Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005381.1 Hibiscus syriacus cultivar Beakdansim tig00012307_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: 351681
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:844 original size:18 final size:17
Alignment explanation
Indices: 804--845 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
794 CATTGATCAG
*
804 AACAAGAAACATCAAGC
1 AACAAGAAACATCAAGA
821 AACAAGAAATCAT-AGAGA
1 AACAAGAAA-CATCA-AGA
839 AACAAGA
1 AACAAGA
846 GAGAAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.07
Consensus pattern (17 bp):
AACAAGAAACATCAAGA
Found at i:6411 original size:20 final size:19
Alignment explanation
Indices: 6375--6412 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6365 TTTTGGTGCA
*
6375 GAGGGAATCGATCCCCCCT
1 GAGGGAACCGATCCCCCCT
*
6394 GAGGGAACCGATTCCCCCT
1 GAGGGAACCGATCCCCCCT
6413 TTGAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.37, G:0.26, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATCCCCCCT
Found at i:8400 original size:9 final size:8
Alignment explanation
Indices: 8378--8428 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
8368 TGTTTCAACA
8378 TTTTGGAT
1 TTTTGGAT
8386 ATTTTGGAT
1 -TTTTGGAT
8395 TGTTT-GAT
1 T-TTTGGAT
8403 TTTGTGGAT
1 TTT-TGGAT
*
8412 TGTTGGA-
1 TTTTGGAT
8419 TTTTGGAT
1 TTTTGGAT
8427 TT
1 TT
8429 ATGAATAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:8412 original size:17 final size:17
Alignment explanation
Indices: 8380--8423 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
8370 TTTCAACATT
8380 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
8397 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
8414 TTGGATTTTG
1 TTGGATTTTG
8424 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:9196 original size:75 final size:76
Alignment explanation
Indices: 9010--9216 Score: 292
Period size: 77 Copynumber: 2.7 Consensus size: 76
9000 CAAAGCCAAA
* * * **
9010 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCTCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCC-CCCTAAACAGT
9075 TTTGGCCCCGAG
65 TTTGGCCCCGAG
*
9087 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
*
9152 TT-GCTCCGAG
66 TTGGCCCCGAG
* * * *
9162 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
9217 CATTGTACAA
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
74 17 0.14
75 40 0.34
76 12 0.10
77 49 0.42
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGGCCCCGAG
Found at i:9455 original size:18 final size:17
Alignment explanation
Indices: 9415--9456 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
9405 CATTGATCAG
*
9415 AACAAGAAACATCAAGC
1 AACAAGAAACATCAAGA
9432 AACAAGAAATCAT-AGAGA
1 AACAAGAAA-CATCA-AGA
9450 AACAAGA
1 AACAAGA
9457 GAGAAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.07
Consensus pattern (17 bp):
AACAAGAAACATCAAGA
Found at i:10847 original size:12 final size:12
Alignment explanation
Indices: 10830--10854 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10820 TCTTCGGGGA
10830 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10842 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10854 C
1 C
10855 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:11006 original size:24 final size:24
Alignment explanation
Indices: 10972--11018 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10962 CTGAAACATC
10972 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAT
* *
10996 ATCAAAGTCCGGGTATTGACCAA
1 ATCAAAATCCGAGTATTGACCAA
11019 GATGAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAT
Found at i:11736 original size:20 final size:20
Alignment explanation
Indices: 11711--11942 Score: 207
Period size: 20 Copynumber: 11.4 Consensus size: 20
11701 AAATTTCAGT
11711 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
* *
11731 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCTC
*
11751 GTTGCGATTTACAGATTATC
1 GTTGCGATTTACAGATTCTC
11771 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
** * *
11791 GTTGTTATTTACGGATTATC
1 GTTGCGATTTACAGATTCTC
* * *
11811 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTC
*
11831 GTTGCGATTTTAC-GTATTGTC
1 GTTGCGA-TTTACAG-ATTCTC
* * *
11852 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTC
* *
11872 GTTGCGATTTTTACGGATACTC
1 GTTGCGA--TTTACAGATTCTC
* * *
11894 GTTGCGATAGTA-AGAATCGC
1 GTTGCGAT-TTACAGATTCTC
* * *
11914 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACAGATTCTC
11934 GTTGCGATT
1 GTTGCGATT
11943 CTGGAAACTG
Statistics
Matches: 176, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
19 1 0.01
20 138 0.78
21 18 0.10
22 19 0.11
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCTC
Found at i:11804 original size:60 final size:60
Alignment explanation
Indices: 11711--11923 Score: 236
Period size: 60 Copynumber: 3.5 Consensus size: 60
11701 AAATTTCAGT
*
11711 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTA-TC
1 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGA-TACGC
** *
11771 GTTGCGATTTACAGATTCTCGTTGTTATTTACGGATTATCGTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATACGC
* * * *
11831 GTTGCGATTTTAC-GTATTGTCGTTGCGATTTACGGA-TACGCGTTGCGATTTTTACGGATACTC
1 GTTGCGA-TTTACAG-ATTCTCGTTGCGATTTACGGATTA-TCGTTGCGA--TTTACAGATACGC
* * *
11894 GTTGCGATAGTA-AGAATCGCGTTGCGATTT
1 GTTGCGAT-TTACAGATTCTCGTTGCGATTT
11924 TCATATTCGC
Statistics
Matches: 132, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
59 2 0.02
60 63 0.48
61 31 0.23
62 14 0.11
63 22 0.17
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.39
Consensus pattern (60 bp):
GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATACGC
Found at i:15574 original size:210 final size:212
Alignment explanation
Indices: 14973--15788 Score: 1214
Period size: 210 Copynumber: 3.8 Consensus size: 212
14963 ATTTAAGAAT
*
14973 TAAATTGAACAAATATTAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * * *
