Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008937.1 Hibiscus syriacus cultivar Beakdansim tig00112255_pilon, whole genome shotgun sequence
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: 635368
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 4
Found at i:150361 original size:22 final size:23
Alignment explanation
Indices: 150323--150369 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
150313 GTTGCTTGGA
150323 TTTCTTTAAATACAAAATCGTTTG
1 TTTCTTTAAATACAAAATC-TTTG
150347 TTTC-TTAAA-ACAAAATCTTTG
1 TTTCTTTAAATACAAAATCTTTG
150368 TT
1 TT
150370 ATTGGTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 5 0.22
24 4 0.17
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (23 bp):
TTTCTTTAAATACAAAATCTTTG
Found at i:150816 original size:60 final size:59
Alignment explanation
Indices: 150718--150830 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
150708 AAATAGTCCC
* * *
150718 TCGATTATAGGGTGATACTTTTTTGAGTCCCTCAACTATTTAAAATTATAAAATGATCAT
1 TCGACTATAGGGTGATACTTTGTTGAGTCCCTCAACTA-TTAAAATTACAAAATGATCAT
* * *
150778 TCGACTATAGGGT-ATTGCTTTGTTGAGTCTCTCAACTATTAAAGTTACAAAAT
1 TCGACTATAGGGTGA-TACTTTGTTGAGTCCCTCAACTATTAAAATTACAAAAT
150831 AGTCACCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 14 0.30
60 32 0.70
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (59 bp):
TCGACTATAGGGTGATACTTTGTTGAGTCCCTCAACTATTAAAATTACAAAATGATCAT
Found at i:151119 original size:58 final size:60
Alignment explanation
Indices: 151057--151168 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
151047 AGTCGGGTAA
* *
151057 CCATTTTGTAAC-TTTAATAGTCG-GGGACTCAACAAAGCAACATCCTATAGTCGAATGG
1 CCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACACCCTATAGTCGAATGG
* *
151115 CCATTTTGTAACTTTTAATAATCGAGTGACTCAACAAAGCATCACCCTATAGTC
1 CCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACACCCTATAGTC
151169 AAGGGACTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 12 0.25
59 10 0.21
60 26 0.54
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (60 bp):
CCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACACCCTATAGTCGAATGG
Found at i:151188 original size:60 final size:59
Alignment explanation
Indices: 151061--151189 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
151051 GGGTAACCAT
* * *
151061 TTTGT-AAC-TTTAATAGTCGGGGACTCAACAAAGCAACATCCTATAGTCGAATGGCCA
1 TTTGTGAACTTTTAATAATCGGGGACTCAACAAAGCAACACCCTATAGTCGAAGGGCCA
* * *
151118 TTT-TGTAACTTTTAATAATCGAGTGACTCAACAAAGCATCACCCTATAGTC-AAGGGACTA
1 TTTGTG-AACTTTTAATAATCG-GGGACTCAACAAAGCAACACCCTATAGTCGAAGGG-CCA
151178 TTTGTGAACTTT
1 TTTGTGAACTTT
151190 ACCCTATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
56 1 0.02
57 3 0.05
58 3 0.05
59 14 0.23
60 37 0.62
61 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (59 bp):
TTTGTGAACTTTTAATAATCGGGGACTCAACAAAGCAACACCCTATAGTCGAAGGGCCA
Found at i:159151 original size:30 final size:31
Alignment explanation
Indices: 159115--159185 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 31
159105 AAAAACTAAT
159115 ATTATATATA-TTTTCAAAATGTTTTAAAAA
1 ATTATATATAGTTTTCAAAATGTTTTAAAAA
*
159145 ATTATATATATGTTTTCAAAATGTTTTCAAAA
1 ATTATATATA-GTTTTCAAAATGTTTTAAAAA
*
159177 ACTATATAT
1 ATTATATAT
159186 TATATTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 10 0.27
32 27 0.73
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (31 bp):
ATTATATATAGTTTTCAAAATGTTTTAAAAA
Found at i:159283 original size:28 final size:28
Alignment explanation
Indices: 159252--159305 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
159242 GTATATTATA
*
159252 TATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATTATCAAAATGTTTTCAAAAAC
** *
159280 TATATATTATGTATATGTTTTCAAAA
1 TATATATTATCAAAATGTTTTCAAAA
159306 TGTTTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (28 bp):
TATATATTATCAAAATGTTTTCAAAAAC
Found at i:159308 original size:11 final size:11
Alignment explanation
Indices: 159294--159355 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 11
159284 TATTATGTAT
159294 ATGTTTTCAAA
1 ATGTTTTCAAA
159305 ATGTTTTCAAAA
1 ATGTTTTC-AAA
* *
159317 ACTATATATTATATAA
1 A-TGT-T-TT-CA-AA
159333 ATGTTTTCAAA
1 ATGTTTTCAAA
159344 ATGTTTTCAAA
1 ATGTTTTCAAA
159355 A
1 A
159356 ATTATATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 22 0.54
12 5 0.12
13 4 0.10
14 2 0.05
15 5 0.12
16 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (11 bp):
ATGTTTTCAAA
Found at i:159483 original size:37 final size:37
Alignment explanation
Indices: 159105--159488 Score: 473
Period size: 39 Copynumber: 10.7 Consensus size: 37
159095 CATTATATCT
159105 AAAAACTA-ATATTATATATATTTTCAAAATGTTTT-
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
*
159140 AAAAA--AT-TA-TATATATGTTTTCAAAATGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
* * *
159173 AAAAACTATATATTATATTTATATTTTTAAAA-ATTTTA
1 AAAAACTATATATTATA--TATATTTTCAAAATGTTTTC
*
159211 AAAAACTATATATTATATATATTCTCAAAATG---T-
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
159244 ----A-TAT-TA-TATATATATTTTCAAAATGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
*
159274 AAAAACTATATATTATGTATATGTTTTCAAAATGTTTTC
1 AAAAACTATATATTA--TATATATTTTCAAAATGTTTTC
*
159313 AAAAACTATATATTATATAAATGTTTTCAAAATGTTTTC
1 AAAAACTATATATTATAT--ATATTTTCAAAATGTTTTC
*
159352 AAAAATTATATATTATATATATATTTTCAAAATGTTTTC
1 AAAAACTATATA-T-TATATATATTTTCAAAATGTTTTC
*
159391 AAAAACTATATATTATATATTTTTTCAAAATGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
*
159428 AAAAACTATATATTATATATATTTTCAAAATGTTTTA
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
159465 AAAAACTATATATTATATAT-TTTT
1 AAAAACTATATATTATATATATTTT
159489 GAAACATTAT
Statistics
Matches: 307, Mismatches: 16, Indels: 51
0.82 0.04 0.14
Matches are distributed among these distances:
26 18 0.06
27 2 0.01
28 3 0.01
29 2 0.01
32 22 0.07
33 8 0.03
34 2 0.01
35 10 0.03
36 19 0.06
37 87 0.28
38 22 0.07
39 106 0.35
40 1 0.00
41 5 0.02
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (37 bp):
AAAAACTATATATTATATATATTTTCAAAATGTTTTC
Found at i:167589 original size:20 final size:20
Alignment explanation
Indices: 167564--167602 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
167554 CTTCATTTGG
*
167564 TCTTCCAATTGTTTGATTTA
1 TCTTCCAATTATTTGATTTA
167584 TCTTCCAATTATTTGATTT
1 TCTTCCAATTATTTGATTT
167603 CCTTCCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (20 bp):
TCTTCCAATTATTTGATTTA
Found at i:169002 original size:11 final size:11
Alignment explanation
Indices: 168986--169039 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
168976 AATATTATAT
168986 ATGTTTTCAAA
1 ATGTTTTCAAA
168997 ATGTTTTCAAA
1 ATGTTTTCAAA
* * *
169008 A-ATTAT-ATAT
1 ATGTTTTCA-AA
169018 ATGTTTTCAAA
1 ATGTTTTCAAA
169029 ATGTTTT-AAA
1 ATGTTTTCAAA
169039 A
1 A
169040 AAACTATACA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 1 0.03
10 9 0.26
11 23 0.68
12 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (11 bp):
ATGTTTTCAAA
Found at i:169021 original size:32 final size:32
Alignment explanation
Indices: 168981--169041 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
168971 AAAATAATAT
*
168981 TATATATGTTTTCAAAATGTTTTCAAAAATTA
1 TATATATGTTTTCAAAATGTTTTAAAAAATTA
169013 TATATATGTTTTCAAAATGTTTTAAAAAA
1 TATATATGTTTTCAAAATGTTTTAAAAAA
169042 ACTATACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (32 bp):
TATATATGTTTTCAAAATGTTTTAAAAAATTA
Found at i:169189 original size:25 final size:25
Alignment explanation
Indices: 169156--169205 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
169146 TTTCAAAATG
169156 TTTTCAAAAACTATATAT-TATATAT
1 TTTTCAAAAA-TATATATATATATAT
*
169181 TTTTGAAAAATATATATATATATAT
1 TTTTCAAAAATATATATATATATAT
169206 ATTAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTTCAAAAATATATATATATATAT
Found at i:169191 original size:37 final size:37
Alignment explanation
Indices: 169053--169189 Score: 222
Period size: 37 Copynumber: 3.6 Consensus size: 37
169043 CTATACATTA
*
169053 TATATATATATATATATATTCAAAATGTTTTCAAAAAC
1 TATATAT-TATATATATTTTCAAAATGTTTTCAAAAAC
169091 TATATATTATATATATGTTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATA--TTTTCAAAATGTTTTCAAAAAC
169130 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
*
169167 TATATATTATATAT-TTTTGAAAA
1 TATATATTATATATATTTTCAAAA
169190 ATATATATAT
Statistics
Matches: 95, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
36 8 0.08
37 44 0.46
38 7 0.07
39 36 0.38
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
Found at i:169572 original size:22 final size:19
Alignment explanation
Indices: 169547--169594 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
169537 ATAAATTCTC
169547 TTATTTTAAATGATTTTTAAT
1 TTATTTT-AA-GATTTTTAAT
* *
169568 ATTATTATAAGATTTTTTAT
1 -TTATTTTAAGATTTTTAAT
169588 TTATTTT
1 TTATTTT
169595 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 2 0.09
22 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTATTTTAAGATTTTTAAT
Found at i:170010 original size:75 final size:74
Alignment explanation
Indices: 169904--170049 Score: 240
Period size: 75 Copynumber: 2.0 Consensus size: 74
169894 CAATATAATA
* * *
169904 AATTATAATTTTTAGGGTAAGCTATATGTTTAGTA-CATAAACTATCACTTTTGTTCTGATTTAG
1 AATTATAATTTTTAGGGTAAACTACATGTTTAATATC-TAAACTATCACTTTTGTTCTGATTTAG
169968 TACCTCATAG
65 TACCTCATAG
169978 AATTATAATTTTTTAGGGTAAACTACATGTTTAATATCTAAACTATCACTTTTGTTCTGATTTAG
1 AATTATAA-TTTTTAGGGTAAACTACATGTTTAATATCTAAACTATCACTTTTGTTCTGATTTAG
170043 TACCTCA
65 TACCTCA
170050 CCTTTCATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
74 8 0.12
75 58 0.87
76 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (74 bp):
AATTATAATTTTTAGGGTAAACTACATGTTTAATATCTAAACTATCACTTTTGTTCTGATTTAGT
ACCTCATAG
Found at i:170894 original size:18 final size:18
Alignment explanation
Indices: 170873--170920 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
170863 GTTGTTTTTA
170873 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
*
170891 AAATAAAAGAA-AATAATT
1 AAATAAAA-AATAAGAATT
170909 AAATAAAGAAAT
1 AAATAAA-AAAT
170921 TAAAGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:171705 original size:76 final size:74
Alignment explanation
Indices: 171571--171717 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 74
171561 TTCAAAATCC
* *
171571 TAATTAAAATACTAAAACCATTTAAACTAAAATACCTAAAACAAATATCAAATATAAAAATAATA
1 TAATTAAAATACTAAAACCATTTAAACTAAAATACCAAAAAAAAATATCAAATAT-AAAATAATA
171636 TCCTAAAACT
65 TCCTAAAACT
* * * * *
171646 TAATTGAAATACTAAAGCCTATTTAAACTAAAATA-CAAAAATAAAATAT-AATGTTTAAAATAT
1 TAATTAAAATACTAAAACC-ATTTAAACTAAAATACCAAAAA-AAAATATCAA-ATATAAAATAA
171709 TATCCTAAA
63 TATCCTAAA
171718 CTTGAGTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 39 0.63
76 23 0.37
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (74 bp):
TAATTAAAATACTAAAACCATTTAAACTAAAATACCAAAAAAAAATATCAAATATAAAATAATAT
CCTAAAACT
Found at i:176307 original size:19 final size:19
Alignment explanation
Indices: 176282--176331 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
176272 GTTGTTTTTA
176282 AAATAAAAAAATAAGAATT
1 AAATAAAAAAATAAGAATT
* *
176301 AATTAAAAGAAA-AATAATT
1 AAATAAAA-AAATAAGAATT
*
176320 AAATAAACAAAT
1 AAATAAAAAAAT
176332 TAAAGAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (19 bp):
AAATAAAAAAATAAGAATT
Found at i:176969 original size:63 final size:63
Alignment explanation
Indices: 176891--177011 Score: 192
Period size: 63 Copynumber: 1.9 Consensus size: 63
176881 TAAAACATAT
*
176891 TAAATCCTAATTAAAACACTTAAAAC-TATTTAAACTAAAATATCTAAAA-ATAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACATATTTAAACTAAAATACCTAAAACA-AATATAATATTC
*
176954 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAATATAA
1 TAAATCCTAATTAAAACACTAAAACATATTTAAACTAAAATACCTAAAACAAATATAA
177012 AATATAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
62 6 0.11
63 47 0.87
64 1 0.02
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACATATTTAAACTAAAATACCTAAAACAAATATAATATTC
Found at i:177012 original size:25 final size:24
Alignment explanation
Indices: 176965--177012 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
176955 AAATCCTAAT
* *
176965 TAAAATACTAAAACATATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
176989 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
177013 ATATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:177096 original size:76 final size:75
Alignment explanation
Indices: 176935--177108 Score: 208
Period size: 76 Copynumber: 2.3 Consensus size: 75
176925 CTAAAATATC
* * * *
176935 TAAAA-ATAATATAATATTCTAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACCA
*
176999 AAAACAAATA
66 AAAAAAAATA
* * *
177009 TAAAATATAAAAATAATATCCTAAAACTTAATTGAAATACTAAAACCTATTTAAACTAAAATA-C
1 TAAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACC
177073 AAAAATAAAATA
65 AAAAA-AAAATA
** * *
177085 TAATGTTTAAAATATTATCCTAAA
1 TAAAATATAAAATAATATCCTAAA
177109 CTTGATTTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
74 5 0.06
75 22 0.26
76 58 0.68
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACCA
AAAAAAAATA
Found at i:179746 original size:2 final size:2
Alignment explanation
Indices: 179739--179803 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
179729 ACTTTGAATA
179739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
179781 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
179804 ATTAAACATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:180254 original size:2 final size:2
Alignment explanation
Indices: 180247--180315 Score: 86
Period size: 2 Copynumber: 34.5 Consensus size: 2
180237 TATGTTTAAT
* * * *
180247 TA TA TA TA TA TA TT TA TG TA TA TA CT- TA TA AA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
180289 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
180316 TATTCAAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
1 1 0.02
2 55 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:180448 original size:19 final size:20
Alignment explanation
Indices: 180426--180467 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
180416 AGAATATAGA
*
180426 GAAATTGGG-AATTTAGAGG
1 GAAATTGGGAAATTTAAAGG
180445 GAAATTGGGAAATTTAAAGG
1 GAAATTGGGAAATTTAAAGG
180465 GAA
1 GAA
180468 TGGAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (20 bp):
GAAATTGGGAAATTTAAAGG
Found at i:180477 original size:46 final size:47
Alignment explanation
Indices: 180382--180483 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 47
180372 GTTTGATTTT
* *
180382 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAGAGAATATAGAGAA
1 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAAAGAATATAGAAAA
* * * *
180429 A-TTGGGAATTTAGAGGGAAATTGGGAAATTTAAAGGGA-ATGGAAAA
1 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAAA-GAATATAGAAAA
180475 ATTTGGGAA
1 ATTTGGGAA
180484 GTTGACGCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 37 0.79
47 10 0.21
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.26
Consensus pattern (47 bp):
ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAAAGAATATAGAAAA
Found at i:180813 original size:2 final size:2
Alignment explanation
Indices: 180761--180804 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
180751 CATATACAGC
* * *
180761 AT AT AT AA ACT AT AT AT AT AC CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
180804 A
1 A
180805 AACTATATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 34 0.97
3 1 0.03
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:181146 original size:18 final size:18
Alignment explanation
Indices: 181102--181252 Score: 119
Period size: 18 Copynumber: 7.9 Consensus size: 18
181092 AAACATAATT
*
181102 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
181120 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
181138 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
181156 TTTTATATACATAGTTTATATA
1 ---TATATATATAGTTTATA-A
* **
181178 TATAGTTCACATA-AATATAA
1 TATA--T-ATATAGTTTATAA
181198 TTTATATATATAGTTTATAA
1 --TATATATATAGTTTATAA
181218 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
181236 TATAAATATAGTTTATA
1 TATATATATAGTTTATA
181253 TATTATTTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.02
18 60 0.55
19 10 0.09
20 7 0.06
21 20 0.18
22 10 0.09
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:181173 original size:13 final size:13
Alignment explanation
Indices: 181157--181271 Score: 71
Period size: 13 Copynumber: 8.9 Consensus size: 13
181147 AGTTTATAAT
*
181157 TTTATATACATAG
1 TTTATATATATAG
181170 TTTATATATATAG
1 TTTATATATATAG
* * *
181183 TTCACATAAATATAA
1 TT--TATATATATAG
181198 TTTATATATATAG
1 TTTATATATATAG
181211 TTTATA-ATA-A-
1 TTTATATATATAG
*
181221 -TTATATAGTTTA-
1 TTTATATA-TATAG
* *
181233 TAATATAAATATAG
1 T-TTATATATATAG
*
181247 TTTATATAT-TAT
1 TTTATATATATAG
181259 TTTATATTATATA
1 TTTATA-TATATA
181272 TATATTATAT
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
9 5 0.06
10 1 0.01
11 2 0.03
12 12 0.15
13 40 0.51
14 8 0.10
15 10 0.13
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (13 bp):
TTTATATATATAG
Found at i:181183 original size:98 final size:99
Alignment explanation
Indices: 181050--181252 Score: 345
Period size: 98 Copynumber: 2.1 Consensus size: 99
181040 CTATATACTT
* *
181050 TTTATAGTTTATACATATATAGTTTATATACATAGTTCACATAAACATAATTTATATATATAGCT
1 TTTATAATTTATACATACATAGTTTATATACATAGTTCACATAAACATAATTTATATATATAGCT
181115 TATAATAATTATATAGTTTATAATATAAATATAG
66 TATAATAATTATATAGTTTATAATATAAATATAG
* * * *
181149 TTTATAATTT-TATATACATAGTTTATATATATAGTTCACATAAATATAATTTATATATATAGTT
1 TTTATAATTTATACATACATAGTTTATATACATAGTTCACATAAACATAATTTATATATATAGCT
181213 TATAATAATTATATAGTTTATAATATAAATATAG
66 TATAATAATTATATAGTTTATAATATAAATATAG
181247 TTTATA
1 TTTATA
181253 TATTATTTTA
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 89 0.91
99 9 0.09
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (99 bp):
TTTATAATTTATACATACATAGTTTATATACATAGTTCACATAAACATAATTTATATATATAGCT
TATAATAATTATATAGTTTATAATATAAATATAG
Found at i:182094 original size:16 final size:16
Alignment explanation
Indices: 182073--182107 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
182063 ACCTTAGTTG
182073 ACCTATACCCGATTTT
1 ACCTATACCCGATTTT
182089 ACCTATACCCGATTTT
1 ACCTATACCCGATTTT
182105 ACC
1 ACC
182108 CAACCTTCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (16 bp):
ACCTATACCCGATTTT
Found at i:186675 original size:90 final size:90
Alignment explanation
Indices: 186559--186734 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 90
186549 TAATCCCGAA
* * * * *
186559 TATTTAATTTCAATTAATGAAATATAGATTTAATTAATTTGAAATAATAAAATCCATGATATGAT
1 TATTAAATTCCAATTAATGAAATATAGATTTAATTAATTTGAAATAATAAAAACCATAATATGAC
186624 TAAGGTAACTTGGATATAAAAGGAT
66 TAAGGTAACTTGGATATAAAAGGAT
* *
186649 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCCAATTAATGAAATATAGATTTAATTAATTTGAAATAATAAAAACCATAATATGAC
* *
186714 TAGGGTAACTTGGCTATAAAA
66 TAAGGTAACTTGGATATAAAA
186735 TGGTATGTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (90 bp):
TATTAAATTCCAATTAATGAAATATAGATTTAATTAATTTGAAATAATAAAAACCATAATATGAC
TAAGGTAACTTGGATATAAAAGGAT
Found at i:189970 original size:3 final size:3
Alignment explanation
Indices: 189962--190107 Score: 292
Period size: 3 Copynumber: 48.7 Consensus size: 3
189952 CATGGGACTG
189962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
190010 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
190058 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
190106 AA
1 AA
190108 AGAAATAAAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 143 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:190873 original size:125 final size:125
Alignment explanation
Indices: 190529--191165 Score: 884
Period size: 125 Copynumber: 5.1 Consensus size: 125
190519 ATTGGATTTG
* * * *
190529 AGTTGAAATCCAATCTAGAGATGGA-TGCTTCTTGTGGGCACGATATCCTTTGTCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
190593 AATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTCGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * * * *
190653 AGTTGAAATCCAATCTAGAGATGGA-TGTTGCTTGTGGGAACGATATTCTTCGTCATGAAGTTGA
1 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * * * *
190717 AATCGTGGATGGCTCATTTGTTATGAAGTTGAGCTTTGAATCGAATATCCTTCGTTGTAA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * * * *
190777 AGTTGAAATCTAATCTAGAGTTTTATTGCTGCTTGTGGGCATGATATCCTTTGCCGTGATGTTGA
1 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * * * *
190842 AATTGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTGAATTGTATATCATTTGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * * * *
190902 AATTGGAATCCAATCTAGAGTTGTATTGTTGCTTGTGGGCACGATATCCTTCATTGTAAAGTTGA
1 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
*
190967 AATCGTGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGGATATACTTCGTTGTGA
66 AATCGTGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* *
191027 AGTTGAAATCCAATCTAGAGTTGTATTACTGCTTGTGGGCACGATATCCTTCGTCGTTAAGTTGA
1 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* *
191092 AATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
191152 AGTTGAAATCCAAT
1 AGTTGAAATCCAAT
191166 GATTGTTTCA
Statistics
Matches: 447, Mismatches: 63, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
124 133 0.30
125 312 0.70
126 2 0.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (125 bp):
AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
Found at i:191267 original size:65 final size:65
Alignment explanation
Indices: 191132--191366 Score: 318
Period size: 65 Copynumber: 3.7 Consensus size: 65
191122 GAGCTTTGAA
* ** * *
191132 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAA---T--GATTGTTTCACAAAATTGGTTTTGAG
1 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGAAAGTTTCACCAAATTGGTTTTGTG
* *
191192 TTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGAAAGTTTCACCAAATTGGTTTTGTG
1 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGAAAGTTTCACCAAATTGGTTTTGTG
* * * *
191257 TTGGATATCCTTCACCGTGAAGTTGAAAACCAATCTTGAGTAAGTTTCACCAAATTGGCTTTGTG
1 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGAAAGTTTCACCAAATTGGTTTTGTG
* *
191322 TTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGAGTAAGT
1 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGAAAGT
191367 GGCATTGCTT
Statistics
Matches: 156, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
60 32 0.21
63 1 0.01
65 123 0.79
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (65 bp):
TTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGAAAGTTTCACCAAATTGGTTTTGTG
Found at i:191618 original size:64 final size:64
Alignment explanation
Indices: 191529--191707 Score: 286
Period size: 64 Copynumber: 2.8 Consensus size: 64
191519 AAGTTGTTCC
* * * *
191529 GAGTCCAAAATCCTTCGATGTGAAGTTGAAATTAACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTGTT
* *
191593 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTAAGTTTGAATGAAACTAGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTGTT
* *
191657 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTCACTTTGAATGAAACTAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTTTGAATGAAACTAG
191708 TTGAAATTCA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 105 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTGTT
Found at i:191716 original size:26 final size:26
Alignment explanation
Indices: 191680--191733 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
191670 TTCGCTGTGA
191680 AGTTAAAATTCACTTTGAATGAAACT
1 AGTTAAAATTCACTTTGAATGAAACT
*
191706 AGTTGAAATTCACTTTGAATGAAACT
1 AGTTAAAATTCACTTTGAATGAAACT
191732 AG
1 AG
191734 AAAGTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (26 bp):
AGTTAAAATTCACTTTGAATGAAACT
Found at i:191737 original size:154 final size:154
Alignment explanation
Indices: 191552--191856 Score: 484
Period size: 154 Copynumber: 2.0 Consensus size: 154
191542 TTCGATGTGA
* *
191552 AGTTGAAATTAACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGCTATGAA
1 AGTTGAAATTAACTCTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCCTTCGCTATGAA
* * *
191617 GTTGAAATTAAGTTTGAATGAAACTAGAAAGTTGTTTGTTGAGTCCAATATCCTTCGCTGTGAAG
66 GTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTCTTGAGTCCAATATCCATCGCTGTGAAG
*
191682 TTAAAATTCACTTTGAATGAAACT
131 TTAAAATTCACTCTGAATGAAACT
* * * *
191706 AGTTGAAATTCACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCTTTCGCTGTGAA
1 AGTTGAAATTAACTCTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCCTTCGCTATGAA
* *
191771 GTTGAAATTGACTTTGAATGAAACTAGAAAGTTGTTTCTTGAGTCCAATATCCATCGTTGTGAAG
66 GTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTCTTGAGTCCAATATCCATCGCTGTGAAG
* *
191836 TTGAAATTGACTCTGAATGAA
131 TTAAAATTCACTCTGAATGAA
191857 TCTGAAAAAT
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 137 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (154 bp):
AGTTGAAATTAACTCTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCCTTCGCTATGAA
GTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTCTTGAGTCCAATATCCATCGCTGTGAAG
TTAAAATTCACTCTGAATGAAACT
Found at i:191769 original size:90 final size:90
Alignment explanation
Indices: 191616--191797 Score: 310
