATGACTATGAAAATTCTTTTGATTTCT
131 CTAACTCCCCATAGTCTCCTTGTCATCTTTCTTTCTTGATGACTATGAAAATTCTTTTGATTTCT
*
36211765 AAGTGAAAATGGTGGATTTTTGGTGAAAGGACCAAATTGTAAAGAAAAGAAAGTTTCTTTCTTTC
196 AAGTGAAAATGGTGGATTTTTGGTGAAAGGACCAAATTGTAAAGAAAAGAAAGTTTCTTTCTTCC
*
36211830 TTTTCTCTTCATACGTTGGGTGCATGGGAAAAAGATGATGGCTCTTCATCTTTCTTTCCTTATAT
261 TTTTCTCTTCATACGTTGGGTGCATGGGAAAAAGATGATGACTCTTCATCTTTCTTTCCTTATAT
36211895 ATACTAAATAAAATAATAATAAAATAATAAAATACTATTTAAAAATTAAATTAAAATATTAATAA
326 ATACTAAATAAAATAATAATAAAATAATAAAATACTATTTAAAAATTAAATTAAAATATTAATAA
36211960 ACTAATATTTATTTATTTAATTAATCAAAATATCTTCAACATCATGATTATCTTCTAGATTTCTC
391 ACTAATATTTATTTATTTAATTAATCAAAATATCTTCAACATCATGATTATCTTCTAGATTTCTC
36212025 TCTCCTTCTAATTGACCATTTTGCCCTCTTTGATATTTTAAAATTTCATCATTGAGTCGTCATTT
456 TCTCCTTCTAATTGACCATTTTGCCCTCTTTGATATTTTAAAATTTCATCATTGAGTCGTCATTT
36212090 AAATTTGGTAAAATTA
521 AAATTTGGTAAAATTA
36212106 TCCTTGCTTTTTCAATAATATTACACTTAAAAATATATTGAAATCTTGATATTCTTGTTTTATTG
1 TCCTTGCTTTTTCAATAATATTACACTTAAAAATATATTGAAATCTTGATATTCTTGTTTTATTG
36212171 ATTTCAATCTCTAACTTGATTTTCTCTCTCCTCTAGCTTCTATTTCTTGAATCTAACTTGATATT
66 ATTTCAATCTCTAACTTGATTTTCTCTCTCCTCTAGCTTCTATTTCTTGAATCTAACTTGATATT
*
36212236 CTAACTCCCCGTAGTCTCCTTGTCATCTTTCTTTCTTGATGACTATGAAAATTCTTTTGATTTCT
131 CTAACTCCCCATAGTCTCCTTGTCATCTTTCTTTCTTGATGACTATGAAAATTCTTTTGATTTCT
36212301 AAGTGAAAATGGTGGATTTTTGGTGAAAGGACCAAATTGTAAAGAAAAGAAAGTTTCTTTCTTCC
196 AAGTGAAAATGGTGGATTTTTGGTGAAAGGACCAAATTGTAAAGAAAAGAAAGTTTCTTTCTTCC
*
36212366 TTTTCTCTTCATACGTTGGGTGCATGGGAAAAAGATGATGATTCTTCATCTTTCTTTCCTTATAT
261 TTTTCTCTTCATACGTTGGGTGCATGGGAAAAAGATGATGACTCTTCATCTTTCTTTCCTTATAT
36212431 ATACTAAATAAAATAATAATAAAATAATAAAATACTATTTAAAAATTAAATTAAAATATTAATAA
326 ATACTAAATAAAATAATAATAAAATAATAAAATACTATTTAAAAATTAAATTAAAATATTAATAA
36212496 ACTAATATTTATTTATTTAATTAATCAAAATATCTTCAACATCATGATTATCTTCTAGATTTCTC
391 ACTAATATTTATTTATTTAATTAATCAAAATATCTTCAACATCATGATTATCTTCTAGATTTCTC
36212561 TCTCCTTCTAATTGACCATTTTGCCCTCTTTGATATTTTAAAATTTCATCATTGAGTCGTCATTT
456 TCTCCTTCTAATTGACCATTTTGCCCTCTTTGATATTTTAAAATTTCATCATTGAGTCGTCATTT
36212626 AAATTTGGTAAAATTA
521 AAATTTGGTAAAATTA
36212642 T
1 T
36212643 AATTTAGTCC
Statistics
Matches: 533, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
536 533 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (536 bp):
TCCTTGCTTTTTCAATAATATTACACTTAAAAATATATTGAAATCTTGATATTCTTGTTTTATTG
ATTTCAATCTCTAACTTGATTTTCTCTCTCCTCTAGCTTCTATTTCTTGAATCTAACTTGATATT
CTAACTCCCCATAGTCTCCTTGTCATCTTTCTTTCTTGATGACTATGAAAATTCTTTTGATTTCT
AAGTGAAAATGGTGGATTTTTGGTGAAAGGACCAAATTGTAAAGAAAAGAAAGTTTCTTTCTTCC
TTTTCTCTTCATACGTTGGGTGCATGGGAAAAAGATGATGACTCTTCATCTTTCTTTCCTTATAT
ATACTAAATAAAATAATAATAAAATAATAAAATACTATTTAAAAATTAAATTAAAATATTAATAA
ACTAATATTTATTTATTTAATTAATCAAAATATCTTCAACATCATGATTATCTTCTAGATTTCTC
TCTCCTTCTAATTGACCATTTTGCCCTCTTTGATATTTTAAAATTTCATCATTGAGTCGTCATTT
AAATTTGGTAAAATTA
Found at i:36212786 original size:31 final size:31
Alignment explanation
Indices: 36212729--36212787 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
36212719 TACCCTTGAA
*
36212729 ATATTTACACTATTAGTCCTTCAATTTTTTC
1 ATATTTACACTATTAGACCTTCAATTTTTTC
*
36212760 ATATTTACACT-TTA-ACCTCTCAAATTTT
1 ATATTTACACTATTAGACCT-TCAATTTTT
36212788 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.12
30 11 0.44
31 11 0.44
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAGACCTTCAATTTTTTC
Found at i:36214229 original size:17 final size:17