15038 GGATCAAATCGAAATAATTTTAAATTATGAGGTTAAAATTAATACAAAAAAGTATTAAATTAGAC
63 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
15103 TCATTTAAAAAGTTATGGG-CATATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAAATTCA
128 CCATTTAAAAAGTTATGGGTCAT-TTAAAAATATA-AA-TAAGTAATAAGTATGGGTCAATTTCA
*
15167 TATGCAAATAAAATTTGGAGGAC
190 GATGCAAATAAAATTTGGAGGAC
15190 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * * *
15255 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATATAAAAAAGTACTAAATTATAT
63 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
15320 CCATTTAAAAAGTTATGGGTCGATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
128 CCATTTAAAAAGTTATGGGTC-ATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
15385 TGCAAATAAAATTTGGAGGAC
192 TGCAAATAAAATTTGGAGGAC
*
15406 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* * *
15468 TCTAATCAAAATAATTTAAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
66 TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
*
15533 TTTAAAAAGTTATGGGTCGATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGGTGC
131 TTTAAAAAGTTATGGGTC-ATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATGC
*
15598 AAATAAAATTTGGAGGAT
195 AAATAAAATTTGGAGGAC
* * * *
15616 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATATACTAAACAGCACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* *
15678 TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACTCA
66 TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
* *
15743 TTTAAAAATTTATGGGTCAATTAATAAATATAAATAAGTAATAAGT
131 TTTAAAAAGTTATGGGTCATTTAA-AAATATAAATAAGTAATAAGT
15789 TGAGAAAAAA
Statistics
Matches: 561, Mismatches: 35, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
209 5 0.01
210 300 0.53
212 1 0.00
215 1 0.00
216 100 0.18
217 142 0.25
218 10 0.02
219 2 0.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (212 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
TTTAAAAAGTTATGGGTCATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATGCA
AATAAAATTTGGAGGAC
Found at i:15963 original size:26 final size:28
Alignment explanation
Indices: 15926--15993 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
15916 TATATATATA
*
15926 TATATATA-TATATATA-TATGTATAAAGC
1 TATA-ATACTATATATACCATGTATAAA-C
15954 -ATAA-ACTATATATACCATGTATAAAC
1 TATAATACTATATATACCATGTATAAAC
15980 TATAATACTATATA
1 TATAATACTATATA
15994 GTTTATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 1 0.03
26 10 0.29
27 16 0.46
28 8 0.23
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (28 bp):
TATAATACTATATATACCATGTATAAAC
Found at i:15967 original size:2 final size:2
Alignment explanation
Indices: 15812--15949 Score: 154
Period size: 2 Copynumber: 67.5 Consensus size: 2
15802 AAAACAACTA
* * *
15812 AT AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AGT TT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * *
15855 AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
15897 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
*
15939 AT AT AT GT AT A
1 AT AT AT AT AT A
15950 AAGCATAAAC
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.02
2 108 0.94
3 5 0.04
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16049 original size:11 final size:11
Alignment explanation
Indices: 16035--16072 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
16025 ACTACATAGT
16035 TTATATATAAA
1 TTATATATAAA
*
16046 TTATATATGAA
1 TTATATATAAA
16057 TTATATATAAA
1 TTATATATAAA
*
16068 CTATA
1 TTATA
16073 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:16080 original size:20 final size:20
Alignment explanation
Indices: 15815--16082 Score: 116
Period size: 20 Copynumber: 12.7 Consensus size: 20
15805 ACAACTAATA
*
15815 TATATATATATATAATATAAAC
1 TATATA-ATTTAT-ATATAAAC
* *
15837 TATATAGTTTATATATAAAG
1 TATATAATTTATATATAAAC
*
15857 TATATGTATTATATATATAAAC
1 TATAT-AATT-TATATATAAAC
* *
15879 TATATAGTTTATATATATA-
1 TATATAATTTATATATAAAC
* *
15898 TATAT-ATATATATATATA-
1 TATATAATTTATATATAAAC
* *
15916 TATATATATATATATATATA-
1 TATATA-ATTTATATATAAAC
* *
15936 TATATATATGTATAAAGCATAAAC
1 TATATA-AT-T-TATA-TATAAAC
*
15960 TATATATACCATGTATAAACTATAATAC
1 --TATATA--AT-T-TATA-TATAA-AC
* *
15988 TATATAGTTTATATATGAAC
1 TATATAATTTATATATAAAC
* *
16008 TAT-TGAA-CTATATAGAAAC
1 TATAT-AATTTATATATAAAC
* * *
16027 TACATAGTTTATATATAAAT
1 TATATAATTTATATATAAAC
*
16047 TATATATGAATTATATATAAAC
1 TATATA--ATTTATATATAAAC
*
16069 TATACAATTTATAT
1 TATATAATTTATAT
16083 TTATATATTA
Statistics
Matches: 193, Mismatches: 36, Indels: 36
0.73 0.14 0.14
Matches are distributed among these distances:
18 16 0.08
19 18 0.09
20 71 0.37
21 12 0.06
22 43 0.22
23 5 0.03
24 1 0.01
26 12 0.06
27 13 0.07
28 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
TATATAATTTATATATAAAC
Found at i:16080 original size:42 final size:43
Alignment explanation
Indices: 16011--16102 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
16001 TATGAACTAT
* * *
16011 TGAACTATATAGAAACTACATAGTTTATA-TATAAATTATATA
1 TGAATTATATAGAAACTACACAATTTATATTATAAATTATATA
* * *
16053 TGAATTATATATAAACTATACAATTTATATTTATATATTATATA
1 TGAATTATATAGAAACTACACAATTTATA-TTATAAATTATATA
16097 T-AATTA
1 TGAATTA
16103 CAAATAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 24 0.57
43 5 0.12
44 13 0.31
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (43 bp):
TGAATTATATAGAAACTACACAATTTATATTATAAATTATATA
Found at i:16235 original size:20 final size:20
Alignment explanation
Indices: 16210--16276 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 20
16200 TATAAACTAC
16210 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
16230 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
* *
16253 ATAAACTATAGTTTATGTTTAT
1 AT--ACTATAATTTATATTTAT
16275 AT
1 AT
16277 TTATATACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 8 0.21
21 2 0.05
22 10 0.26
23 11 0.28
24 2 0.05
25 6 0.15
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:16237 original size:13 final size:13