Period size: 90 Copynumber: 2.0 Consensus size: 90
191606 TTCGCTATGA
* *
191616 AGTTGAAATTAAGTTTGAATGAAACTAGAAAGTTGTTTGTTGAGTCCAATATCCTTCGCTGTGAA
1 AGTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCCTTCGCTGTGAA
191681 GTTAAAATTCACTTTGAATGAAACT
66 GTTAAAATTCACTTTGAATGAAACT
* *
191706 AGTTGAAATTCACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCTTTCGCTGTGAA
1 AGTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCCTTCGCTGTGAA
* *
191771 GTTGAAATTGACTTTGAATGAAACT
66 GTTAAAATTCACTTTGAATGAAACT
191796 AG
1 AG
191798 AAAGTTGTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (90 bp):
AGTTGAAATTAACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCCTTCGCTGTGAA
GTTAAAATTCACTTTGAATGAAACT
Found at i:191786 original size:64 final size:64
Alignment explanation
Indices: 191706--192238 Score: 699
Period size: 64 Copynumber: 8.3 Consensus size: 64
191696 GAATGAAACT
* * * * * *
191706 AGTTGAAATTCACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCTTTCGCTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
* * * * * *
191770 AGTTGAAATTGACTTTGAATGAAACTAGAAAGTTGTTTCTTGAGTCCAATATCCATCGTTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
* * * * *
191834 AGTTGAAATTGACTCTGAATGAATCTGAAAAATTTTGTTTGTTGA-TGCTAATACCCTTCGTTGT
1 AGTTGAAATTGACTCTGAATGAAACTG-GAAA-GTTGTTTGTTGAGT-CCAATACCCTTCGCTGT
191898 GA
63 GA
* * *
191900 AGTTGAAATTGTCTCTGAATGAAACTGGAAAGTTATTTGTTGAGTCCAATACCCTTCTCTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
* * *
191964 AGTTGAAATTGTCTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGGTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
* * * * * *
192028 AGTTGAAATTGACTCTGAATAAAATTGTAAAGTTGTTTATTGAGTCTAATACCCTTCGTTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
* * * *
192092 AGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCGATACCTTTCACTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
* * * *
192156 AGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGATTTGA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
192220 AGTTGAAATTGACTCTGAA
1 AGTTGAAATTGACTCTGAA
192239 AGATGCAAAA
Statistics
Matches: 413, Mismatches: 52, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
64 354 0.86
65 8 0.02
66 51 0.12
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (64 bp):
AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCCTTCGCTGTGA
Found at i:192174 original size:192 final size:194
Alignment explanation
Indices: 191706--192238 Score: 795
Period size: 192 Copynumber: 2.8 Consensus size: 194
191696 GAATGAAACT
* * * * * *
191706 AGTTGAAATTCACTTTGAATGAAACTAGAAAGTTGTTTGTTAAGTCCAATATCTTTCGCTGTGAA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCTTTCACTGTGAA
* * * * *
191771 GTTGAAATTGACTTTGAATGAAACTAGAAAGTTGTTTCTTGAGTCCAATATCCATCGTTGTGAAG
66 GTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGATGTGAAG
* * *
191836 TTGAAATTGACTCTGAATGAATCTGAAAAATTTTGTTTGTTGATGCTAATACCCTTCGTTGTGA
131 TTGAAATTGACTCTGAATAAATCTGAAAAATGTTGTTTATTGATGCTAATACCCTTCGTTGTGA
* * * *
191900 AGTTGAAATTGTCTCTGAATGAAACTGGAAAGTTATTTGTTGAGTCCAATACCCTTCTCTGTGAA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCTTTCACTGTGAA
* *
191965 GTTGAAATTGTCTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGGTGTGAAG
66 GTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGATGTGAAG
*
192030 TTGAAATTGACTCTGAATAAAAT-TG-TAAA-GTTGTTTATTGA-GTCTAATACCCTTCGTTGTG
131 TTGAAATTGACTCTGAAT-AAATCTGAAAAATGTTGTTTATTGATG-CTAATACCCTTCGTTGTG
192091 A
194 A
* *
192092 AGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCGATACCTTTCACTGTGAA
1 AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCTTTCACTGTGAA
* *
192157 GTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGATTTGAAG
66 GTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGATGTGAAG
192222 TTGAAATTGACTCTGAA
131 TTGAAATTGACTCTGAA
192239 AGATGCAAAA
Statistics
Matches: 308, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
191 1 0.00
192 166 0.54
193 3 0.01
194 135 0.44
195 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (194 bp):
AGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACCTTTCACTGTGAA
GTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCCTTCGATGTGAAG
TTGAAATTGACTCTGAATAAATCTGAAAAATGTTGTTTATTGATGCTAATACCCTTCGTTGTGA
Found at i:194600 original size:64 final size:64
Alignment explanation
Indices: 194161--194586 Score: 618
Period size: 64 Copynumber: 6.7 Consensus size: 64
194151 AAGTTGTTTC
* *
194161 GAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * *
194225 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTCACTTTGAATGAAACTAGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
** * * * *
194289 GAGTCCAATATATTTTGCTGTGAAGTTGAAATTGACTTTGAATGAAACTAGAAAGTTGTTTCTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
194353 GAGTCCAATATCCATCGCTGTGAAGTTGAAATTGACTCTGAATGAATCTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * * * *
194417 GAGTCTAATACCCTTCGTTGTGAAGTTGAAATTGTCTCTAAATGAAACTGGAAAGTTATTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * *
194481 GAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAATTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
194545 GAGTCCAATACCCTTCGCTGTGAAATTGAAATTGACTCTGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
194587 AGCTCCAAAA
Statistics
Matches: 326, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 326 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:201282 original size:51 final size:50
Alignment explanation
Indices: 201213--201340 Score: 175
Period size: 51 Copynumber: 2.5 Consensus size: 50
201203 TTAGCAGTAA
* * **
201213 AGCGCGCCTCCTGTACCGCGCTATACGATGATTTGGCGCCACATGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACAT-GGGTAT
* *
201264 AGCGCGCCCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACCTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGTAT
* *
201314 AGCGCGACCCCTGCAGCGCGCTATACG
1 AGCGCGCCCCCTGCACCGCGCTATACG
201341 CCACGTAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 31 0.45
51 38 0.55
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.18
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGTAT
Found at i:201430 original size:49 final size:51
Alignment explanation
Indices: 201364--201474 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
201354 TAGCGCGGAT
*
201364 CAGGTACCGCGCTATACCTTTACTCCT-A-ATAATTTTATATAGTGCGGGG
1 CAGGTACCGCGCTATACCTTTACTCCTGACATAATTTTATATAATGCGGGG
201413 CAGGTACCGCGAC-ATACCTTTACTCCTGACATAATTTTATATAATGCGGGG
1 CAGGTACCGCG-CTATACCTTTACTCCTGACATAATTTTATATAATGCGGGG
201464 CAGGTACCGCG
1 CAGGTACCGCG
201475 TTTTGTATAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
49 25 0.43
50 2 0.03
51 31 0.53
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (51 bp):
CAGGTACCGCGCTATACCTTTACTCCTGACATAATTTTATATAATGCGGGG
Found at i:205213 original size:3 final size:3
Alignment explanation
Indices: 205207--205270 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
205197 TCATCACCAA
* *
205207 CGT CGT CGT CGT CGT CGT CGT CAT CGT CGT CTT CGT CGT CGT CGT CGT
1 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT
205255 CGT CGT CGT CGT CGT C
1 CGT CGT CGT CGT CGT C
205271 ATCTTGCGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.02, C:0.34, G:0.30, T:0.34
Consensus pattern (3 bp):
CGT
Found at i:205630 original size:18 final size:18
Alignment explanation
Indices: 205607--205645 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
205597 AAGGCGATGA
205607 CGGCATCATATATGGCTG
1 CGGCATCATATATGGCTG
205625 CGGCATCATATATGGCTG
1 CGGCATCATATATGGCTG
205643 CGG
1 CGG
205646 TGGCTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
CGGCATCATATATGGCTG
Found at i:207277 original size:110 final size:110
Alignment explanation
Indices: 207150--207361 Score: 354
Period size: 110 Copynumber: 1.9 Consensus size: 110
207140 ATTACAAAAA
* * * *
207150 TTAATTCTTAATCTAATAATCATGCATTAAATGAATTAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAAT-AAATAACTAAATATTAATAATAATTTAAATTA
207215 AATTAAAACG-TAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
65 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
*
207260 TTAATTATTAATATAATAATCATGCATTAAATAAATAACTAAATATTACTAATAATTTAAATTAA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATAACTAAATATTAATAATAATTTAAATTAA
*
207325 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
66 ATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGT
207362 AAAGATATAT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
109 39 0.41
110 56 0.59
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (110 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATAACTAAATATTAATAATAATTTAAATTAA
ATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
Found at i:207507 original size:12 final size:10
Alignment explanation
Indices: 207493--207533 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
207483 ACCTTAAAAA
*
207493 GAGAGTATTT
1 GAGAGAATTT
207503 GAGAGAAATTT
1 GAGAG-AATTT
207514 -AGAGAATTT
1 GAGAGAATTT
207523 GAGAGAATTT
1 GAGAGAATTT
207533 G
1 G
207534 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:207668 original size:50 final size:50
Alignment explanation
Indices: 207613--207770 Score: 144
Period size: 51 Copynumber: 3.1 Consensus size: 50
207603 TCCCCTTGCA
* *
207613 CCGCGCTATACCCCACGTGTCAGATA-T-ACAGGTATAGCGCGCTGCAGGGG
1 CCGCGCTATACCCCACGTGGC-GATACTCAC-CGTATAGCGCGCTGCAGGGG
* * *
207663 CCGCGCTATA-CCCACGTGGCGCTAGCTCACCGTATAGCGTGGTGCAGGGG
1 CCGCGCTATACCCCACGTGGCGATA-CTCACCGTATAGCGCGCTGCAGGGG
* * * * *
207713 GCGCGCTATACCCCACGTGGCGCCA-AATCATCGTATAGCGCGGTACAGGGG
1 CCGCGCTATACCCCACGTGGCG--ATACTCACCGTATAGCGCGCTGCAGGGG
*
207764 GCGCGCT
1 CCGCGCT
207771 TTACTGCTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
48 3 0.03
49 9 0.10
50 37 0.41
51 41 0.45
52 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (50 bp):
CCGCGCTATACCCCACGTGGCGATACTCACCGTATAGCGCGCTGCAGGGG
Found at i:207735 original size:51 final size:50
Alignment explanation
Indices: 207644--207770 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 50
207634 AGATATACAG
* * * **
207644 GTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGGCGCTAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* *
207694 GTATAGCGTGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGGCGCCAAATCACC
*
207745 GTATAGCGCGGTACAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
207771 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 26 0.39
51 41 0.61
ACGTcount: A:0.17, C:0.31, G:0.35, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:208011 original size:3 final size:3
Alignment explanation
Indices: 208003--208081 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
207993 GGGCCTGAAA
208003 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
208051 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
208082 ATATATTTTG
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:208475 original size:65 final size:60
Alignment explanation
Indices: 208343--208475 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
208333 AAGTTGAGCC
* * * * * *
208343 TTGAGTTGGATATCTTTCGTTGTGAAGTTGAAATCTAAGAATTGTTTCACCAATTTAGTT
1 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAAGAATAGTTTCACCAAATTAGTT
*
208403 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTTGAATGAGTTTTACCAAATT-GTC
1 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAA----GAAT-AGTTTCACCAAATTAGT-
208467 T
60 T
208468 TTGAGTTG
1 TTGAGTTG
208476 AAATCCAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
60 34 0.57
64 6 0.10
65 20 0.33
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (60 bp):
TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAAGAATAGTTTCACCAAATTAGTT
Found at i:208691 original size:124 final size:125
Alignment explanation
Indices: 208471--209096 Score: 830
Period size: 124 Copynumber: 5.1 Consensus size: 125
208461 ATTGTCTTTG
* * *
208471 AGTTGAAATCCAATATAGAGATGGA-TGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * * *
208535 AATCGTGGATGGCTCATTCATTGTGAAGTTGAGTTTTAAATTGGATATCCTTCGTCGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* *
208595 AGTTGAAATCCAATCTAGAGATGGA-TGCTGCTTGTGGGCACGATATCCTTCATCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * * * *
208659 AATCGTGGATAGCTCATTCGTTATTAAGTTGAGCTTTGAATTAGATATCTTTCGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * *
208719 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCATGATATCC-T--T--TGAA-AT--
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
208776 AA---TGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * *
208833 AGTTGAAATCAAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTG
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGC-TTGTGGGCACGATATCCTTCGTCGTGAAGTTG
208898 AAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
65 AAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * * * * *
208959 AGTTGAACTCTATTCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTTAAGTTAA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
209024 AATCGTGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATATCTTTCGTCGTGA
66 AATCGTGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
209084 AGTTGAAATCCAA
1 AGTTGAAATCCAA
209097 GGATTGTTTC
Statistics
Matches: 441, Mismatches: 47, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
114 76 0.17
115 15 0.03
116 1 0.00
117 2 0.00
118 1 0.00
119 1 0.00
120 8 0.02
121 1 0.00
122 1 0.00
123 2 0.00
124 136 0.31
125 116 0.26
126 81 0.18
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (125 bp):
AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
Found at i:208858 original size:114 final size:114
Alignment explanation
Indices: 208671--209093 Score: 411
Period size: 126 Copynumber: 3.5 Consensus size: 114
208661 TCGTGGATAG
* * * *
208671 CTCATTCGTTATTAAGTTGAGCTTTGAATTAGATAT-CTTTCGTTGTGAAGTTGAAATCCAATCT
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTT-GTTGTGAAGTTGAAATCAAATCT
* *
208735 AGAGTTGTATTGCTGCTTGTGGGCATGATATCCTTTGAAATAATGGATGA
65 AGAGTTGTATTGCTCCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
*
208785 CTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
* ** *
208850 GAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGG
66 GAGTTGTATTGCTCC-TTGTGGGCACG--AT-A-TC--C-T----TTGAAATAATGGATGA
* * * *
208911 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAACTCTATTCTA
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
* * *
208976 GAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTTAAGTTAAAATCGTGGATGG
66 GAGTTGTATTGCTCCTTGTGGGCACGATATCCTT--T-G--AA---ATAA---TGGATGA
* *
209036 CTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATAT-CTTTCGTCGTGAAGTTGAAATC
1 C-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTT-GTTGTGAAGTTGAAATC
209094 CAAGGATTGT
Statistics
Matches: 258, Mismatches: 25, Indels: 41
0.80 0.08 0.13
Matches are distributed among these distances:
114 69 0.27
115 14 0.05
116 1 0.00
117 3 0.01
118 2 0.01
119 5 0.02
121 3 0.01
122 3 0.01
123 2 0.01
124 3 0.01
125 65 0.25
126 88 0.34
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (114 bp):
CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
GAGTTGTATTGCTCCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
Found at i:208955 original size:240 final size:238
Alignment explanation
Indices: 208531--209009 Score: 715
Period size: 240 Copynumber: 2.0 Consensus size: 238
208521 CGTCGTGAAG
** * * *
208531 TTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGTTTTAAATTGGATATCCTTCGTCGTGAA
1 TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
* * *
208596 GTTGAAATCCAATCTAGAGATGGATGCTGCTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAA
66 GTTGAAATCAAATCTAGAGATGGATGCTCCTTGTGGGCACGATATCATTCATCGTGAAGTTGAAA
* *
208661 TCGTGGATAGCTCATTCGTTATTAAGTTGAGCTTTGAATTAGATATCTTTCGTTGTGAAGTTGAA
131 TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAA
*
208726 ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCATGATATCCT
196 ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
* * * *
208769 TTGAAATAATGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAA
1 TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
* * *
208834 GTTGAAATCAAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGA
66 GTTGAAATCAAATCTAGAGATGGA-TGCTCC-TTGTGGGCACGATATCATTCATCGTGAAGTTGA
* * *
208899 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTG
129 AATCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTG
* * * *
208964 AACTCTATTCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCT
194 AAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
209009 T
1 T
209010 CGTCGTTAAG
Statistics
Matches: 214, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
238 77 0.36
239 5 0.02
240 132 0.62
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (238 bp):
TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
GTTGAAATCAAATCTAGAGATGGATGCTCCTTGTGGGCACGATATCATTCATCGTGAAGTTGAAA
TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAA
ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
Found at i:209054 original size:125 final size:126
Alignment explanation
Indices: 208778--209093 Score: 483
Period size: 125 Copynumber: 2.5 Consensus size: 126
208768 TTTGAAATAA
* * *
208778 TGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATC
1 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
*
208843 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCG
66 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
*
208904 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAACTC
1 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
* * * * * *
208969 TATTCTAGAGTTGTATTGCTTC-TTGTGGGCACGATATCCTTCGTCGTTAAGTTAAAATCG
66 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
* * *
209029 TGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATATCTTTCGTCGTGAAGTTGAAAT
1 TGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAAT
209093 C
65 C
209094 CAAGGATTGT
Statistics
Matches: 174, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
125 93 0.53
126 81 0.47
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.38
Consensus pattern (126 bp):
TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
Found at i:209151 original size:60 final size:63
Alignment explanation
Indices: 209058--209222 Score: 201
Period size: 65 Copynumber: 2.6 Consensus size: 63
209048 GAAGTTGAGC
* * * *
209058 TTTGAATTGAATATCTTTCGTCGTGAAGTTGAAATCCAA-GGA-T-TGTTTCACAAAATTGGT
1 TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGGAGTAAGTTTCACAAAATTGGT
* * *
209118 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
1 TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAA--TGGAGTAAGTTTCACAAAATTGGT
* * *
209183 TTTGTGTTGGATATCCTTCGCCGTGAAATTGAAATCCAAT
1 TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT
209223 ATATATCTGC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
60 35 0.39
63 3 0.03
64 1 0.01
65 50 0.56
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (63 bp):
TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGGAGTAAGTTTCACAAAATTGGT
Found at i:209323 original size:12 final size:10
Alignment explanation
Indices: 209309--209349 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
209299 ACCTTAAAAA
*
209309 GAGAGTATTT
1 GAGAGAATTT
209319 GAGAGAAATTT
1 GAGAG-AATTT
209330 -AGAGAATTT
1 GAGAGAATTT
209339 GAGAGAATTT
1 GAGAGAATTT
209349 G
1 G
209350 GTATGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:209484 original size:50 final size:50
Alignment explanation
Indices: 209429--209586 Score: 144
Period size: 51 Copynumber: 3.1 Consensus size: 50
209419 GCCCCCTGCA
* *
209429 CCGCGCTATACCCCACGTGTCAGATA-T-ACAGGTATAGCGCGCTGCAGGGG
1 CCGCGCTATACCCCACGTGGC-GATACTCAC-CGTATAGCGCGCTGCAGGGG
* * *
209479 CCGCGCTATA-CCCACGTGGCGCTAGCTCACCGTATAGCGTGGTGCAGGGG
1 CCGCGCTATACCCCACGTGGCGATA-CTCACCGTATAGCGCGCTGCAGGGG
* * * * *
209529 GCGCGCTATACCCCACGTGGCGCCA-AATCATCGTATAGCGCGGTACAGGGG
1 CCGCGCTATACCCCACGTGGCG--ATACTCACCGTATAGCGCGCTGCAGGGG
*
209580 GCGCGCT
1 CCGCGCT
209587 TTACTGCTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
48 3 0.03
49 9 0.10
50 37 0.41
51 41 0.45
52 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (50 bp):
CCGCGCTATACCCCACGTGGCGATACTCACCGTATAGCGCGCTGCAGGGG
Found at i:209551 original size:51 final size:50
Alignment explanation
Indices: 209460--209586 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 50
209450 AGATATACAG
* * * **
209460 GTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGGCGCTAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* *
209510 GTATAGCGTGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGGCGCCAAATCACC
*
209561 GTATAGCGCGGTACAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
209587 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 26 0.39
51 41 0.61
ACGTcount: A:0.17, C:0.31, G:0.35, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:209828 original size:3 final size:3
Alignment explanation
Indices: 209820--209875 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
209810 GGGCCTGAAA
209820 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
209868 AAT AAT AA
1 AAT AAT AA
209876 AGAAATAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:210278 original size:65 final size:60
Alignment explanation
Indices: 210146--210278 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
210136 AAGTTGAGCC
* * * * * *
210146 TTGAGTTGGATATCTTTCGTTGTGAAGTTGAAATCTAAGAATTGTTTCACCAATTTAGTT
1 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAAGAATAGTTTCACCAAATTAGTT
*
210206 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTTGAATGAGTTTTACCAAATT-GTC
1 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAA----GAAT-AGTTTCACCAAATTAGT-
210270 T
60 T
210271 TTGAGTTG
1 TTGAGTTG
210279 AAATCCAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
60 34 0.57
64 6 0.10
65 20 0.33
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (60 bp):
TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAAGAATAGTTTCACCAAATTAGTT
Found at i:210494 original size:124 final size:125
Alignment explanation
Indices: 210274--210899 Score: 866
Period size: 124 Copynumber: 5.1 Consensus size: 125
210264 ATTGTCTTTG
* *
210274 AGTTGAAATCCAATCTAGAGATGGA-TGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
210338 AATCGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTAAATTGGATATCCTTCGTCGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* *
210398 AGTTGAAATCCAATCTAGAGATGGA-TGCTGCTTGTGGGCACGATATCCTTCATCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * * *
210462 AATCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCTTTCGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* *
210522 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCC-T--T--TGAA-AT--
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
210579 AA---TGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * *
210636 AGTTGAAATCAAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTG
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGC-TTGTGGGCACGATATCCTTCGTCGTGAAGTTG
210701 AAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
65 AAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * * * * *
210762 AGTTGAACTCTATTCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTTAAGTTAA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
210827 AATCGTGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATATCTTTCGTCGTGA
66 AATCGTGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
210887 AGTTGAAATCCAA
1 AGTTGAAATCCAA
210900 GGATTGTTTC
Statistics
Matches: 447, Mismatches: 41, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
114 77 0.17
115 16 0.04
116 1 0.00
117 2 0.00
118 1 0.00
119 1 0.00
120 8 0.02
121 1 0.00
122 1 0.00
123 2 0.00
124 139 0.31
125 117 0.26
126 81 0.18
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (125 bp):
AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
Found at i:210661 original size:114 final size:114
Alignment explanation
Indices: 210474--210896 Score: 429
Period size: 126 Copynumber: 3.5 Consensus size: 114
210464 TCGTGGATAG
* * *
210474 CTCATTCGTTATGAAGTTGAGCTTTGAATTAGATAT-CTTTCGTTGTGAAGTTGAAATCCAATCT
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTT-GTTGTGAAGTTGAAATCAAATCT
*
210538 AGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
65 AGAGTTGTATTGCTCCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
*
210588 CTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
* ** *
210653 GAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGG
66 GAGTTGTATTGCTCC-TTGTGGGCACG--AT-A-TC--C-T----TTGAAATAATGGATGA
* * * *
210714 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAACTCTATTCTA
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
* * *
210779 GAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTTAAGTTAAAATCGTGGATGG
66 GAGTTGTATTGCTCCTTGTGGGCACGATATCCTT--T-G--AA---ATAA---TGGATGA
* *
210839 CTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATAT-CTTTCGTCGTGAAGTTGAAATC
1 C-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTT-GTTGTGAAGTTGAAATC
210897 CAAGGATTGT
Statistics