Alignment explanation
Indices: 36214177--36214229 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
36214167 TATGGAAACA
* *
36214177 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
36214194 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
36214213 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
36214230 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:36214262 original size:22 final size:22
Alignment explanation
Indices: 36214201--36214259 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
36214191 ATGCAATCTT
* *
36214201 AGATATGATATGTAATCTTAGA
1 AGATATGATTTGTAATATTAGA
36214223 AGATATGATTTTGTAATATTAG-
1 AGATATGA-TTTGTAATATTAGA
*
36214245 AGATTTGATTTGTAA
1 AGATATGATTTGTAA
36214260 ATACCTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.21
22 15 0.45
23 11 0.33
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (22 bp):
AGATATGATTTGTAATATTAGA
Found at i:36215852 original size:14 final size:13
Alignment explanation
Indices: 36215813--36215859 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
36215803 AATTAATTTA
36215813 ATTTAATTTAATT
1 ATTTAATTTAATT
36215826 -TTCTAACTTTAATT
1 ATT-TAA-TTTAATT
36215840 ATTTAATTATAATT
1 ATTTAATT-TAATT
*
36215854 AATTAA
1 ATTTAA
36215860 ATAATAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 20 0.69
15 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTAATTTAATT
Found at i:36218225 original size:20 final size:19
Alignment explanation
Indices: 36218200--36218256 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
36218190 TGGTTTTAGT
36218200 GTTTAAGATTTAGGGTTAAA
1 GTTTAAG-TTTAGGGTTAAA
* *
36218220 GTTTAAGGTTAGTGGTTGAA
1 GTTTAAGTTTAG-GGTTAAA
*
36218240 GTTTAGGGTTTAGGGTT
1 GTTTA-AGTTTAGGGTT
36218257 TAGGGTGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.13
20 22 0.71
21 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (19 bp):
GTTTAAGTTTAGGGTTAAA
Found at i:36218250 original size:7 final size:7
Alignment explanation
Indices: 36218240--36218270 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36218230 AGTGGTTGAA
36218240 GTTTAGG
1 GTTTAGG
36218247 GTTTAGG
1 GTTTAGG
36218254 GTTTAGG
1 GTTTAGG
*
36218261 GTGTAGG
1 GTTTAGG
36218268 GTT
1 GTT
36218271 AATGATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:36219626 original size:40 final size:40
Alignment explanation
Indices: 36219569--36219686 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
36219559 ATATACCATG
* *
36219569 TGGGGATAAAATTGACCCACCCAGCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGTA
36219609 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGTA
36219649 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAG
1 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAG
36219687 CGTACTGTAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGTA
Found at i:36221872 original size:2 final size:2
Alignment explanation
Indices: 36221867--36221891 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36221857 TATATATATA
36221867 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
36221892 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:36222503 original size:70 final size:71
Alignment explanation
Indices: 36222422--36222577 Score: 271
Period size: 70 Copynumber: 2.2 Consensus size: 71
36222412 TAAATTAAAC
* *
36222422 TAATATTGATATAATATTGTGACTATTATTTTAATTATATTATTAT-AAAAAAATCAAACAAAGT