Alignment explanation
Indices: 16221--16342 Score: 74
Period size: 13 Copynumber: 9.2 Consensus size: 13
16211 TACTATAATT
16221 TATATTTATATAC
1 TATATTTATATAC
16234 TATATTT-TATAC
1 TATATTTATATAC
*
16246 TAT-TTATATAAAC
1 TATATT-TATATAC
* *
16259 TATAGTTTATGT-T
1 TATA-TTTATATAC
16272 TATATTTATATAC
1 TATATTTATATAC
*
16285 TATATATATGA-AC
1 TATATTTAT-ATAC
16298 TATAGTTTACATATGAAC
1 TATA-TTT--ATAT--AC
* *
16316 TATATATATA-AA
1 TATATTTATATAC
*
16328 TATATATATATAC
1 TATATTTATATAC
16341 TA
1 TA
16343 AGGTCGATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
11 2 0.02
12 26 0.31
13 35 0.41
14 6 0.07
15 6 0.07
16 2 0.02
17 2 0.02
18 6 0.07
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:16261 original size:25 final size:23
Alignment explanation
Indices: 16223--16268 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
16213 CTATAATTTA
*
16223 TATTTATATACTATATTTTATAC
1 TATTTATATACTATAGTTTATAC
16246 TATTTATATAAACTATAGTTTAT
1 TATTTATAT--ACTATAGTTTAT
16269 GTTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTATATACTATAGTTTATAC
Found at i:16373 original size:18 final size:18
Alignment explanation
Indices: 16352--16407 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
16342 AAGGTCGATA
16352 TTTATATATGAACTATAG
1 TTTATATATGAACTATAG
* *
16370 TTTACATATGACCTATA-
1 TTTATATATGAACTATAG
16387 --TATATAT--ACTATAG
1 TTTATATATGAACTATAG
16401 TTTATAT
1 TTTATAT
16408 TTATATACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.16
15 6 0.19
16 5 0.16
18 15 0.48
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (18 bp):
TTTATATATGAACTATAG
Found at i:16390 original size:2 final size:2
Alignment explanation
Indices: 16383--16455 Score: 58
Period size: 2 Copynumber: 34.0 Consensus size: 2
16373 ACATATGACC
* *
16383 TA TA TA TA TA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA T- TA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
*
16425 TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
16456 ATTTACATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
1 1 0.02
2 47 0.81
3 10 0.17
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16406 original size:20 final size:20
Alignment explanation
Indices: 16383--16455 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
16373 ACATATGACC
16383 TATATATATATACTATAGT-T
1 TATATATATATACTATA-TAT
*
16403 TATATTTATATACTATATAT
1 TATATATATATACTATATAT
*
16423 TATATATATAAACTATATA-
1 TATATATATATACTATATAT
16442 TACTATATAGTATA
1 TA-TATATA-TATA
16456 ATTTACATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 3 0.07
20 40 0.87
21 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (20 bp):
TATATATATATACTATATAT
Found at i:16427 original size:67 final size:65
Alignment explanation
Indices: 16269--16427 Score: 175
Period size: 67 Copynumber: 2.4 Consensus size: 65
16259 TATAGTTTAT
16269 GTTTATATTTATATAC-TATA-TATATGAACTATAGTTTACATATGAACTATATATATAAATATA
1 GTTTATATTTATATACATATATTATATGAACTATAGTTTACATATGAACTATATATATAAATATA
* * * *
16332 -TATATATACTA-AGGT-CGATATTTATATATGAACTATAGTTTACATATGACCTATATATATAT
1 GTTTATAT-TTATA--TAC-ATATAT-TATATGAACTATAGTTTACATATGAACTATATATATA-
*
16394 ACTATA
60 AATATA
16400 GTTTATATTTATATACTATATATTATAT
1 GTTTATATTTATATAC-ATATATTATAT
16428 ATATAAACTA
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
62 7 0.09
63 3 0.04
64 1 0.01
65 3 0.04
67 42 0.55
68 13 0.17
69 7 0.09
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (65 bp):
GTTTATATTTATATACATATATTATATGAACTATAGTTTACATATGAACTATATATATAAATATA
Found at i:16472 original size:34 final size:36
Alignment explanation
Indices: 16409--16477 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
16399 AGTTTATATT
*
16409 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
16445 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
16478 AAAACCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:16476 original size:49 final size:48
Alignment explanation
Indices: 16272--16477 Score: 113
Period size: 49 Copynumber: 4.1 Consensus size: 48
16262 AGTTTATGTT
* * * * *
16272 TATATTTATATACTATATATAT-GA-ACTATAGTTTACATATGAAC--
1 TATATATATAAACTATATATATATATAGTATAATTTACATATGAACTA
*
16316 TATATATATAAA-TATATATATATACTAAGGTCGAT-ATTTATATATGAACTA
1 TATATATATAAACTATATATATATA-T-A-GT--ATAATTTACATATGAACTA
* * * * *
16367 TAGTTTACATATGACCTATATATATATACTATAGTTTATATTTATATACT-ATA-TA
1 TA---TATATATAAAC--TATATATATA-TATAGTATA-ATTTACATA-TGA-ACTA
16422 TTATATATATAAACTATATATACTATATAGTATAATTTACATATGAACTA
1 -TATATATATAAACTATATATA-TATATAGTATAATTTACATATGAACTA
16472 TATATA
1 TATATA
16478 AAAACCCTAA
Statistics
Matches: 123, Mismatches: 15, Indels: 43
0.68 0.08 0.24
Matches are distributed among these distances:
43 9 0.07
44 11 0.09
47 1 0.01
48 1 0.01
49 20 0.16
50 13 0.11
51 18 0.15
52 2 0.02
53 9 0.07
54 7 0.06
55 14 0.11
56 5 0.04
57 11 0.09
58 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.44
Consensus pattern (48 bp):
TATATATATAAACTATATATATATATAGTATAATTTACATATGAACTA
Found at i:16515 original size:9 final size:9
Alignment explanation
Indices: 16504--16647 Score: 57
Period size: 9 Copynumber: 15.4 Consensus size: 9
16494 AACTATACAT
*
16504 TATATAATT
1 TATATAATA
*
16513 TAT-TAGTA
1 TATATAATA
16521 TATATAA-A
1 TATATAATA
16529 CTATATAATA
1 -TATATAATA
16539 TATATAGACTA
1 TATATA-A-TA
*
16550 TATGGT-ATA
1 TAT-ATAATA
16559 TATA-AACTA
1 TATATAA-TA
* *
16568 TACATTATA
1 TATATAATA
*
16577 TATATACTA
1 TATATAATA
*
16586 TATATTATA
1 TATATAATA
*
16595 TAGTTCATTAGTA
1 TA--T-A-TAATA
16608 TATATAA-A
1 TATATAATA
*
16616 CTATATAGTA
1 -TATATAATA
16626 TATATAA-A
1 TATATAATA
*
16634 CTATATATTA
1 -TATATAATA
16644 TATA
1 TATA
16648 GTTCATTAGT
Statistics
Matches: 100, Mismatches: 18, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
8 10 0.10
9 69 0.69
10 7 0.07
11 7 0.07
12 2 0.02
13 5 0.05
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (9 bp):
TATATAATA
Found at i:16542 original size:18 final size:18