Matches: 260, Mismatches: 23, Indels: 41
0.80 0.07 0.13
Matches are distributed among these distances:
114 70 0.27
115 15 0.06
116 1 0.00
117 3 0.01
118 2 0.01
119 5 0.02
121 3 0.01
122 3 0.01
123 2 0.01
124 3 0.01
125 65 0.25
126 88 0.34
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.38
Consensus pattern (114 bp):
CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
GAGTTGTATTGCTCCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
Found at i:210758 original size:240 final size:238
Alignment explanation
Indices: 210334--210812 Score: 742
Period size: 240 Copynumber: 2.0 Consensus size: 238
210324 CGTCGTGAAG
** * *
210334 TTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTAAATTGGATATCCTTCGTCGTGAA
1 TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
* * *
210399 GTTGAAATCCAATCTAGAGATGGATGCTGCTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAA
66 GTTGAAATCAAATCTAGAGATGGATGCTCCTTGTGGGCACGATATCATTCATCGTGAAGTTGAAA
*
210464 TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCTTTCGTTGTGAAGTTGAA
131 TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAA
210529 ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
196 ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
* * * *
210572 TTGAAATAATGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAA
1 TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
* * *
210637 GTTGAAATCAAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGA
66 GTTGAAATCAAATCTAGAGATGGA-TGCTCC-TTGTGGGCACGATATCATTCATCGTGAAGTTGA
* * *
210702 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTG
129 AATCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTG
* * * *
210767 AACTCTATTCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCT
194 AAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
210812 T
1 T
210813 CGTCGTTAAG
Statistics
Matches: 217, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
238 78 0.36
239 5 0.02
240 134 0.62
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (238 bp):
TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
GTTGAAATCAAATCTAGAGATGGATGCTCCTTGTGGGCACGATATCATTCATCGTGAAGTTGAAA
TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAA
ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
Found at i:210857 original size:125 final size:126
Alignment explanation
Indices: 210581--210896 Score: 483
Period size: 125 Copynumber: 2.5 Consensus size: 126
210571 TTTGAAATAA
* * *
210581 TGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATC
1 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
*
210646 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCG
66 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
*
210707 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAACTC
1 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
* * * * * *
210772 TATTCTAGAGTTGTATTGCTTC-TTGTGGGCACGATATCCTTCGTCGTTAAGTTAAAATCG
66 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
* * *
210832 TGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATATCTTTCGTCGTGAAGTTGAAAT
1 TGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAAT
210896 C
65 C
210897 CAAGGATTGT
Statistics
Matches: 174, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
125 93 0.53
126 81 0.47
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.38
Consensus pattern (126 bp):
TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
Found at i:210954 original size:60 final size:63
Alignment explanation
Indices: 210861--211025 Score: 201
Period size: 65 Copynumber: 2.6 Consensus size: 63
210851 GAAGTTGAGC
* * * *
210861 TTTGAATTGAATATCTTTCGTCGTGAAGTTGAAATCCAA-GGA-T-TGTTTCACAAAATTGGT
1 TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGGAGTAAGTTTCACAAAATTGGT
* * *
210921 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
1 TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAA--TGGAGTAAGTTTCACAAAATTGGT
* * *
210986 TTTGTGTTGGATATCCTTCGCCGTGAAATTGAAATCCAAT
1 TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT
211026 ATATATCTGC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
60 35 0.39
63 3 0.03
64 1 0.01
65 50 0.56
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (63 bp):
TTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGGAGTAAGTTTCACAAAATTGGT
Found at i:211317 original size:50 final size:51
Alignment explanation
Indices: 211263--211389 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
211253 AGATATACAG
* * * **
211263 GTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCTAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACC
* * *
211313 GTATAGTGTGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACC
*
211364 GTATAGCGCGGTACAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
211390 TTACTGCTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 25 0.38
51 40 0.62
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (51 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACC
Found at i:211631 original size:3 final size:3
Alignment explanation
Indices: 211623--211672 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
211613 GGGCCTGAAA
211623 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
211671 AA
1 AA
211673 AGAAATAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:212075 original size:65 final size:60
Alignment explanation
Indices: 211943--212075 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
211933 AAGTTGAGCC
* * * * * *
211943 TTGAGTTGGATATCTTTCGTTGTGAAGTTGAAATCTAAGAATTGTTTCACCAATTTAGTT
1 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAAGAATAGTTTCACCAAATTAGTT
*
212003 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTTGAATGAGTTTTACCAAATT-GTC
1 TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAA----GAAT-AGTTTCACCAAATTAGT-
212067 T
60 T
212068 TTGAGTTG
1 TTGAGTTG
212076 AAATCCAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
60 34 0.57
64 6 0.10
65 20 0.33
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (60 bp):
TTGAGTTGGATAACCTTCGTCGTGAAGTTGAAATCCAAGAATAGTTTCACCAAATTAGTT
Found at i:212291 original size:124 final size:125
Alignment explanation
Indices: 212071--212696 Score: 866
Period size: 124 Copynumber: 5.1 Consensus size: 125
212061 ATTGTCTTTG
* *
212071 AGTTGAAATCCAATCTAGAGATGGA-TGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
212135 AATCGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTAAATTGGATATCCTTCGTCGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* *
212195 AGTTGAAATCCAATCTAGAGATGGA-TGCTGCTTGTGGGCACGATATCCTTCATCGTGAAGTTGA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * * *
212259 AATCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCTTTCGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* *
212319 AGTTGAAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCC-T--T--TGAA-AT--
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
212376 AA---TGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGA
66 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * *
212433 AGTTGAAATCAAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTG
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGC-TTGTGGGCACGATATCCTTCGTCGTGAAGTTG
212498 AAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
65 AAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
* * * * * * *
212559 AGTTGAACTCTATTCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTTAAGTTAA
1 AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
* * *
212624 AATCGTGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATATCTTTCGTCGTGA
66 AATCGTGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
212684 AGTTGAAATCCAA
1 AGTTGAAATCCAA
212697 GGATTGTTTC
Statistics
Matches: 447, Mismatches: 41, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
114 77 0.17
115 16 0.04
116 1 0.00
117 2 0.00
118 1 0.00
119 1 0.00
120 8 0.02
121 1 0.00
122 1 0.00
123 2 0.00
124 139 0.31
125 117 0.26
126 81 0.18
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (125 bp):
AGTTGAAATCCAATCTAGAGATGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGA
AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGA
Found at i:212458 original size:114 final size:114
Alignment explanation
Indices: 212271--212693 Score: 429
Period size: 126 Copynumber: 3.5 Consensus size: 114
212261 TCGTGGATAG
* * *
212271 CTCATTCGTTATGAAGTTGAGCTTTGAATTAGATAT-CTTTCGTTGTGAAGTTGAAATCCAATCT
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTT-GTTGTGAAGTTGAAATCAAATCT
*
212335 AGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
65 AGAGTTGTATTGCTCCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
*
212385 CTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
* ** *
212450 GAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGG
66 GAGTTGTATTGCTCC-TTGTGGGCACG--AT-A-TC--C-T----TTGAAATAATGGATGA
* * * *
212511 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAACTCTATTCTA
1 CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
* * *
212576 GAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTTAAGTTAAAATCGTGGATGG
66 GAGTTGTATTGCTCCTTGTGGGCACGATATCCTT--T-G--AA---ATAA---TGGATGA
* *
212636 CTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATAT-CTTTCGTCGTGAAGTTGAAATC
1 C-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTT-GTTGTGAAGTTGAAATC
212694 CAAGGATTGT
Statistics
Matches: 260, Mismatches: 23, Indels: 41
0.80 0.07 0.13
Matches are distributed among these distances:
114 70 0.27
115 15 0.06
116 1 0.00
117 3 0.01
118 2 0.01
119 5 0.02
121 3 0.01
122 3 0.01
123 2 0.01
124 3 0.01
125 65 0.25
126 88 0.34
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.38
Consensus pattern (114 bp):
CTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATCAAATCTA
GAGTTGTATTGCTCCTTGTGGGCACGATATCCTTTGAAATAATGGATGA
Found at i:212555 original size:240 final size:238
Alignment explanation
Indices: 212131--212609 Score: 742
Period size: 240 Copynumber: 2.0 Consensus size: 238
212121 CGTCGTGAAG
** * *
212131 TTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTAAATTGGATATCCTTCGTCGTGAA
1 TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
* * *
212196 GTTGAAATCCAATCTAGAGATGGATGCTGCTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAA
66 GTTGAAATCAAATCTAGAGATGGATGCTCCTTGTGGGCACGATATCATTCATCGTGAAGTTGAAA
*
212261 TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCTTTCGTTGTGAAGTTGAA
131 TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAA
212326 ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
196 ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
* * * *
212369 TTGAAATAATGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAA
1 TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
* * *
212434 GTTGAAATCAAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGA
66 GTTGAAATCAAATCTAGAGATGGA-TGCTCC-TTGTGGGCACGATATCATTCATCGTGAAGTTGA
* * *
212499 AATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTG
129 AATCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTG
* * * *
212564 AACTCTATTCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCT
194 AAATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
212609 T
1 T
212610 CGTCGTTAAG
Statistics
Matches: 217, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
238 78 0.36
239 5 0.02
240 134 0.62
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (238 bp):
TTGAAATAATGGATGACTCATTCATTGTGAAGTTAAGCTTTAAATTGGATATCCTTCGTCGTGAA
GTTGAAATCAAATCTAGAGATGGATGCTCCTTGTGGGCACGATATCATTCATCGTGAAGTTGAAA
TCGTGGATAGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAA
ATCCAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCT
Found at i:212654 original size:125 final size:126
Alignment explanation
Indices: 212378--212693 Score: 483
Period size: 125 Copynumber: 2.5 Consensus size: 126
212368 TTTGAAATAA
* * *
212378 TGGATGACTCATTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTTGTTGTGAAGTTGAAATC
1 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
*
212443 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCG
66 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
*
212504 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAACTC
1 TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
* * * * * *
212569 TATTCTAGAGTTGTATTGCTTC-TTGTGGGCACGATATCCTTCGTCGTTAAGTTAAAATCG
66 AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
* * *
212629 TGGATGGCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGAATATCTTTCGTCGTGAAGTTGAAAT
1 TGGATGGC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAAT
212693 C