1 TAATATTGATATAATATAGTGACTAATATTTTAATTATATTATTATAAAAAAAATCAAACAAAGT
36222486 ATATTG
66 ATATTG
36222492 TAATATTGATATAATATAGTGACTAATATTTTAATTATATTATTATAAAAAAAATCAAACAAAGT
1 TAATATTGATATAATATAGTGACTAATATTTTAATTATATTATTATAAAAAAAATCAAACAAAGT
36222557 ATATTG
66 ATATTG
36222563 TAAT-TTGATAATAAT
1 TAATATTGAT-ATAAT
36222578 GACTTTAACA
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
70 49 0.60
71 33 0.40
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (71 bp):
TAATATTGATATAATATAGTGACTAATATTTTAATTATATTATTATAAAAAAAATCAAACAAAGT
ATATTG
Found at i:36222819 original size:9 final size:9
Alignment explanation
Indices: 36222805--36222832 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
36222795 AAATATATAT
36222805 CATAACTTA
1 CATAACTTA
36222814 CATAACTTA
1 CATAACTTA
36222823 CATAACTTA
1 CATAACTTA
36222832 C
1 C
36222833 GTAATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:36224945 original size:13 final size:14
Alignment explanation
Indices: 36224929--36224957 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36224919 TTTTAAATAT
36224929 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
36224942 TTATAATGGTTTAA
1 TTATAATGGTTTAA
36224956 TT
1 TT
36224958 CATCTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:36227535 original size:43 final size:43
Alignment explanation
Indices: 36227463--36227732 Score: 238
Period size: 43 Copynumber: 6.3 Consensus size: 43
36227453 AGAACATGAC
* *
36227463 CTTTAGCGGCATTTTTGT-AAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
* * *
36227505 CTTTAGCGACGTTTGTGTGAAAAGCACCGCTAAAGGTTATGTT
1 CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
* ** * * * * **
36227548 CTTTAGTGGCACTTGTATGAAATGTGCCGCTAAATGTCACATT
1 CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
* * * * * *
36227591 CTTTAGTGGCGTTTGTGTGAAAGGAGTCGTTAAAAGTCATGTT
1 CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
* * ** * *
36227634 CTTTAGCGGCATTTGTGTGAAATGCGTAGCTAAAGTTCACGTT
1 CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
* * * * * *
36227677 CTTTAACGGCGCTT-TCTAAAAAACGCCGCTAAAAGTCATGTT
1 CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
36227719 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
36227733 TTTACATAGA
Statistics
Matches: 177, Mismatches: 50, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
42 46 0.26
43 131 0.74
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGTT
Found at i:36231312 original size:14 final size:14
Alignment explanation
Indices: 36231293--36231319 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36231283 GTTCTTTATT
36231293 TTATTTTTATTTTA
1 TTATTTTTATTTTA
36231307 TTATTTTTATTTT
1 TTATTTTTATTTT
36231320 CACAAATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:36241843 original size:40 final size:40
Alignment explanation
Indices: 36240690--36241841 Score: 1839
Period size: 40 Copynumber: 28.9 Consensus size: 40
36240680 CGAATACACG
* * * * * *
36240690 TCACTAGCATGATTTCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
* * * * ** * * *
36240730 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
* * *
36240770 TCACTAGCACGAATGCTCTTC-GGAACTTAGTCC-GATACA
1 TCACTAGCATGAATGCTCTTCAGG-ACTTAGCCCGGGTACA
* * * * * *
36240809 TCACTAGCACGAATGCTCTTCGGGGCTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
* * *
36240849 TCACTAGCACGAATGCTCTTC-GGAACTTAGTCC-GATACA
1 TCACTAGCATGAATGCTCTTCAGG-ACTTAGCCCGGGTACA