Alignment explanation
Indices: 16516--16749 Score: 171
Period size: 18 Copynumber: 13.1 Consensus size: 18
16506 TATAATTTAT
16516 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
16534 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
*
16552 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * *
16570 CATTATATATATACTATA
1 TAGTATATATAAACTATA
**
16588 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
16603 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
16621 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* ** *
16639 TATTATATAGTTCATTAGTA
1 TAGTATATA-TAAACTA-TA
* *
16659 TA-TATAACCTATATAGTATA
1 TAGTAT-A--TATAAACTATA
* *
16679 TGGTATATACAAACTATA
1 TAGTATATATAAACTATA
**
16697 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
16712 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
16730 CAGTATATATAAACTATA
1 TAGTATATATAAACTATA
16748 TA
1 TA
16750 TTAATTTATT
Statistics
Matches: 166, Mismatches: 34, Indels: 32
0.72 0.15 0.14
Matches are distributed among these distances:
15 7 0.04
16 15 0.09
17 16 0.10
18 103 0.62
19 7 0.04
20 9 0.05
21 7 0.04
22 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.41
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:16569 original size:69 final size:69
Alignment explanation
Indices: 16492--16679 Score: 229
Period size: 69 Copynumber: 2.7 Consensus size: 69
16482 CCCTAAACCC
* * *
16492 TAAACTATACATTATATAATTTATTAGTATATATAAACTATATAATATATATAGACTATATGGTA
1 TAAACTATACATTATATAATTTATTAGTATATATAAACTATATAGTATATATAAACTATATAGTA
16557 TATA
66 TATA
* * * *
16561 TAAACTATACATTATAT-ATATACTA-TATATTATATAGT-TCATTAGTATATATAAACTATATA
1 TAAACTATACATTATATAATTTATTAGTATA-TATAAACTAT-A-TAGTATATATAAACTATATA
16623 GTATATA
63 GTATATA
* * * *
16630 TAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATAT
1 TAAACTATACATTATATAATTTATTAGTATATATAAACTATATAGTATAT
16680 GGTATATACA
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
67 5 0.05
68 13 0.13
69 65 0.66
70 10 0.10
71 5 0.05
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (69 bp):
TAAACTATACATTATATAATTTATTAGTATATATAAACTATATAGTATATATAAACTATATAGTA
TATA
Found at i:16587 original size:7 final size:6
Alignment explanation
Indices: 16519--16647 Score: 54
Period size: 7 Copynumber: 20.7 Consensus size: 6
16509 AATTTATTAG
* * * *
16519 TATATA TAAACTA TATA-A TATATA TAGACTA TATGGTA TATATA AACTATA
1 TATATA TATA-TA TATATA TATATA TATA-TA TAT-ATA TATATA TA-TATA
* *
16570 CAT-TA TATATA TACTATA TAT-TA TATAGT- TCAT-TA GTATATA TAAACTA
1 TATATA TATATA TA-TATA TATATA TATA-TA T-ATATA -TATATA TATA-TA
*
16619 TATAGTA TATATA AACTATA TAT-TA TATA
1 TATA-TA TATATA TA-TATA TATATA TATA
16648 GTTCATTAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
5 20 0.22
6 26 0.28
7 47 0.51
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:16629 original size:51 final size:51
Alignment explanation
Indices: 16516--16752 Score: 305
Period size: 51 Copynumber: 4.5 Consensus size: 51
16506 TATAATTTAT
* *
16516 TAGTATATATAAACTATATAATATATATAG-ACTATATGGTATATATAAACTATA
1 TAGTATATATAAACTATAT-AT-TATATAGTTC-AT-TAGTATATATAAACTATA
* * *
16570 CATTATATATATACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
*
16621 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
16672 TAGTATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TAG--TA---TATAT--AAACTATATATTATATAGTTCATTAGTATATATAAACTATA
*
16730 CAGTATATATAAACTATATATTA
1 TAGTATATATAAACTATATATTA
16753 ATTTATTAAT
Statistics
Matches: 164, Mismatches: 11, Indels: 19
0.85 0.06 0.10
Matches are distributed among these distances:
51 80 0.49
52 9 0.05
53 10 0.06
54 16 0.10
56 7 0.04
58 42 0.26
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (51 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
Found at i:16664 original size:2 final size:2
Alignment explanation
Indices: 16519--16647 Score: 54
Period size: 2 Copynumber: 62.0 Consensus size: 2
16509 AATTTATTAG
* * *
16519 TA TA TA TA AA CTA TA TA -A TA TA TA TA GA CTA TA TGG TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA
* *
16561 TA AA CTA TA CA T- TA TA TA TA TA CTA TA TA T- TA TA TA GT- TCA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA T-A
* *
16602 T- TA GTA TA TA TA AA CTA TA TA GTA TA TA TA AA CTA TA TA T- TA
1 TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA
16644 TA TA
1 TA TA
16648 GTTCATTAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 34
0.67 0.10 0.24
Matches are distributed among these distances:
1 6 0.06
2 76 0.79
3 14 0.15
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:16861 original size:34 final size:33
Alignment explanation
Indices: 16823--16923 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 33
16813 TGAATAAATT
16823 TTAAATATGAAGCTTAAATTAATAAATTATAACA
1 TTAAATATGAAGCTTAAATTAATAAATTA-AACA
* * * **
16857 TTAAATTTG--GATTAAATT--GAAA--AAAGT
1 TTAAATATGAAGCTTAAATTAATAAATTAAACA
*
16884 TTAAATATGAAGCTTAAATTAATATATTAAATCA
1 TTAAATATGAAGCTTAAATTAATAAATTAAA-CA
16918 TTAAAT
1 TTAAAT
16924 TTAGACTATA
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
27 10 0.20
28 1 0.02
29 8 0.16
30 3 0.06
31 2 0.04
32 8 0.16
33 3 0.06
34 14 0.29
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (33 bp):
TTAAATATGAAGCTTAAATTAATAAATTAAACA
Found at i:16887 original size:61 final size:60
Alignment explanation
Indices: 16804--16948 Score: 202
Period size: 61 Copynumber: 2.4 Consensus size: 60
16794 AAATATATAA
*
16804 GGATCAAATTGAATAAATTTTAAATATGAAGCTTAAATTAATAAATTATAA-CATTAAATTT
1 GGATTAAATTGAATAAA-TTTAAATATGAAGCTTAAATTAATAAATTA-AATCATTAAATTT
* *
16865 GGATTAAATTGAAAAAAGTTTAAATATGAAGCTTAAATTAATATATTAAATCATTAAATTT
1 GGATTAAATTGAATAAA-TTTAAATATGAAGCTTAAATTAATAAATTAAATCATTAAATTT
* * *
16926 AGACTATATTGAATAAATTTAAA
1 GGATTAAATTGAATAAATTTAAA
16949 ACTAAGAGAC
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
60 8 0.11
61 67 0.89
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (60 bp):