65 C
212694 CAAGGATTGT
Statistics
Matches: 174, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
125 93 0.53
126 81 0.47
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.38
Consensus pattern (126 bp):
TGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
AAATCTAGAGCTGTATTGCTCCTTTGTGGGCACGATATCATTCGTCGTGAAGTTAAAATCG
Found at i:212751 original size:60 final size:62
Alignment explanation
Indices: 212658--212887 Score: 248
Period size: 65 Copynumber: 3.6 Consensus size: 62
212648 GAAGTTGAGC
* * * * * *
212658 TTTGAATTGAATATCTTTCGTCGTGAAGTTGAAATCCAA-GGAT-TGTTTCACAAAATTGGT
1 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATTGATATGTTTCACCAAATTGGT
*
212718 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
1 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAA--TTGA-TATGTTTCACCAAATTGGT
* * * * * * *
212783 TTTGTGTTGGATATCCTTCGCCGTGAAATTGAAATCCAATCTTATGTAAGTTTCACCAAATTGGA
1 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAAT-TGA--TATGTTTCACCAAATTGGT
* *
212848 TTTGTGATGGATATCCTTCGTCATGAAGTTGAAATCCAAT
1 TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAAT
212888 CTTGAGTAAG
Statistics
Matches: 146, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
60 35 0.24
63 3 0.02
64 3 0.02
65 105 0.72
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (62 bp):
TTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATTGATATGTTTCACCAAATTGGT
Found at i:212792 original size:65 final size:65
Alignment explanation
Indices: 212702--212898 Score: 315
Period size: 65 Copynumber: 3.0 Consensus size: 65
212692 TCCAAGGATT
* *
212702 GTTTCACAAAATTGGTTTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAA
1 GTTTCACCAAATTGGTTTTGTGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAA
* * *
212767 GTTTCACCAAATTGGTTTTGTGTTGGATATCCTTCGCCGTGAAATTGAAATCCAATCTT-ATGTA
1 GTTTCACCAAATTGGTTTTGTGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGA-GTA
212831 A
65 A
* *
212832 GTTTCACCAAATTGGATTTGTGATGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAA
1 GTTTCACCAAATTGGTTTTGTGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAA
212897 GT
1 GT
212899 GGCGTTGCTT
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.01
65 118 0.98
66 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (65 bp):
GTTTCACCAAATTGGTTTTGTGTTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTGAGTAA
Found at i:213138 original size:64 final size:64
Alignment explanation
Indices: 213061--213486 Score: 600
Period size: 64 Copynumber: 6.7 Consensus size: 64
213051 AAGTTGTTTC
* * * * * *
213061 GAGTCCAAAATACTTCGATATGAAGTTGAAATTGACTCTGAATTAAACTGGAAAGTTGTATGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* ** * * *
213125 GAGTCCAATATACTTTACTTTGAAGTTGAAATTGATTCTGAATAAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * * *
213189 GAGTCCAACATCTTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTATTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * * *
213253 TAGTCCAATATCCTTCGCTGTGAAATTGAAATTGACTCTAAATGAAATTGGAAAATTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
213317 GAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * *
213381 GAGTCCAATACCCTTTGCTGTGAAGTTGAAATTGACTCTGAGTGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
213445 GAGTCCAATATCCTTCGCTGTGAAGTTGAAAATGACTCTGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
213487 AGCTACAAAA
Statistics
Matches: 319, Mismatches: 43, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 319 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:219983 original size:3 final size:3
Alignment explanation
Indices: 219975--220045 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
219965 TGAGGCCTGG
219975 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
220023 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
220046 AAAATAAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:220786 original size:249 final size:250
Alignment explanation
Indices: 220462--221099 Score: 967
Period size: 249 Copynumber: 2.6 Consensus size: 250
220452 CAAATTGGCT
* * *
220462 TTAAGTTGAAATCCAATCTAGAGATGGA-TGCTTCTTGTGGGCACGATATCATTCGTCGTGAAGT
1 TTAAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGT
* * *
220526 TGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTGAATTGCATCTCCTTTGTCGTGAAG
66 TGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTCGTGAAG
* *
220591 TTGAAATCCAATCTAGAGATGGATT-TTGCTTGTGGGCACGATATCCTTCGTAATGAAGTTGAAA
131 TTGAAATCCAATCTAGAGATGGATTGCTGCTTGTGGGCACAATATCCTTCGTAATGAAGTTGAAA
* **
220655 TAGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTTGTTG
196 TAGTGGATGGCTCATTCATTATGAAGTTGAGCTTTGAATTAGATATCCTTCATTG
* *
220710 TTAAGTTGAAATCCAATCTAGAGTTGTATTGCTTTTTTTGGGCACGATATCCTTCGTCGTGAAGT
1 TTAAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGT
* * *
220775 TGGAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGAAG
66 TGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTCGTGAAG
* * * **
220840 TTGAAATCTAATCTAGAGTTGTATTGCTGCTTGTGGGCACAATATCCTTCGTCGTGAAGTTGAAA
131 TTGAAATCCAATCTAGAGATGGATTGCTGCTTGTGGGCACAATATCCTTCGTAATGAAGTTGAAA
* * *
220905 TTGTGGATGGCTCTTTCATTATGAAGTTGAGCTTTGAATTGGATATCCTTCATTG
196 TAGTGGATGGCTCATTCATTATGAAGTTGAGCTTTGAATTAGATATCCTTCATTG
* * *
220960 TGAAGTTGAAAT-CAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTTAAGT
1 TTAAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGT
* * ** *
221024 TGAAATCATGGATGGATCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCATCGTAAAG
66 TGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTCGTGAAG
221089 TTGAAATCCAA
131 TTGAAATCCAA
221100 GGATTGTTTC
Statistics
Matches: 350, Mismatches: 38, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
248 26 0.07
249 229 0.65
250 95 0.27
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (250 bp):
TTAAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGT
TGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGTCGTGAAG
TTGAAATCCAATCTAGAGATGGATTGCTGCTTGTGGGCACAATATCCTTCGTAATGAAGTTGAAA
TAGTGGATGGCTCATTCATTATGAAGTTGAGCTTTGAATTAGATATCCTTCATTG
Found at i:220802 original size:125 final size:125
Alignment explanation
Indices: 220464--221099 Score: 920
Period size: 124 Copynumber: 5.1 Consensus size: 125
220454 AATTGGCTTT
* * *
220464 AAGTTGAAATCCAATCTAGAGATGGA-TGCTTCTTGTGGGCACGATATCATTCGTCGTGAAGTTG
1 AAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* * * * *
220528 AAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCTTTGAATTGCATCTCCTTTGTCGTG
66 AAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
* * **
220588 AAGTTGAAATCCAATCTAGAGATGGATT--TTGCTTGTGGGCACGATATCCTTCGTAATGAAGTT
1 AAGTTGAAATCCAATCTAGAGTTGTATTGCTT-CTTGTGGGCACGATATCCTTCGTCGTGAAGTT
* * *
220651 GAAATAGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTAGATATCCTTTGTTGTT
65 GAAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
* *
220712 AAGTTGAAATCCAATCTAGAGTTGTATTGCTTTTTTTGGGCACGATATCCTTCGTCGTGAAGTTG
1 AAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
*
220777 GAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
66 AAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
* * *
220837 AAGTTGAAATCTAATCTAGAGTTGTATTGCTGCTTGTGGGCACAATATCCTTCGTCGTGAAGTTG
1 AAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* * * **
220902 AAATTGTGGATGGCTCTTTCATTATGAAGTTGAGCTTTGAATTGGATATCCTTCATTGTG
66 AAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
* *
220962 AAGTTGAAAT-CAATCTAGAGTTGTATTGCTGCTTGTGGGCACGATATCCTTCGTCGTTAAGTTG
1 AAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* * * ** * *
221026 AAATCATGGATGGATCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCATCGTA
66 AAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
221086 AAGTTGAAATCCAA
1 AAGTTGAAATCCAA
221100 GGATTGTTTC
Statistics
Matches: 464, Mismatches: 43, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
123 2 0.00
124 247 0.53
125 213 0.46
126 2 0.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (125 bp):
AAGTTGAAATCCAATCTAGAGTTGTATTGCTTCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
AAATCGTGGATGGCTCATTCGTTATGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTG
Found at i:221154 original size:60 final size:63
Alignment explanation
Indices: 221061--221286 Score: 242
Period size: 65 Copynumber: 3.6 Consensus size: 63
221051 GAAGTTGAGC
* * *
221061 TTTGAATTGGATATCCTTCATCGTAAAGTTGAAATCCAA-GGA-T-TGTTTCACAAAATTGGT
1 TTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCCAATGGAGTAAGTTTCACAAAATTGGT
* * * *
221121 TTTGAGTTGGATATCCTTCACCATGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
1 TTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCCAA--TGGAGTAAGTTTCACAAAATTGGT
* * ** * * *
221186 TTTGTGTTGGATATCTTTTGTCGTGAAGTTGAAATCCAATATTGAGTAAGTTTCACCAAATTGGA
1 TTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCC-A-ATGGAGTAAGTTTCACAAAATTGGT
* **
221251 TTTGCGTTGGATATCCTTTGTCGTGAAGTTGAAATC
1 TTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATC
221287 TAATCTTGAG
Statistics
Matches: 143, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
60 35 0.24
63 2 0.01
64 1 0.01
65 103 0.72
66 1 0.01
67 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (63 bp):
TTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCCAATGGAGTAAGTTTCACAAAATTGGT
Found at i:221199 original size:65 final size:65
Alignment explanation
Indices: 221105--221301 Score: 295
Period size: 65 Copynumber: 3.0 Consensus size: 65
221095 TCCAAGGATT
* *** *
221105 GTTTCACAAAATTGGTTTTGAGTTGGATATCCTTCACCATGAAGTTGAAATCCAATCTTGAGTAA
1 GTTTCACCAAATTGGTTTTGAGTTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTTGAGTAA
* * *
221170 GTTTCACCAAATTGGTTTTGTGTTGGATATCTTTTGTCGTGAAGTTGAAATCCAATATTGAGTAA
1 GTTTCACCAAATTGGTTTTGAGTTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTTGAGTAA
* * *
221235 GTTTCACCAAATTGGATTTGCGTTGGATATCCTTTGTCGTGAAGTTGAAATCTAATCTTGAGTAA
1 GTTTCACCAAATTGGTTTTGAGTTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTTGAGTAA
221300 GT
1 GT
221302 GGCGTTGCTT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 119 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (65 bp):
GTTTCACCAAATTGGTTTTGAGTTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTTGAGTAA
Found at i:221557 original size:64 final size:64
Alignment explanation
Indices: 221464--221600 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 64
221454 AAGTTGTTTC
* * * *
221464 GAGTCCAAAATCATTCGCTGTGAAGTTGAAATTAACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCATTCGCTGTGAACTTGAAATTAACTCTGAATGAAACTGAAAAGTTATTTGTT
* * *
221528 GAGTCCAATATCCTTCGTTGTGAACTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTT
1 GAGTCCAATATCATTCGCTGTGAACTTGAAATTAACTCTGAATGAAACTGAAAAGTTATTTGTT
221592 GAGTCCAAT
1 GAGTCCAAT
221601 TGATAACTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (64 bp):
GAGTCCAATATCATTCGCTGTGAACTTGAAATTAACTCTGAATGAAACTGAAAAGTTATTTGTT
Found at i:233546 original size:64 final size:64
Alignment explanation
Indices: 233431--233724 Score: 471
Period size: 64 Copynumber: 4.6 Consensus size: 64
233421 CAAGCGATTA
* * * * *
233431 CCAAGATCTTTCGATGTGAACTTGAAATTGACTCCGAATGAAACTGGAAAGTTGTTTGTTGAGT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
*
233495 CCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
* * * *
233559 CCAATACCCTTCGTTGTGATGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
* *
233623 CCAATACCCTTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTGTTTGTTGAGT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
*
233687 CCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
233725 AGTTGCAAAA
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 214 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (64 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGT
Found at i:237328 original size:9 final size:9
Alignment explanation
Indices: 237314--237346 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
237304 GAAAAAATAT
237314 TAATAAAAA
1 TAATAAAAA
237323 TAATAAAAA
1 TAATAAAAA
237332 TAA-AAATAA
1 TAATAAA-AA
237341 TAATAA
1 TAATAA
237347 TAAAGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 17 0.77
10 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAATAAAAA
Found at i:237332 original size:21 final size:21
Alignment explanation
Indices: 237306--237350 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
237296 ATGGGGCTGA
**
237306 AAAAATATTAATAAAAATAAT
1 AAAAATAAAAATAAAAATAAT
*
237327 AAAAATAAAAATAATAATAAT
1 AAAAATAAAAATAAAAATAAT
237348 AAA
1 AAA
237351 GAAATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATAAAAATAAAAATAAT
Found at i:237360 original size:15 final size:16
Alignment explanation
Indices: 237314--237360 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
237304 GAAAAAATAT
237314 TAATAAAAATAATAAA
1 TAATAAAAATAATAAA
237330 -AATAAAAATAAT-AA
1 TAATAAAAATAATAAA
*
237344 TAATAAAGA-AATAAA
1 TAATAAAAATAATAAA
237359 TA
1 TA
237361 TATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
TAATAAAAATAATAAA
Found at i:237898 original size:24 final size:24
Alignment explanation
Indices: 237871--237922 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
237861 AATTCCTACA
237871 AAAGCAAAACCAATTAAAATGAAT
1 AAAGCAAAACCAATTAAAATGAAT
* *
237895 AAAGCAATACCAATTCAAATGAAT
1 AAAGCAAAACCAATTAAAATGAAT
237919 AAAG
1 AAAG
237923 AAATGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAGCAAAACCAATTAAAATGAAT
Found at i:238099 original size:2 final size:2
Alignment explanation
Indices: 238092--238159 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
238082 ATATTATTAT
238092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
238134 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
238160 CCCAAAATAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:250679 original size:5 final size:5
Alignment explanation
Indices: 250652--250741 Score: 80
Period size: 5 Copynumber: 17.8 Consensus size: 5
250642 GCTACACCTA
*
250652 AAAAG AAAA- AAAATG AAAA- AAAAG AAAA- AAAA- AGAAG AAAAGG AAAAAG
1 AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G -AAAAG
* *
250701 AAAATA AAAAG AAAAGG AAATG AAAAG AAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG AAAA
250742 TGAGAGGTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
4 15 0.21
5 38 0.54
6 14 0.20
7 4 0.06
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:251416 original size:19 final size:19
Alignment explanation
Indices: 251392--251435 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
251382 AAAAAATCAA
251392 AAGCATATCATGCATACTC
1 AAGCATATCATGCATACTC
251411 AAGCATATCATGCATACTC
1 AAGCATATCATGCATACTC
251430 AAGCAT
1 AAGCAT
251436 TTACTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (19 bp):
AAGCATATCATGCATACTC
Found at i:251435 original size:10 final size:9
Alignment explanation
Indices: 251392--251435 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
251382 AAAAAATCAA
251392 AAGCATATC
1 AAGCATATC
*
251401 ATGCATACTC
1 AAGCATA-TC
251411 AAGCATATC
1 AAGCATATC
*
251420 ATGCATACTC
1 AAGCATA-TC
251430 AAGCAT
1 AAGCAT
251436 TTACTGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (9 bp):
AAGCATATC
Found at i:251834 original size:89 final size:91
Alignment explanation
Indices: 251673--251937 Score: 383
Period size: 89 Copynumber: 2.9 Consensus size: 91
251663 ATAAACCAAT
* * * *
251673 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAACAAAAAGTTCATAA
1 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAA
*
251738 TGAGAAGAACTTGTTCAACCTT-GCAT
66 TGAGAAGAACTTGTTCAACCTTAG-AC
* *
251764 TAACATTTCCAGTGGAGAGTTCATAATGA-AA-AACTCATCCAATGAGGGAGAAGAAGTTGATAA
1 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAA
*
251827 TGAGAAGAACTTATTCAACCTTAGAC
66 TGAGAAGAACTTGTTCAACCTTAGAC
* * * * *
251853 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAAGTCATCCGATGAGAGAGAAGTAGCTCATAA
1 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAA
251918 TGAGAAGAACTTGTTCAACC
66 TGAGAAGAACTTGTTCAACC
251938 CAATACGTCA
Statistics
Matches: 155, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
89 77 0.50
90 5 0.03
91 73 0.47
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (91 bp):
CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTAGAC
Found at i:253175 original size:2 final size:2
Alignment explanation
Indices: 253168--253198 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
253158 TATTATTTTA
253168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
253199 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:257534 original size:24 final size:24
Alignment explanation
Indices: 257506--257554 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
257496 GTTTCCAAAC
257506 AAATTTTAGCAAGATGGCAAACCA
1 AAATTTTAGCAAGATGGCAAACCA
* *
257530 AAATTTTTGCAAGATGGGAAACCA
1 AAATTTTAGCAAGATGGCAAACCA
257554 A
1 A
257555 TTTAAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.22
Consensus pattern (24 bp):
AAATTTTAGCAAGATGGCAAACCA
Found at i:262849 original size:18 final size:18
Alignment explanation
Indices: 262828--262866 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
262818 TTCTAAATTT
262828 AAAAAGAAA-AAATGAAAA
1 AAAAAGAAAGAAAT-AAAA
*
262846 AAAATGAAAGAAATAAAA
1 AAAAAGAAAGAAATAAAA
262864 AAA
1 AAA
262867 CAATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAAAGAAAGAAATAAAA
Found at i:263951 original size:20 final size:20
Alignment explanation
Indices: 263926--263964 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
263916 ACAAAAAAAG
*
263926 AAAAAAGAA-TAATAAATAAT
1 AAAAAA-AATTAAAAAATAAT
263946 AAAAAAAATTAAAAAATAA
1 AAAAAAAATTAAAAAATAA
263965 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAAAAATTAAAAAATAAT
Found at i:264108 original size:36 final size:36
Alignment explanation
Indices: 264064--264411 Score: 466
Period size: 37 Copynumber: 9.5 Consensus size: 36
264054 AACTATAAAT
* *
264064 TATATATTATATAAGTTTTCAATATATTTTAAAAAC
1 TATATATTATATAATTTTTCAAAATATTTTAAAAAC
* * *
264100 TATTTATTATAGAAGTTTTCAAAATATTTTTAAAAAC
1 TATATATTATATAATTTTTCAAAATA-TTTTAAAAAC
* * *
264137 TATATATTATAGAAGTTTTCAAAAATGTTTTAAAAAAC
1 TATATATTATATAATTTTTC-AAAATATTTT-AAAAAC
** *
264175 TATATATTATATATATTTTGAAAAATATTTTCAAAAC
1 TATATATTATATA-ATTTTTCAAAATATTTTAAAAAC
*
264212 TATATATTATATAA-TTTTCAAAATCTTTTAAAAAC
1 TATATATTATATAATTTTTCAAAATATTTTAAAAAC
*
264247 TATATATTATATAATTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATAATTTTTCAAAATATTTTAAAAAC
*
264283 TATATATTATATAATTTTTCAAAAATGTTTTAAAAAC
1 TATATATTATATAATTTTTC-AAAATATTTTAAAAAC
*
264320 TATATATTATATAATTTTTCAAAATATTTTCAGAAAC
1 TATATATTATATAATTTTTCAAAATATTTT-AAAAAC
*
264357 TATATATTATATAATTTTTCAAAATGATTTCAAAAAC
1 TATATATTATATAATTTTTCAAAAT-ATTTTAAAAAC
264394 TATATA-TATATACATTTT
1 TATATATTATATA-ATTTT
264412 AAAAAATCGT
Statistics
Matches: 283, Mismatches: 20, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
35 31 0.11
36 79 0.28
37 133 0.47
38 36 0.13
39 4 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATTATATAATTTTTCAAAATATTTTAAAAAC
Found at i:264145 original size:37 final size:37
Alignment explanation
Indices: 263967--264411 Score: 444
Period size: 37 Copynumber: 11.8 Consensus size: 37
263957 AAAAATAAAT
* * *
263967 TATTTTTTAAAACTATATTTTATAT-ATGATTTTAAAAA
1 TATTTTTAAAAACTATATATTATATAAT--TTTTCAAAA
* * *
264005 AATGTTTTCAAAAACCATATAATATA-ATATATTTTCAAAAA
1 TAT-TTTT-AAAAACTATATATTATATA-AT-TTTTC-AAAA
* * * *
264046 TATTTTAAAACTATAAATTATATATTATATAAGTTTTCAATA
1 TATTTT-----TAAAAACTATATATTATATAATTTTTCAAAA
* * *
264088 TA-TTTTAAAAACTATTTATTATAGAAGTTTTCAAAA
1 TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
* *
264124 TATTTTTAAAAACTATATATTATAGAAGTTTTCAAAA
1 TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
**
264161 -ATGTTTTAAAAAACTATATATTATATATATTTTGAAAAA
1 TAT-TTTT-AAAAACTATATATTATATA-ATTTTTCAAAA
*
264200 TA-TTTTCAAAACTATATATTATATAA-TTTTCAAAA
1 TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
*
264235 T-CTTTTAAAAACTATATATTATATAATTTTTCAAAA
1 TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
*
264271 T-GTTTTAAAAACTATATATTATATAATTTTTCAAAA
1 TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
264307 -ATGTTTTAAAAACTATATATTATATAATTTTTCAAAA
1 TAT-TTTTAAAAACTATATATTATATAATTTTTCAAAA
* *
264344 TATTTTCAGAAACTATATATTATATAATTTTTCAAAA
1 TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
*
264381 TGA-TTTCAAAAACTATATA-TATATACATTTT
1 T-ATTTTTAAAAACTATATATTATATA-ATTTT
264412 AAAAAATCGT
Statistics
Matches: 352, Mismatches: 32, Indels: 47
0.82 0.07 0.11
Matches are distributed among these distances:
35 31 0.09
36 81 0.23
37 142 0.40
38 27 0.08
39 12 0.03
40 22 0.06
41 11 0.03
42 5 0.01
43 5 0.01
44 14 0.04
45 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
TATTTTTAAAAACTATATATTATATAATTTTTCAAAA
Found at i:264154 original size:73 final size:73
Alignment explanation
Indices: 264064--264411 Score: 461
Period size: 73 Copynumber: 4.7 Consensus size: 73
264054 AACTATAAAT
* * * *
264064 TATATATTATATAAGTTTTCAATATATTTTAAAAACTATTTATTATAGAAGTTTTCAAAATATTT
1 TATATATTATATAAGTTTTCAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATATTT
264129 TTAAAAAC
66 TTAAAAAC
* * **
264137 TATATATTATAGAAGTTTTCAAAAATGTTTTAAAAAACTATATATTATATATATTTTGAAAAATA
1 TATATATTATATAAGTTTTC-AAAATATTTT-AAAAACTATATATTATATA-ATTTTTCAAAATA
*
264202 -TTTTCAAAAC
63 TTTTTAAAAAC
* *
264212 TATATATTATATAA-TTTTCAAAATCTTTTAAAAACTATATATTATATAATTTTTCAAAAT-GTT
1 TATATATTATATAAGTTTTCAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATATTT
264275 TTAAAAAC
66 TTAAAAAC
* *
264283 TATATATTATATAATTTTTCAAAAATGTTTTAAAAACTATATATTATATAATTTTTCAAAATATT
1 TATATATTATATAAGTTTTC-AAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATATT
* *
264348 TTCAGAAAC
65 TTTAAAAAC
* *
264357 TATATATTATATAATTTTTCAAAATGATTTCAAAAACTATATA-TATATACATTTT
1 TATATATTATATAAGTTTTCAAAAT-ATTTTAAAAACTATATATTATATA-ATTTT
264412 AAAAAATCGT
Statistics
Matches: 246, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
71 33 0.13
72 24 0.10
73 79 0.32
74 61 0.25
75 39 0.16
76 10 0.04
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (73 bp):
TATATATTATATAAGTTTTCAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATATTT
TTAAAAAC
Found at i:264437 original size:110 final size:106
Alignment explanation
Indices: 264104--264437 Score: 397
Period size: 110 Copynumber: 3.0 Consensus size: 106
264094 AAAAACTATT
* * *
264104 TATTATAGAAGTTTTCAAAATATTTTTAAAAACTATATATTATAGAAGTTTTCAAAAATGTTTTA
1 TATTATATAA-TTTTCAAAATA-TTTTAAAAACTATATATTATATAATTTTTC-AAAATG-TTTA
* * *
264169 AAAAACTATATATTATATATATTTTGAAAAATATTTTC-AAAACTATA
62 AAAAACTATATATTATATA-ATTTTAAAAAATGTTTTCTAAAA--AAA
* *
264216 TATTATATAATTTTCAAAATCTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTTAAAA
1 TATTATATAATTTTCAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTAAAAA
*
264281 ACTATATATTATATAATTTTTCAAAAATG-TTT-TAAAAACTATA
66 ACTATATATTATATAA-TTTTAAAAAATGTTTTCTAAAAA--A-A
* *
264324 TATTATATAATTTTTCAAAATATTTTCAGAAACTATATATTATATAATTTTTCAAAATGATTTCA
1 TATTATATAA-TTTTCAAAATATTTT-AAAAACTATATATTATATAATTTTTCAAAATG-TTTAA
264389 AAAACTATATA-TATATACATTTTAAAAAATCGTTTTCTAAAAAAA
63 AAAACTATATATTATATA-ATTTTAAAAAAT-GTTTTCTAAAAAAA
264434 TATT
1 TATT
264438 TTCAAAAATT
Statistics
Matches: 198, Mismatches: 12, Indels: 26
0.84 0.05 0.11
Matches are distributed among these distances:
105 1 0.01
107 8 0.04
108 43 0.22
109 20 0.10
110 80 0.40
111 28 0.14
112 12 0.06
113 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (106 bp):
TATTATATAATTTTCAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTAAAAA
ACTATATATTATATAATTTTAAAAAATGTTTTCTAAAAAAA
Found at i:265125 original size:85 final size:85
Alignment explanation
Indices: 265022--265851 Score: 1040
Period size: 85 Copynumber: 9.8 Consensus size: 85
265012 ATGAGTCATC
* * * * * * ** * * *
265022 GAGCTGAATGGAATCGAACTC-AACAGTTTTCGTTGATAGATAGCTTTTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAA-GGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATG
*
265086 CTGTAAATTTGATGTGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * *
265107 GAGCTGAATGGAATCGAACTCGAAGG---T-ATTGACAAATAACCCTTCTCGCCTTGAGTTATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
* *
265168 TATAAATTTGATATGTCTTT
66 TGTAAATTTGATATGCCTTT
* ** * * *
265188 GAGCTAAGTGTAATAAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTTTCGCCTTGAGCTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
* *
265253 TGCAAATTTGATATGCATTT
66 TGTAAATTTGATATGCCTTT
* * * * * *
265273 GAGCTGAGTGTAATCGAACTTGAAGGTCTTGGTTAACAAATAACCCTTCTCACCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
265338 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * *
265358 GAGCTGAGTTTAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
* *
265423 TATAAATTTGATATGCCTTC
66 TGTAAATTTGATATGCCTTT
* * * *
265443 AATCTGAGTATAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
*
265508 TGCAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
265528 AAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAGATAGACCTCCTCGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
*
265593 TGCAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