* * * * * *
36240888 TCACTAGCACGAATGCTCTTCGGGGCTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
* * *
36240928 TCACTAGCACGAATGCTCTTC-GGAACTTAGTCC-GATACA
1 TCACTAGCATGAATGCTCTTCAGG-ACTTAGCCCGGGTACA
* *
36240967 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
*
36241007 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241047 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241087 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241127 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241167 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241207 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241247 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241287 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241327 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241367 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241407 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241447 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241487 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241527 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241567 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241607 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241647 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241687 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
36241727 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
* *
36241767 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
* **
36241807 TCACTAGCACGAATGCTCTTTGGGACTTAGCCCGG
1 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGG
36241842 ATCATCGTCG
Statistics
Matches: 1063, Mismatches: 40, Indels: 18
0.95 0.04 0.02
Matches are distributed among these distances:
39 104 0.10
40 959 0.90
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGGTACA
Found at i:36242487 original size:89 final size:89
Alignment explanation
Indices: 36242336--36242513 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
36242326 GTCTCAGTCC
36242336 TCTCAATACCATCTGCTACAGCTCGATCGGGATCGGAATTCATTACAATAAATAAAAACATTTTC
1 TCTCAATACCATCTGCTACAGCTCGATCGGGATCGGAATTCATTACAATAAATAAAAACATTTTC
36242401 AATTGTCAGAAATCACCACACTAT
66 AATTGTCAGAAATCACCACACTAT
*
36242425 TCTCAATACCATCTGCTACAGCTCGATCGGGATCGGAATTCATTACAATAAATAAACACATTTTC
1 TCTCAATACCATCTGCTACAGCTCGATCGGGATCGGAATTCATTACAATAAATAAAAACATTTTC
36242490 AATTGTCAGAAATCACCACACTAT
66 AATTGTCAGAAATCACCACACTAT
36242514 CAAATAATCA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (89 bp):
TCTCAATACCATCTGCTACAGCTCGATCGGGATCGGAATTCATTACAATAAATAAAAACATTTTC
AATTGTCAGAAATCACCACACTAT
Found at i:36245538 original size:23 final size:23
Alignment explanation
Indices: 36245497--36245608 Score: 80
Period size: 24 Copynumber: 4.8 Consensus size: 23
36245487 GAGTTGATGG
* **
36245497 ACAGTAAGCTTTATTGAGCTGAA
1 ACAGTAAGCTCTAACGAGCTGAA
* *
36245520 ACGGTAAGCTCTAACGAGCTCAAA
1 ACAGTAAGCTCTAACGAGCT-GAA
* * * *
36245544 ACAGTAAGCTTTTATGAGTTGAA
1 ACAGTAAGCTCTAACGAGCTGAA
* * *
36245567 ATAGTAAGCTCCAACGAGTTGAAA
1 ACAGTAAGCTCTAACGAGCTG-AA
* *
36245591 ATAGTAAGCTCTTACGAG
1 ACAGTAAGCTCTAACGAG
36245609 TTGATATATT
Statistics
Matches: 69, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 34 0.49
24 35 0.51
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (23 bp):
ACAGTAAGCTCTAACGAGCTGAA
Found at i:36245549 original size:47 final size:47