GGATTAAATTGAATAAATTTAAATATGAAGCTTAAATTAATAAATTAAATCATTAAATTT
Found at i:19541 original size:51 final size:52
Alignment explanation
Indices: 19486--19592 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 52
19476 TATACAAATT
* *
19486 ATAATTAATATAAAACT-AAATTT-TAAAAGTAATCATATTAATTTAATTATC
1 ATAATTAATATAAAA-TAAAATTTCAAAAAGTAACCATATTAATTTAATTATC
* **
19537 ATAA-TAATTTATGATAAAATTTCAAAAAGTAACCATATTAATTTAATTATC
1 ATAATTAATATAAAATAAAATTTCAAAAAGTAACCATATTAATTTAATTATC
19588 ATAAT
1 ATAAT
19593 AATTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 13 0.27
51 34 0.71
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (52 bp):
ATAATTAATATAAAATAAAATTTCAAAAAGTAACCATATTAATTTAATTATC
Found at i:19595 original size:17 final size:17
Alignment explanation
Indices: 19570--19606 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19560 AAAAAGTAAC
*
19570 CATATTAATTTAATTAT
1 CATAATAATTTAATTAT
19587 CATAATAATTTAATTAT
1 CATAATAATTTAATTAT
19604 CAT
1 CAT
19607 TAGTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (17 bp):
CATAATAATTTAATTAT
Found at i:19747 original size:16 final size:16
Alignment explanation
Indices: 19726--19760 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19716 TTAATTACAT
*
19726 GTCAGGTTCATAACAG
1 GTCAGGTTCAAAACAG
*
19742 GTCAGGTTGAAAACAG
1 GTCAGGTTCAAAACAG
19758 GTC
1 GTC
19761 GGGTAATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (16 bp):
GTCAGGTTCAAAACAG
Found at i:22072 original size:170 final size:167
Alignment explanation
Indices: 21792--22113 Score: 439
Period size: 170 Copynumber: 1.9 Consensus size: 167
21782 CACAGCGGCG
** **
21792 GACGGCGACGAGGAAGCAATATGGTGGCGGTGAGGTGAACGGAGGTCCGAGACGGCCAGAATCAT
1 GACGGCGACGAGGAAGCAATATGGTGGCGGTGAGGCAAACGGAGGTCCGAGACAACCAGAATCAT
* *
21857 CCAAAATCTGAGGCGTCGGGGTGGGTTTTCGGCGAAACTTCAAGGGCTCAATTGCCGACGAACGA
66 CCAAAATCTGAGGCGTCGAGGTGGGTTTTCGACGAAACTTCAAGGGCTCAATT-CCGACGAACGA
*
21922 CGACAGATATGCACAAATTGTTTAGAGAGTTTTGAGAT
130 CGACAGATATCCACAAATTGTTTAGAGAGTTTTGAGAT
* * * * *
21960 GACGGCGACGAGGAAGCTAACTATGGTTGTGGTGAGGCAAACGGGGGTCCGAGGCAA-CTGAAAT
1 GACGGCGACGAGGAAGC-AA-TATGGTGGCGGTGAGGCAAACGGAGGTCCGAGACAACCAG-AAT
* * * *
22024 CGTCCAAAATTTGAGGCGTCGAGGTGGGTTTTCGACGAAACTTCAAGGGCTCGATTCCGGCGAAC
63 CATCCAAAATCTGAGGCGTCGAGGTGGGTTTTCGACGAAACTTCAAGGGCTCAATTCCGACGAAC
* *
22089 GACGACGGCTATCCACAAATTGTTT
128 GACGACAGATATCCACAAATTGTTT
22114 TGTGGGCTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
168 17 0.13
169 34 0.26
170 82 0.62
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (167 bp):
GACGGCGACGAGGAAGCAATATGGTGGCGGTGAGGCAAACGGAGGTCCGAGACAACCAGAATCAT
CCAAAATCTGAGGCGTCGAGGTGGGTTTTCGACGAAACTTCAAGGGCTCAATTCCGACGAACGAC
GACAGATATCCACAAATTGTTTAGAGAGTTTTGAGAT
Found at i:23257 original size:169 final size:168
Alignment explanation
Indices: 22923--23258 Score: 424
Period size: 169 Copynumber: 2.0 Consensus size: 168
22913 GATCAAAGCC
* *
22923 CCCAAAACAATTCGTGGATAGTCATCGCCGTTCGCCGGAATCTAGCCCTTGAAGTATCACCGAAA
1 CCCAAAACAATTCGTGCATAGTCATCGCCGTTCGCCGGAATCGAGCCCTTGAAGTATCACCGAAA
* *
22988 ACCCACCCGACGCCTAGGATTTTAGACGATTCTGGCCGCCTCAGACCTCCGTTCGCCTCACCGCA
66 ACCCACCCGACGCCTAGGATTTTAGACGATTCCGGCCACCTCAGACCTCCGTTCGCCTCACCGCA
* *
23053 ATCATAGTTAGCTTCCTCGTCGTCGTCATCTCAAAACT
131 ACCATAGTTAGCTTCCTCGTCGTCGTCAGCTCAAAACT
* ** ** * * *
23091 CCCAAAACAATTCGTGCATA-TCTGTCGTTGTTCGTTGGAATCGAGCCCTTGAAGTTTCGCTGAA
1 CCCAAAACAATTCGTGCATAGTC-ATCGCCGTTCGCCGGAATCGAGCCCTTGAAGTATCACCGAA
* * * * * *
23155 AACCCACCCTGATGCCTCGGATTTTAGATGATTCCGGCCACCTCGGACCTCTGTTCGCCTCACCT
65 AACCCACCC-GACGCCTAGGATTTTAGACGATTCCGGCCACCTCAGACCTCCGTTCGCCTCACCG
* * *
23220 CCACCATATTTAGCTTCCTCGTCGTTGTTC-GCTCAAAAC
129 CAACCATAGTTAGCTTCCTCGTCGTCG-TCAGCTCAAAAC
23259 CTAACTGGTG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
167 2 0.01
168 60 0.42
169 78 0.55
170 2 0.01
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (168 bp):
CCCAAAACAATTCGTGCATAGTCATCGCCGTTCGCCGGAATCGAGCCCTTGAAGTATCACCGAAA
ACCCACCCGACGCCTAGGATTTTAGACGATTCCGGCCACCTCAGACCTCCGTTCGCCTCACCGCA
ACCATAGTTAGCTTCCTCGTCGTCGTCAGCTCAAAACT
Found at i:24592 original size:36 final size:37
Alignment explanation
Indices: 24541--24894 Score: 340
Period size: 37 Copynumber: 9.7 Consensus size: 37
24531 TTTCAAATAT
24541 ATATATATAATATATAGTTTTTAAAACATTTTGAAAAA
1 ATATATAT-ATATATAGTTTTTAAAACATTTTGAAAAA
* * *
24579 ATATATATAATATATAGTTTTTGAAAATATTTTGAATAT
1 ATATATAT-ATATATAGTTTTT-AAAACATTTTGAAAAA
*
24618 ATATATATAATATATAG-TTTTAAAACATTTTGAAAAC
1 ATATATAT-ATATATAGTTTTTAAAACATTTTGAAAAA
* * *
24655 TTATATA-ATATCTAGTTTTTAAAAACATTTTGAAAAT
1 ATATATATATATATAGTTTTT-AAAACATTTTGAAAAA
* * *
24692 TTATATA-ATATATAGTTTTTAAAACATTTTGGAAAT
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAAA
*
24728 ATATATA-ATATATAGTTTTTAAAAAATATTTTG-AAAA
1 ATATATATATATATAGTTTTT--AAAACATTTTGAAAAA
24765 ATATATATAATATATAGTTTTTAAAAACATTTTTG--AAA
1 ATATATAT-ATATATAGTTTTT-AAAACA-TTTTGAAAAA
* *
24803 ACATATA-ATATATAGTTTTGAAAACATTTT-AAAAA
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAAA
* * * *
24838 ATA-ATATATA-AT-TTTTTTTAAATATTTT-TAAAA
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAAA
* * *
24871 ATGTATATA-ATATAATTTTGAAAA
1 ATATATATATATATAGTTTTTAAAA
24895 TATATATTAG
Statistics
Matches: 275, Mismatches: 27, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
33 19 0.07
34 16 0.06
35 28 0.10
36 50 0.18
37 63 0.23
38 51 0.19
39 48 0.17
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATATATATATATAGTTTTTAAAACATTTTGAAAAA
Found at i:24631 original size:37 final size:36
Alignment explanation
Indices: 24541--24894 Score: 350
Period size: 39 Copynumber: 9.7 Consensus size: 36
24531 TTTCAAATAT
24541 ATATATATAATATATAGTTTTTAAAACATTTTGAAAAA
1 ATATATAT-ATATATAGTTTTTAAAACATTTTG-AAAA
* *
24579 ATATATATAATATATAGTTTTTGAAAATATTTTGAATAT
1 ATATATAT-ATATATAGTTTTT-AAAACATTTTGAA-AA
24618 ATATATATAATATATAG-TTTTAAAACATTTTGAAAA
1 ATATATAT-ATATATAGTTTTTAAAACATTTTGAAAA