265613 GTGCTGAGTGTAATCGAACTCGAATGTCTTTTGTTGACAGATAACCCTTTTCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATG
265678 CTGTAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
*
265699 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACATATAGCCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
265764 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * *
265784 GAGCTGAGTGTAATCGAACACGAAGGTCTTGGTTGATAGGTATCCCTTCTCGCCTTGAGATACGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
265849 TGT
66 TGT
265852 CAATAGTTCC
Statistics
Matches: 650, Mismatches: 89, Indels: 12
0.87 0.12 0.02
Matches are distributed among these distances:
81 62 0.10
82 1 0.00
84 1 0.00
85 509 0.78
86 77 0.12
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (85 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGC
TGTAAATTTGATATGCCTTT
Found at i:267313 original size:95 final size:95
Alignment explanation
Indices: 267098--267360 Score: 312
Period size: 95 Copynumber: 2.7 Consensus size: 95
267088 GTCTAGCTGG
* * * * * *
267098 ATCCATAAAGCCGGGGCGTTTAACCAGTTGCTCTAGAGAGACAGCTCAATATCATTGTA-TAGAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTATAT
*
267162 ATTATAATTACCTTTATCAGGCTAGCTAAATATT
62 ATTATAATCACCTTTATCAGGCTAGCTAAATATT
*
267196 ATCCATAAATCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTATATATTA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTATATATTA
* ** *
267261 TAATCATCTTTATCAGGCTAGCTGGATTTT
66 TAATCACCTTTATCAGGCTAGCTAAATATT
* * ** * *
267291 ATCCATAAAGCTAGGGCATTTAACCAATTAATTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTATATAT-T
267356 ATAAT
65 ATAAT
267361 ATTATAATTT
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
94 2 0.01
95 91 0.63
96 8 0.06
97 1 0.01
98 42 0.29
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTATATATTA
TAATCACCTTTATCAGGCTAGCTAAATATT
Found at i:273920 original size:24 final size:24
Alignment explanation
Indices: 273891--273942 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
273881 AATTCCTACA
*
273891 AAAGCAAGACCAATTCAAATTAAT
1 AAAGCAAGACCAATTCAAATGAAT
273915 AAAGCAAGACCAATTCAAATGAAT
1 AAAGCAAGACCAATTCAAATGAAT
273939 AAAG
1 AAAG
273943 AAATGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.17
Consensus pattern (24 bp):
AAAGCAAGACCAATTCAAATGAAT
Found at i:274112 original size:2 final size:2
Alignment explanation
Indices: 274101--274154 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
274091 ACCATTTTCA
274101 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
274141 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
274155 TAAAAACCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:275296 original size:14 final size:13
Alignment explanation
Indices: 275263--275313 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
275253 ATGTTTAGTT
275263 TATTTTTATTTTA
1 TATTTTTATTTTA
275276 TGA-TTTTATTTTA
1 T-ATTTTTATTTTA
275289 CTATTTTTA-TTTA
1 -TATTTTTATTTTA
*
275302 T-TTATTATTTTA
1 TATTTTTATTTTA
275314 ATTATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 16 0.48
14 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TATTTTTATTTTA
Found at i:284376 original size:11 final size:11
Alignment explanation
Indices: 284361--284480 Score: 95
Period size: 11 Copynumber: 10.8 Consensus size: 11
284351 ATTACGCCTA
*
284361 AAAAGAAAAAA
1 AAAAGAAAAAG
284372 AAAAGAAAAA-
1 AAAAGAAAAAG
*
284382 TAAAGAAATAA-
1 AAAAGAAA-AAG
*
284393 AAAAG-AAGA-
1 AAAAGAAAAAG
* *
284402 AAAATAAAAGG
1 AAAAGAAAAAG
* *
284413 AAATGAAAAGG
1 AAAAGAAAAAG
*
284424 AAAAGGAAAAGG
1 AAAA-GAAAAAG
284436 AAAAGGAAAAAG
1 AAAA-GAAAAAG
284448 AACAAGAAAAAG
1 AA-AAGAAAAAG
284460 AAAAGAAAAAG
1 AAAAGAAAAAG
284471 AAAACGAAAA
1 AAAA-GAAAA
284481 TGGGAGGCAT
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
9 5 0.05
10 11 0.12
11 41 0.44
12 34 0.37
13 2 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:284381 original size:12 final size:12
Alignment explanation
Indices: 284360--284480 Score: 52
Period size: 12 Copynumber: 9.8 Consensus size: 12
284350 TATTACGCCT
284360 AAAAAG-AAAAA
1 AAAAAGAAAAAA
284371 AAAAAG--AAAA
1 AAAAAGAAAAAA
*
284381 ATAAAGAAATAAA
1 AAAAAGAAA-AAA
*
284394 AAAGAAGAAAAAT
1 AAA-AAGAAAAAA
*
284407 AAAAGGAAATGAAA
1 AAAAAGAAA--AAA
**
284421 AGGAAAAGGAAAAGG
1 A--AAAA-GAAAAAA
* *
284436 AAAAGGAAAAAG
1 AAAAAGAAAAAA
*
284448 AACAAG-AAAAA
1 AAAAAGAAAAAA
* *
284459 GAAAAGAAAAAG
1 AAAAAGAAAAAA
*
284471 AAAACGAAAA
1 AAAAAGAAAA
284481 TGGGAGGCAT
Statistics
Matches: 82, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
10 9 0.11
11 14 0.17
12 28 0.34
13 13 0.16
14 9 0.11
15 2 0.02
16 3 0.04
17 4 0.05
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:284426 original size:6 final size:6
Alignment explanation
Indices: 284407--284480 Score: 73
Period size: 6 Copynumber: 12.7 Consensus size: 6
284397 GAAGAAAAAT
* *
284407 AAAAGG -AAATG AAAAGG AAAAGG AAAAGG AAAAGG AAAAAG AACAA-G
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AA-AAGG
* * *
284454 AAAAAG AAAA-G AAAAAG AAAACG AAAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAA
284481 TGGGAGGCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
5 11 0.18
6 47 0.78
7 2 0.03
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.01
Consensus pattern (6 bp):
AAAAGG
Found at i:284794 original size:19 final size:19
Alignment explanation
Indices: 284772--284813 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
284762 TTAGCGTGCC
284772 ACAAGTAACCTAGCATAAT
1 ACAAGTAACCTAGCATAAT
284791 ACAAGTAACCTAGCATAAT
1 ACAAGTAACCTAGCATAAT
284810 ACAA
1 ACAA
284814 ATTCATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (19 bp):
ACAAGTAACCTAGCATAAT
Found at i:285348 original size:20 final size:20
Alignment explanation
Indices: 285286--285348 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
285276 CAATAGAGAG
*
285286 TTCATAATGAGAAGAACTCA
1 TTCATAATGAGAAGAACTAA
* *
285306 -TC-CAATGAGGAAGAA-GAA
1 TTCATAATGA-GAAGAACTAA
*
285324 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTAA
285345 TTCA
1 TTCA
285349 ACCTTGCATC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 12 0.38
21 6 0.19
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTAA
Found at i:285418 original size:88 final size:91
Alignment explanation
Indices: 285266--285531 Score: 396
Period size: 88 Copynumber: 3.0 Consensus size: 91
285256 GATAAACCAG
*
285266 TCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATA
1 TCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
285331 ATGAGAAGAACTTATTCAACCTT-GCA
66 ATGAGAAGAACTTGTTCAACCTTAG-A
* *
285357 TCAACATTTCCAGT-GAGAGTTCATAATGAG-A-AACTCATCCAACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
285419 ATGTGAAGAACTTGTTCAACCTTAGA
66 ATGAGAAGAACTTGTTCAACCTTAGA
* * * * * *
285445 CCAACATTTCCAATGGAGAGTTCATAATGAGAAGAAGTCATCCGATGAGGGAGAAGCAGCTCATA
1 TCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
285510 ATGAGAAGAACTTGTTCAACCT
66 ATGAGAAGAACTTGTTCAACCT
285532 AACACCTCAC
Statistics
Matches: 158, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
88 63 0.40
89 18 0.11
90 17 0.11
91 60 0.38
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (91 bp):
TCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGA
Found at i:285669 original size:116 final size:115
Alignment explanation
Indices: 285446--285762 Score: 354
Period size: 116 Copynumber: 2.7 Consensus size: 115
285436 AACCTTAGAC
* * *
285446 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAAGTCATCCGATGAGGGAGAAGCAGCTCATAA
1 CAACATTTCCAATGGAGA-TTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAA
* * * *
285511 TGAGAAGAACTTGTTCAACCTAACACCTCACTTGAGGGAGAAG-AACTTGTT
65 TGAGAAGAACTTGTTCAACCTAACACCTCACTTCA-GCAGAAGAAACTGGAT
285562 CAACATTTTCC-ATGGAGATCTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
1 CAACA-TTTCCAATGGAGAT-TCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * ** *
285626 ATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCTATCA-CAGAAGAAAGTGGAT
64 ATGAGAAGAACTTGTTCAACC-TAACACCTCACT-TCAGCAGAAGAAACTGGAT
* * * * *
285679 CAACATTTCCAATGGAAGGGTTCGTAATGGGAAGAACTCA-CTTGACGAGGGAGAAGAAGTTCAT
1 CAACATTTCCAATGG-A-GATTCATAATGAGAAGAACTCATC-CGATGAGGGAGAAGAAGTTCAT
*
285743 AACGAGAAGAACTTGTTCAA
63 AATGAGAAGAACTTGTTCAA
285763 ATTTGCTTTG
Statistics
Matches: 173, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
115 1 0.01
116 84 0.49
117 27 0.16
118 59 0.34
119 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (115 bp):
CAACATTTCCAATGGAGATTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTAACACCTCACTTCAGCAGAAGAAACTGGAT
Found at i:285946 original size:12 final size:13
Alignment explanation
Indices: 285929--285992 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 13
285919 ATTTTTCAAA
285929 ATTATTATTAT-T
1 ATTATTATTATAT
285941 ATTATTATTAT-T
1 ATTATTATTATAT
*
285953 -TTAATATATATAT
1 ATTATTAT-TATAT
285966 ATATATATATATATAT
1 AT-TAT-TAT-TATAT
285982 ATATATTATTA
1 AT-TATTATTA
285993 CAAACCCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
11 6 0.13
12 15 0.33
13 1 0.02
14 3 0.07
15 5 0.11
16 15 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATTATTATAT
Found at i:285963 original size:2 final size:2
Alignment explanation
Indices: 285956--285987 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
285946 TATTATTTTA
285956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
285988 TATTACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:293356 original size:18 final size:18
Alignment explanation
Indices: 293330--293369 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
293320 TGGAAAGGCG
* *
293330 GCGGTATCATATATGGCT
1 GCGGCATCATAAATGGCT
293348 GCGGCATCATAAATGGCT
1 GCGGCATCATAAATGGCT
293366 GCGG
1 GCGG
293370 TGGCTGCTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (18 bp):
GCGGCATCATAAATGGCT
Found at i:295051 original size:17 final size:18
Alignment explanation
Indices: 295031--295071 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
295021 CAATTATATT
295031 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
295048 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
295066 ATTAAA
1 AGTAAA
295072 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:295126 original size:12 final size:12
Alignment explanation
Indices: 295111--295142 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
295101 ACCTTAAATA
295111 GAGAGAATATTT
1 GAGAGAATATTT
295123 GAGAG-A-ATTT
1 GAGAGAATATTT
295133 GAGAGAATAT
1 GAGAGAATAT
295143 GGTGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (12 bp):
GAGAGAATATTT
Found at i:300172 original size:24 final size:24
Alignment explanation
Indices: 300097--300172 Score: 134
Period size: 24 Copynumber: 3.2 Consensus size: 24
300087 TATTCCTACA
*
300097 AAAGCAAGACCAATTTAAATGAAT
1 AAAGCAAGACCAATTCAAATGAAT
*
300121 AAAACAAGACCAATTCAAATGAAT
1 AAAGCAAGACCAATTCAAATGAAT
300145 AAAGCAAGACCAATTCAAATGAAT
1 AAAGCAAGACCAATTCAAATGAAT
300169 AAAG
1 AAAG
300173 AAATGAAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (24 bp):
AAAGCAAGACCAATTCAAATGAAT
Found at i:312530 original size:7 final size:7
Alignment explanation
Indices: 312518--312618 Score: 62
Period size: 6 Copynumber: 15.6 Consensus size: 7
312508 ACTACGCCTA
312518 AAAAGAG
1 AAAAGAG
312525 -AAA-AG
1 AAAAGAG
312530 AAAAGA-
1 AAAAGAG
*
312536 AAAGAAAG
1 AAA-AGAG
312544 AAAA-AG
1 AAAAGAG
312550 AAAA-A-
1 AAAAGAG
312555 AAAAGA-
1 AAAAGAG
*
312561 AAAAGAA
1 AAAAGAG
312568 AAAAG-G
1 AAAAGAG
312574 AAAA-AG
1 AAAAGAG
*
312580 AAAAAAGG
1 AAAAGA-G
312588 AAAA-AG
1 AAAAGAG
*
312594 AAAAGAA
1 AAAAGAG
312601 AAAAGA-
1 AAAAGAG
312607 AAAAGAAG
1 AAAAG-AG
312615 AAAA
1 AAAA
312619 AAAGGAAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 23
0.75 0.03 0.22
Matches are distributed among these distances:
5 6 0.08
6 42 0.53
7 19 0.24
8 12 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:312572 original size:50 final size:55
Alignment explanation
Indices: 312525--312647 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 55
312515 CTAAAAAGAG
312525 AAAAGAAAAGAAAAG-AAAG-AAAAAGAAAAA-AA-AAGAAAAA-GAAAAAAG-GA
1 AAAAGAAAAGAAAAGAAAAGAAAAAAGAAAAAGAAGAA-AAAAAGGAAAAAAGAGA
312575 AAAAGAAAAAAGGAAAAAGAAAAGAAAAAAGAAAAAGAAGAAAAAAAGGAAAAAA-ATGA
1 AAAAG--AAAA-G-AAAAGAAAAGAAAAAAGAAAAAGAAGAAAAAAAGGAAAAAAGA-GA
312634 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
312648 TGAGAGTTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
50 5 0.08
52 4 0.06
53 1 0.02
54 5 0.08
55 8 0.13
56 12 0.19
57 11 0.18
58 9 0.15
59 7 0.11
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (55 bp):
AAAAGAAAAGAAAAGAAAAGAAAAAAGAAAAAGAAGAAAAAAAGGAAAAAAGAGA
Done.