Alignment explanation
Indices: 36245497--36245600 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
36245487 GAGTTGATGG
* *
36245497 ACAGTAAGC-TTTATTGAGCTGAAACGGTAAGCTCTAACGAGCTCAAA
1 ACAGTAAGCTTTTA-TGAGCTGAAACAGTAAGCTCCAACGAGCTCAAA
* * * *
36245544 ACAGTAAGCTTTTATGAGTTGAAATAGTAAGCTCCAACGAGTTGAAA
1 ACAGTAAGCTTTTATGAGCTGAAACAGTAAGCTCCAACGAGCTCAAA
*
36245591 ATAGTAAGCT
1 ACAGTAAGCT
36245601 CTTACGAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
47 45 0.92
48 4 0.08
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (47 bp):
ACAGTAAGCTTTTATGAGCTGAAACAGTAAGCTCCAACGAGCTCAAA
Found at i:36245610 original size:24 final size:24
Alignment explanation
Indices: 36245523--36245612 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
36245513 AGCTGAAACG
* * *
36245523 GTAAGCTCTAACGAGCTCAAAACA
1 GTAAGCTCTAACGAGTTGAAAATA
* * *
36245547 GTAAGCTTTTATGAGTTG-AAATA
1 GTAAGCTCTAACGAGTTGAAAATA
*
36245570 GTAAGCTCCAACGAGTTGAAAATA
1 GTAAGCTCTAACGAGTTGAAAATA
*
36245594 GTAAGCTCTTACGAGTTGA
1 GTAAGCTCTAACGAGTTGA
36245613 TATATTGATA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 18 0.34
24 35 0.66
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (24 bp):
GTAAGCTCTAACGAGTTGAAAATA
Found at i:36245610 original size:47 final size:47
Alignment explanation
Indices: 36245497--36245612 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 47
36245487 GAGTTGATGG
* * ** *
36245497 ACAGTAAGCT-TTATTGAGCTGAAACGGTAAGCTCTAACGAGCTCAAA
1 ACAGTAAGCTCTTA-CGAGTTGAAATAGTAAGCTCCAACGAGCTCAAA
* * * *
36245544 ACAGTAAGCTTTTATGAGTTGAAATAGTAAGCTCCAACGAGTTGAAA
1 ACAGTAAGCTCTTACGAGTTGAAATAGTAAGCTCCAACGAGCTCAAA
*
36245591 ATAGTAAGCTCTTACGAGTTGA
1 ACAGTAAGCTCTTACGAGTTGA
36245613 TATATTGATA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 56 0.95
48 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (47 bp):
ACAGTAAGCTCTTACGAGTTGAAATAGTAAGCTCCAACGAGCTCAAA
Found at i:36255043 original size:16 final size:16
Alignment explanation
Indices: 36255022--36255054 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36255012 TAGGGTCTCC
*
36255022 TTGTGCTTAGCATTTT
1 TTGTGCTTAGAATTTT
36255038 TTGTGCTTAGAATTTT
1 TTGTGCTTAGAATTTT
36255054 T
1 T
36255055 GGTTAAGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (16 bp):
TTGTGCTTAGAATTTT
Found at i:36260446 original size:13 final size:13
Alignment explanation
Indices: 36260428--36260452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36260418 TAATGGTATA
36260428 TTGAATCCATGAT
1 TTGAATCCATGAT
36260441 TTGAATCCATGA
1 TTGAATCCATGA
36260453 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:36262069 original size:26 final size:26
Alignment explanation
Indices: 36262024--36262123 Score: 103
Period size: 27 Copynumber: 3.8 Consensus size: 26
36262014 ACCCCTGGTT
*
36262024 TGTAAAATTACTGAAATACCTTCAATC
1 TGTAAAATTACCGAAATACCTTC-ATC
* * *
36262051 TGTAAAA-TATCGAAATACCCTTCGTT
1 TGTAAAATTACCGAAATA-CCTTCATC
** *
36262077 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCTTCAT-C
36262104 TGTAAAATTACCGAAATACC
1 TGTAAAATTACCGAAATACC
36262124 CCTGTTGGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 22 0.35
27 41 0.65
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (26 bp):
TGTAAAATTACCGAAATACCTTCATC
Found at i:36262108 original size:53 final size:54
Alignment explanation
Indices: 36262021--36262124 Score: 140
Period size: 53 Copynumber: 1.9 Consensus size: 54