* *
24654 CT-TATATAATATCTAGTTTTTAAAAACATTTTG-AAA
1 ATATATAT-ATATATAGTTTTT-AAAACATTTTGAAAA
* *
24690 ATTTATATAATATATAGTTTTTAAAACATTTTG-GAA
1 ATATATAT-ATATATAGTTTTTAAAACATTTTGAAAA
*
24726 ATATATATAATATATAGTTTTTAAAAAATATTTTGAAAA
1 ATATATAT-ATATATAGTTTTT--AAAACATTTTGAAAA
24765 ATATATATAATATATAGTTTTTAAAAACATTTTTG-AAA
1 ATATATAT-ATATATAGTTTTT-AAAACA-TTTTGAAAA
* * *
24803 ACATATA-ATATATAGTTTTGAAAACATTTTAAAAA
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAA
* * * *
24838 ATA-ATATATA-AT-TTTTTTTAAATATTTTTAAAA
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAA
* * *
24871 ATGTATATA-ATATAATTTTGAAAA
1 ATATATATATATATAGTTTTTAAAA
24895 TATATATTAG
Statistics
Matches: 276, Mismatches: 26, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
33 19 0.07
34 16 0.06
35 34 0.12
36 56 0.20
37 41 0.15
38 53 0.19
39 57 0.21
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (36 bp):
ATATATATATATATAGTTTTTAAAACATTTTGAAAA
Found at i:25006 original size:16 final size:15
Alignment explanation
Indices: 24985--25030 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 15
24975 AGTTTTAATT
24985 TTTTTATTTATTATTA
1 TTTTTATTTATT-TTA
25001 TTTTTATTTATTTTA
1 TTTTTATTTATTTTA
25016 TTTGTTATTTATTTT
1 TTT-TTATTTATTTT
25031 CCCTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:25030 original size:25 final size:25
Alignment explanation
Indices: 24977--25030 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
24967 TAATATATAG
24977 TTTTAATTTTTTTATTTATTATTAT
1 TTTTAATTTTTTTATTTATTATTAT
*
25002 TTTT-ATTTATTTTATTTGTTATTTAT
1 TTTTAATTT-TTTTATTTATTA-TTAT
25028 TTT
1 TTT
25031 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 15 0.58
26 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTTAATTTTTTTATTTATTATTAT
Found at i:25039 original size:25 final size:24
Alignment explanation
Indices: 24984--25039 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
24974 TAGTTTTAAT
* *
24984 TTTTTTATTTATTATTATTTTTAT
1 TTTTTTATTTATTATTATTTTCAC
* *
25008 TTATTTTATTTGTTATTTATTTTCCC
1 TT-TTTTATTTATTA-TTATTTTCAC
25034 TTTTTT
1 TTTTTT
25040 TCCCTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 9 0.35
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTATTTATTATTATTTTCAC
Found at i:26519 original size:11 final size:11
Alignment explanation
Indices: 26503--26528 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26493 CGATCCACCT
26503 AAATGTTCTTA
1 AAATGTTCTTA
26514 AAATGTTCTTA
1 AAATGTTCTTA
26525 AAAT
1 AAAT
26529 TATCGGTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (11 bp):
AAATGTTCTTA
Found at i:29679 original size:17 final size:17
Alignment explanation
Indices: 29659--29723 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
29649 ATATAACTTA
29659 ATAATAATATAATATAC
1 ATAATAATATAATATAC
* *
29676 ATAATATTAAAATATAC
1 ATAATAATATAATATAC
**
29693 ATAATAATAT-ATATGT
1 ATAATAATATAATATAC
29709 ATATATAATATAATA
1 ATA-ATAATATAATA
29724 AATAACATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
16 7 0.17
17 30 0.75
18 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAATAATATAATATAC
Found at i:29680 original size:20 final size:18
Alignment explanation
Indices: 29643--29731 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 18
29633 AAAAACATAT
*
29643 TAATAAATATAACTTAATAA
1 TAATAAATAT-ACATAAT-A
29663 TAATATAATATACATAATA
1 TAATA-AATATACATAATA
*
29682 TTA-AAATATACATAATAA
1 TAATAAATATACATAAT-A
** *
29700 TATATATGTATATATAATA
1 TA-ATAAATATACATAATA
29719 TAATAAATA-ACAT
1 TAATAAATATACAT
29732 GTACACTATA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
17 15 0.27
18 8 0.14
19 7 0.12
20 21 0.38
21 5 0.09
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (18 bp):
TAATAAATATACATAATA
Found at i:29689 original size:22 final size:21
Alignment explanation
Indices: 29664--29724 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 21
29654 ACTTAATAAT
29664 AATATAATATACATAATAT-TAA
1 AATATAATATA-ATAATATGT-A
29686 AATATACATAATAATATATATGTA
1 AATATA-AT-ATAATA-ATATGTA
*
29710 TATATAATATAATAA
1 AATATAATATAATAA
29725 ATAACATGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
21 1 0.03
22 12 0.35
23 7 0.21
24 13 0.38
25 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
AATATAATATAATAATATGTA
Found at i:29698 original size:37 final size:38
Alignment explanation
Indices: 29647--29731 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
29637 ACATATTAAT
*
29647 AAATATAACTTAATAATA-ATATAATATACATAATATTA
1 AAATATAACATAATAATATATAT-ATATACATAATATTA
* *
29685 AAATAT-ACATAATAATATATATGTATATATAATA-TA
1 AAATATAACATAATAATATATATATATACATAATATTA
29721 ATAA-ATAACAT
1 A-AATATAACAT
29732 GTACACTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 5 0.12
37 26 0.63
38 10 0.24
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (38 bp):
AAATATAACATAATAATATATATATATACATAATATTA
Found at i:29842 original size:17 final size:17
Alignment explanation
Indices: 29769--29842 Score: 71
Period size: 16 Copynumber: 4.3 Consensus size: 17
29759 TAACATACAT
*
29769 TATATTTTCAAAAACTA
1 TATATTTTCAAAAAATA
*
29786 TA-ATTTTTAAAAAAT-
1 TATATTTTCAAAAAATA
*
29801 TATGTTTTCAAAAACTATAA
1 TATATTTTCAAAAA--AT-A
*
29821 TATATTTTCAAAAAGTA
1 TATATTTTCAAAAAATA
29838 TATAT
1 TATAT
29843 ATTATATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
15 2 0.04
16 20 0.43
17 8 0.17
18 3 0.07
20 13 0.28
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (17 bp):
TATATTTTCAAAAAATA
Found at i:29933 original size:17 final size:18
Alignment explanation
Indices: 29892--29942 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 18
29882 GCCATATATA
*
29892 TTATATGTTTTCAAAACT
1 TTATATATTTTCAAAACT
*
29910 ATATATATTTTCAAAA-T
1 TTATATATTTTCAAAACT
*
29927 TTATATATTTTTAAAA
1 TTATATATTTTCAAAA
29943 ACCATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATATATTTTCAAAACT
Found at i:29950 original size:19 final size:19
Alignment explanation