36262011 TAGACCCCTG
* *
36262021 GTTTGTAAAATTACTGAAATACCTTCAATCTGTAAAA-TATCGAAATACCCTTC
1 GTTTGTAAAATTACCGAAATACCTTCAATCTGTAAAATTACCGAAATACCCTTC
** *
36262074 GTTTGTAAAATTACCGAAATACCTT-TGTAGTGTAAAATTACCGAAATACCC
1 GTTTGTAAAATTACCGAAATACCTTCAAT-CTGTAAAATTACCGAAATACCC
36262125 CTGTTGGGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 1 0.02
53 31 0.70
54 12 0.27
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
GTTTGTAAAATTACCGAAATACCTTCAATCTGTAAAATTACCGAAATACCCTTC
Found at i:36262137 original size:27 final size:27
Alignment explanation
Indices: 36262080--36262138 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
36262070 CTTCGTTTGT
** * *
36262080 AAAATTACCGAAATACCTTTGTAGTGT
1 AAAATTACCGAAATACCCCTGTAGGGC
*
36262107 AAAATTACCGAAATACCCCTGTTGGGC
1 AAAATTACCGAAATACCCCTGTAGGGC
36262134 AAAAT
1 AAAAT
36262139 GACTATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGC
Found at i:36263406 original size:42 final size:42
Alignment explanation
Indices: 36263316--36263493 Score: 141
Period size: 43 Copynumber: 4.2 Consensus size: 42
36263306 CAATGTCGAC
* * * * **
36263316 GTCCCGGACATGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAAGGTCTTACACGTAAATCAATA-CGATGCCGAT
* *
36263359 GTCCCATACAGGGTCTTACACG-AAATCAGATACGATGCCGAT
1 GTCCCAGACAAGGTCTTACACGTAAATCA-ATACGATGCCGAT
* * * *
36263401 GTCCCAGACATGGTCTTATACGTAACTCTCAAT-CGAGGCCTG-T
1 GTCCCAGACAAGGTCTTACACGTAA--ATCAATACGATGCC-GAT
* *
36263444 GTCCCAGACAAGGTCTTGCACG--AATCAGATACGATGCTGAT
1 GTCCCAGACAAGGTCTTACACGTAAATCA-ATACGATGCCGAT
36263485 GTCCCAGAC
1 GTCCCAGAC
36263494 TTGGGTCACA
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
39 3 0.03
40 3 0.03
41 16 0.15
42 32 0.29
43 49 0.45
44 3 0.03
45 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (42 bp):
GTCCCAGACAAGGTCTTACACGTAAATCAATACGATGCCGAT
Found at i:36263459 original size:85 final size:84
Alignment explanation
Indices: 36263316--36263493 Score: 234
Period size: 85 Copynumber: 2.1 Consensus size: 84
36263306 CAATGTCGAC
* * * * *
36263316 GTCCCGGACATGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCATACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACAAGGTCTTACACG
36263381 AAATCAGATACGATGCCGAT
66 -AATCAGATACGATGCCGAT
* * *
36263401 GTCCCAGACATGGTCTTATACGTAACTCTC-A-ATCGAGGCCTGTGTCCCAGACAAGGTCTTGCA
1 GTCCCAGACATGGTCTTACACGTAA-T-TCAATATCGAGGCCTCTGTCCCAGACAAGGTCTTACA
*
36263464 CGAATCAGATACGATGCTGAT
64 CGAATCAGATACGATGCCGAT
36263485 GTCCCAGAC
1 GTCCCAGAC
36263494 TTGGGTCACA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
84 27 0.33
85 51 0.62
86 2 0.02
87 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACAAGGTCTTACACG
AATCAGATACGATGCCGAT
Found at i:36264600 original size:20 final size:20
Alignment explanation
Indices: 36264575--36264615 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
36264565 AAACAGTAGC
*
36264575 TCATCCATATAAATATTATT
1 TCATCCATATAAATAGTATT
36264595 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
36264615 T
1 T
36264616 ATGCTCGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (20 bp):
TCATCCATATAAATAGTATT
Found at i:36264747 original size:26 final size:24
Alignment explanation
Indices: 36264714--36264782 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
36264704 TCCACTCTTT
*
36264714 TGAG-TGATTAACAGTAAGCTCCTCC
1 TGAGCTGA-TAACAGTAAGCT-CTAC
** *
36264739 TGAGCTGATGGGCAGTAAGCTCTAT
1 TGAGCTGAT-AACAGTAAGCTCTAC
36264764 TGAGCTGA-AACAGTAAGCT
1 TGAGCTGATAACAGTAAGCT
36264783 TTGACGAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 9 0.25
25 15 0.42
26 12 0.33
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTCTAC
Found at i:36264791 original size:23 final size:23
Alignment explanation
Indices: 36264751--36264829 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
36264741 AGCTGATGGG
* * *
36264751 CAGTAAGCTCTATTGAGCTGAAA
1 CAGTAAGCTTTGTAGAGCTGAAA
*
36264774 CAGTAAGCTTTG-ACGAGCTAAAAA
1 CAGTAAGCTTTGTA-GAGCT-GAAA
*
36264798 TAGTAAGCTTTTGTA-AGCTGAAA
1 CAGTAAGC-TTTGTAGAGCTGAAA
*
36264821 CAATAAGCT
1 CAGTAAGCT
36264830 CCAATGAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
22 1 0.02
23 24 0.55
24 14 0.32
25 4 0.09
26 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (23 bp):
CAGTAAGCTTTGTAGAGCTGAAA
Found at i:36266931 original size:32 final size:32
Alignment explanation
Indices: 36266879--36266950 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
36266869 TTTGGAGAGT
36266879 CACACGCCCGTGTGGATTAGGCCGTGTGGCTA
1 CACACGCCCGTGTGGATTAGGCCGTGTGGCTA
* * *
36266911 CACATGCCTGTGTGGCTTAGGCCGTGTGG-TCA
1 CACACGCCCGTGTGGATTAGGCCGTGTGGCT-A
36266943 CACACGCC
1 CACACGCC
36266951 TATGTCCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (32 bp):
CACACGCCCGTGTGGATTAGGCCGTGTGGCTA
Found at i:36270343 original size:31 final size:31
Alignment explanation
Indices: 36270305--36270366 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36270295 AAACACTTTC
36270305 ACTAATGTCTCAGAATCACAAATCGATTTAA
1 ACTAATGTCTCAGAATCACAAATCGATTTAA
36270336 ACTAATGTCTCAGAATCACAAATCGATTTAA
1 ACTAATGTCTCAGAATCACAAATCGATTTAA
36270367 CTTTGTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (31 bp):
ACTAATGTCTCAGAATCACAAATCGATTTAA
Found at i:36281304 original size:32 final size:32
Alignment explanation
Indices: 36281268--36281348 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
36281258 TTCAATAATG
* * *
36281268 GTATTATAATTGGCACAAAGCCATCGGTAACT
1 GTATTATAATTGGCACAAAGCCATCAGCAACA
** * * *
36281300 GTATTATGTTTGGAACATAGCCATCAGCGACA
1 GTATTATAATTGGCACAAAGCCATCAGCAACA
*
36281332 GTAATATAATTGGCACA
1 GTATTATAATTGGCACA
36281349 CAGACTTTGG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (32 bp):
GTATTATAATTGGCACAAAGCCATCAGCAACA
Found at i:36281869 original size:27 final size:27
Alignment explanation
Indices: 36281839--36281940 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 27
36281829 ACGATCATTT
* *
36281839 TACCCTACAAGGGTATTACGATAATCC
1 TACCCTACAGGGGTATTTCGATAATCC
* * *
36281866 TACCTTACAGGGGTATTTTGGTAATCC
1 TACCCTACAGGGGTATTTCGATAATCC
* *
36281893 TACCCTATAGGGGTATTTCGATAACCC
1 TACCCTACAGGGGTATTTCGATAATCC
* * *
36281920 TACCCCATAGAGGTATTTCGA
1 TACCCTACAGGGGTATTTCGA
36281941 AAATTTTATA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGATAATCC
Found at i:36281972 original size:27 final size:27
Alignment explanation
Indices: 36281950--36282098 Score: 167
Period size: 27 Copynumber: 5.6 Consensus size: 27
36281940 AAAATTTTAT
* *
36281950 AAATCAAGTGTATTTTAGTAATTTTAC
1 AAATCAAGGGTATTTTAGTAATTTCAC
* ** *
36281977 AAGTCGGGGGTATTTCAGTAATTTCAC
1 AAATCAAGGGTATTTTAGTAATTTCAC
*
36282004 AAATCAAGGGTATTTTAATAATTTCAC
1 AAATCAAGGGTATTTTAGTAATTTCAC
36282031 AAATC-AGGGTATTTT-GATAATTTCAC
1 AAATCAAGGGTATTTTAG-TAATTTCAC
** *
36282057 AAATTGAGGGTATTTTGGTAATTTCAC
1 AAATCAAGGGTATTTTAGTAATTTCAC
* *
36282084 AAATTAGGGGTATTT