Indices: 29888--29951 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
29878 AAAAGCCATA
29888 TATATTATATGTTTTCAAAAC
1 TATA-TATAT-TTTTCAAAAC
29909 TATATATA-TTTTCAAAA-
1 TATATATATTTTTCAAAAC
* *
29926 TTTATATATTTTTAAAAAC
1 TATATATATTTTTCAAAAC
*
29945 CATATAT
1 TATATAT
29952 TATATATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 7 0.19
18 17 0.46
19 5 0.14
20 4 0.11
21 4 0.11
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATATATTTTTCAAAAC
Found at i:32436 original size:18 final size:18
Alignment explanation
Indices: 32413--32447 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32403 TCATAACCCG
32413 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
32431 ACCCGACCCGACCCGTT
1 ACCCGACCCGACCCGTT
32448 GATCGTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.51, G:0.17, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:35040 original size:24 final size:24
Alignment explanation
Indices: 34922--35037 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
34912 TTCGATTTGA
34922 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
34946 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
34970 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
34994 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
35018 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
35038 CTGATTTATG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:36830 original size:44 final size:44
Alignment explanation
Indices: 36781--36884 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
36771 ATGGTATGAG
* *
36781 TATATATGTGAATATGTTTCATATGAGTAAATAGAGAAGTGGAA
1 TATATATGTGAATATGCTTCATATGAGTAAATAGAGAAGTGAAA
* * *
36825 TATATATGTGAATATGCTTCATATGAGTAAATTGATAAGTTAAA
1 TATATATGTGAATATGCTTCATATGAGTAAATAGAGAAGTGAAA
36869 TATGATATGT-AATATG
1 TAT-ATATGTGAATATG
36885 AAGTAAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 48 0.89
45 6 0.11
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (44 bp):
TATATATGTGAATATGCTTCATATGAGTAAATAGAGAAGTGAAA
Found at i:37043 original size:2 final size:2
Alignment explanation
Indices: 37036--37061 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37026 CCTGAAAATG
37036 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
37062 GATAATGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37279 original size:22 final size:23
Alignment explanation
Indices: 37251--37302 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
37241 GTTCTACACA
*
37251 GTCCTTCAGGACAATT-TATGTG
1 GTCCTTCAGGACAATTCTACGTG
* *
37273 GTCCTTCGGGACATTTCTACGTG
1 GTCCTTCAGGACAATTCTACGTG
37296 GTCCTTC
1 GTCCTTC
37303 TGGAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (23 bp):
GTCCTTCAGGACAATTCTACGTG
Found at i:42101 original size:20 final size:20
Alignment explanation
Indices: 42076--42115 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42066 TATCGGTACC
*
42076 GGAAGAACAATGCCGATACT
1 GGAAGAACAATACCGATACT
42096 GGAAGAACAATACCGATACT
1 GGAAGAACAATACCGATACT
42116 ATTAGGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (20 bp):
GGAAGAACAATACCGATACT
Found at i:42279 original size:17 final size:18
Alignment explanation
Indices: 42253--42287 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
42243 GAGTTCCAGA
42253 ATACTAAAAT-GGTATCG
1 ATACTAAAATGGGTATCG
*
42270 ATACTGAAATGGGTATCG
1 ATACTAAAATGGGTATCG
42288 GTACCCCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (18 bp):
ATACTAAAATGGGTATCG
Found at i:42652 original size:44 final size:44
Alignment explanation
Indices: 42603--42706 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 44
42593 ATGTTATGAG
*
42603 TATATATGTGAATATGCTTCATATGAGTAAATAGATAAATGGAA
1 TATATATGTGAATATGCTTCATATGAGTAAATAGATAAATGAAA
* *
42647 TATATATGTGAATATGCTTCATATGAGTAAATTGATAAGTGAAA
1 TATATATGTGAATATGCTTCATATGAGTAAATAGATAAATGAAA
*
42691 TATGAAATGT-AATATG
1 TAT-ATATGTGAATATG
42707 AAATAACTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 50 0.91
45 5 0.09
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (44 bp):
TATATATGTGAATATGCTTCATATGAGTAAATAGATAAATGAAA
Found at i:42904 original size:28 final size:28
Alignment explanation
Indices: 42864--42918 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
42854 AATGATATAT
* *
42864 TGCTAAGTAAAAAGGTTCTACGTGAATG
1 TGCTAAGTAAAAAAGTTCTACGCGAATG
* *
42892 TGCTACGTGAAAAAGTTCTACGCGAAT
1 TGCTAAGTAAAAAAGTTCTACGCGAAT
42919 ATACCCTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (28 bp):
TGCTAAGTAAAAAAGTTCTACGCGAATG
Found at i:43083 original size:22 final size:22
Alignment explanation
Indices: 43051--43133 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
43041 AGTCGAGGGT
*
43051 TCTACGCGGTCCTTTGGGACAA
1 TCTACGTGGTCCTTTGGGACAA
* * * *
43073 TCTATGTGGTCCTTCGAGACATT
1 TCTACGTGGTCCTTTGGGACA-A
43096 TCTACGTGGTCCTTTGGGACAAA
1 TCTACGTGGTCCTTTGGGAC-AA
*
43119 TTCTACGCGGTCCTT
1 -TCTACGTGGTCCTT
43134 CAGAACAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
22 17 0.35
23 17 0.35
24 14 0.29
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (22 bp):
TCTACGTGGTCCTTTGGGACAA
Found at i:43141 original size:24 final size:24
Alignment explanation
Indices: 43095--43142 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
43085 TTCGAGACAT
* ** *
43095 TTCTACGTGGTCCTTTGGGACAAA
1 TTCTACGCGGTCCTTCAGAACAAA
43119 TTCTACGCGGTCCTTCAGAACAAA
1 TTCTACGCGGTCCTTCAGAACAAA
43143 ACTATGTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCAGAACAAA
Found at i:46599 original size:17 final size:17
Alignment explanation
Indices: 46564--46657 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 17
46554 GGACCCTAAA
*
46564 AATAAA-ATAACATATT
1 AATAAATATAACATAAT
46580 AATAAATATAACTTAATAAT
1 AATAAATATAAC---ATAAT
*
46600 AATATAATATAATATAAT
1 AATA-AATATAACATAAT
* *
46618 AAT-ACTATAATATACAT
1 AATAAATATAACATA-AT
* *
46635 AATATATAT-ATAT-AT
1 AATAAATATAACATAAT
46650 AATAAATA
1 AATAAATA
46658 ACATGTACAC
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