1 AAATCAAGGGTATTT
36282099 CGATAATTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 23 0.22
27 80 0.77
28 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
AAATCAAGGGTATTTTAGTAATTTCAC
Found at i:36281989 original size:54 final size:53
Alignment explanation
Indices: 36281931--36282112 Score: 204
Period size: 54 Copynumber: 3.4 Consensus size: 53
36281921 ACCCCATAGA
* * * * * *
36281931 GGTATTTCGAAAATTTTATAAATCAAGTGTATTTTAGTAATTTTACAAGTCGGG
1 GGTATTTCGATAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAATC-GG
* *
36281985 GGTATTTC-AGTAATTTCACAAATCAAGGGTATTTTAATAATTTCACAAATCAG
1 GGTATTTCGA-TAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAATCGG
* ** * *
36282038 GGTATTTTGATAATTTCACAAATTGAGGGTATTTTGGTAATTTCACAAATTAGG
1 GGTATTTCGATAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAA-TCGG
*
36282092 GGTATTTCGATAATTTTACAA
1 GGTATTTCGATAATTTCACAA
36282113 CCTGGGGGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 44 0.41
54 64 0.59
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (53 bp):
GGTATTTCGATAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAATCGG
Found at i:36282105 original size:27 final size:27
Alignment explanation
Indices: 36281931--36282148 Score: 158
Period size: 27 Copynumber: 8.1 Consensus size: 27
36281921 ACCCCATAGA
* * * *
36281931 GGTATTTCGAAAATTTTATAAATCAAG
1 GGTATTTCGATAATTTCACAAATCAGG
* * * * *
36281958 TGTATTT-TAGTAATTTTACAAGTCGGG
1 GGTATTTCGA-TAATTTCACAAATCAGG
*
36281985 GGTATTTC-AGTAATTTCACAAATCAAG
1 GGTATTTCGA-TAATTTCACAAATCAGG
**
36282012 GGTATTTTAATAATTTCACAAATCA-G
1 GGTATTTCGATAATTTCACAAATCAGG
* *
36282038 GGTATTTTGATAATTTCACAAAT-TGAG
1 GGTATTTCGATAATTTCACAAATCAG-G
* * *
36282065 GGTATTTTGGTAATTTCACAAATTAGG
1 GGTATTTCGATAATTTCACAAATCAGG
* * *
36282092 GGTATTTCGATAATTTTAC-AACCTGGG
1 GGTATTTCGATAATTTCACAAATC-AGG
* * *
36282119 GGTATTTCGGTAATTTTATAAATCAGG
1 GGTATTTCGATAATTTCACAAATCAGG
36282146 GGT
1 GGT
36282149 CTTAACGACC
Statistics
Matches: 156, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 26 0.17
27 125 0.80
28 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTCACAAATCAGG
Found at i:36282122 original size:54 final size:54
Alignment explanation
Indices: 36281959--36282148 Score: 197
Period size: 54 Copynumber: 3.5 Consensus size: 54
36281949 TAAATCAAGT
* * * * *
36281959 GTATTTTAGTAATTTTACAAGTCGGGGGTATTTC-AGTAATTTCACAAA-TCAAGG
1 GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGA-TAATTTCACAAACT-GAGG
** * *
36282013 GTATTTTAATAATTTCACAAATCA-GGGTATTTTGATAATTTCACAAATTGAGG
1 GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGATAATTTCACAAACTGAGG
* * * *
36282066 GTATTTTGGTAATTTCACAAATTAGGGGTATTTCGATAATTTTACAACCTGGGG
1 GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGATAATTTCACAAACTGAGG
* * *
36282120 GTATTTCGGTAATTTTATAAATCAGGGGT
1 GTATTTTGGTAATTTCACAAATCAGGGGT
36282149 CTTAACGACC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 44 0.38
54 71 0.62
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGATAATTTCACAAACTGAGG
Found at i:36282480 original size:18 final size:17
Alignment explanation
Indices: 36282450--36282484 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36282440 TTACCCACGC
36282450 GGGCCCACAGGCCCATT
1 GGGCCCACAGGCCCATT
*
36282467 GGGCCCATATGGCCCATT
1 GGGCCCACA-GGCCCATT
36282485 TAACCTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (17 bp):
GGGCCCACAGGCCCATT
Done.