15 9 0.14
16 16 0.25
17 14 0.22
18 11 0.17
20 8 0.12
21 7 0.11
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATATAACATAAT
Found at i:46606 original size:8 final size:8
Alignment explanation
Indices: 46595--46658 Score: 60
Period size: 9 Copynumber: 7.5 Consensus size: 8
46585 ATATAACTTA
46595 ATAATAAT
1 ATAATAAT
46603 ATAATATAAT
1 AT-A-ATAAT
46613 ATAATAAT
1 ATAATAAT
46621 ACT-ATAAT
1 A-TAATAAT
46629 ATACATAAT
1 ATA-ATAAT
46638 ATATATATAT
1 ATA-ATA-AT
46648 ATAATAA-
1 ATAATAAT
46655 ATAA
1 ATAA
46659 CATGTACACT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
7 5 0.10
8 15 0.31
9 17 0.35
10 12 0.24
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:46610 original size:21 final size:21
Alignment explanation
Indices: 46579--46651 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
46569 AATAACATAT
46579 TAATA-AATATAACTTAATAA
1 TAATATAATATAACTTAATAA
46599 TAATATAATATAA-TATAATAA
1 TAATATAATATAACT-TAATAA
* *
46620 TACTATAATAT-ACATAAT-A
1 TAATATAATATAACTTAATAA
46639 T-ATATATATATAA
1 TAATATA-ATATAA
46652 TAAATAACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 4 0.09
19 6 0.13
20 12 0.27
21 23 0.51
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATAATATAACTTAATAA
Found at i:46611 original size:13 final size:13
Alignment explanation
Indices: 46595--46658 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 13
46585 ATATAACTTA
46595 ATAATAATATAAT
1 ATAATAATATAAT
46608 ATAAT-ATAATAAT
1 ATAATAAT-ATAAT
*
46621 ACT-ATAATAT-AC
1 A-TAATAATATAAT
46633 ATAATATATATATAT
1 ATAATA-ATATA-AT
46648 ATAATAA-ATAA
1 ATAATAATATAA
46659 CATGTACACT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
11 1 0.02
12 8 0.19
13 22 0.52
14 4 0.10
15 7 0.17
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:46618 original size:35 final size:33
Alignment explanation
Indices: 46575--46657 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 33
46565 ATAAAATAAC
46575 ATAT-TAATAAATATAACT-TA-ATAATAATATAAT
1 ATATATAATAAATATAA-TATACATAAT-ATAT-AT
46608 ATAATATAATAATACTATAATATACATAATATATAT
1 AT-ATATAATAA-A-TATAATATACATAATATATAT
46644 ATATATAATAAATA
1 ATATATAATAAATA
46658 ACATGTACAC
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
33 4 0.09
34 3 0.07
35 15 0.34
36 6 0.14
37 11 0.25
38 5 0.11
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (33 bp):
ATATATAATAAATATAATATACATAATATATAT
Found at i:46728 original size:20 final size:21
Alignment explanation
Indices: 46703--46742 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
46693 ATACATTATA
46703 TTTTCAAAAACTATA-ATATG
1 TTTTCAAAAACTATATATATG
*
46723 TTTTCAAAAATTATATATAT
1 TTTTCAAAAACTATATATAT
46743 TATATATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTTCAAAAACTATATATATG
Found at i:46831 original size:17 final size:17
Alignment explanation
Indices: 46809--46855 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
46799 TTGAAATCTA
*
46809 TATATATTTTCAAAAAT
1 TATATATTTTCAAAAAC
46826 TATATATTTTCAAAAAC
1 TATATATTTTCAAAAAC
46843 TATATATTATTCA
1 TATATATT-TTCA
46856 CATTTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATTTTCAAAAAC
Found at i:54387 original size:21 final size:21
Alignment explanation
Indices: 54336--54388 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
54326 ATTATGACTA
54336 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
54357 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
54378 TCGCAATGCGA
1 TCGCAATGCGA
54389 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:54403 original size:20 final size:21
Alignment explanation
Indices: 54378--54429 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
54368 TTTTCCCAAT
*
54378 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
54398 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
54419 TCGCAATGCGA
1 TCGCAATGCGA
54430 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:54443 original size:20 final size:20
Alignment explanation
Indices: 54418--54512 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
54408 AATTTGGAAA
*
54418 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
54438 ATCGCAACGCAATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
54459 ATCACAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
54479 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
54499 ATCGCAACGAGATA
1 ATCGCAACGCGATA
54513 ATACAGAATC
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
19 2 0.04
20 40 0.71
21 12 0.21
22 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:54741 original size:23 final size:23
Alignment explanation
Indices: 54700--54756 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
54690 ACTCTCTACG
*
54700 GCGACATCCGT-CCCCATCTCC-
1 GCGAAATCCGTCCCCCATCTCCA
54721 GACGAAATCCGTCCCCCATCTCCA
1 G-CGAAATCCGTCCCCCATCTCCA
54745 GCGAAATCCGTC
1 GCGAAATCCGTC
54757 TATCTCCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 9 0.28
23 21 0.66
24 1 0.03
ACGTcount: A:0.21, C:0.46, G:0.16, T:0.18
Consensus pattern (23 bp):
GCGAAATCCGTCCCCCATCTCCA
Found at i:55117 original size:19 final size:20
Alignment explanation
Indices: 55093--55133 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
55083 ATTTGAAACC
*
55093 GAGAATCGCAAC-ACGAAAT
1 GAGAATCGCAACGACAAAAT
55112 GAGAATCGCAACGACAAAAT
1 GAGAATCGCAACGACAAAAT
55132 GA
1 GA
55134 CTATTGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (20 bp):
GAGAATCGCAACGACAAAAT
Found at i:55142 original size:20 final size:21
Alignment explanation
Indices: 55097--55165 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 21
55087 GAAACCGAGA
**
55097 ATCGCAAC-ACG-AAATGAGA
1 ATCGCAACGACGAAAATGACT
55116 ATCGCAACGAC-AAAATGACT
1 ATCGCAACGACGAAAATGACT
* *
55136 ATTGCAACG-CGGAAATGACT
1 ATCGCAACGACGAAAATGACT
55156 ATCGCAACGA
1 ATCGCAACGA
55166 GAGAATCGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
19 9 0.22
20 32 0.78
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.14
Consensus pattern (21 bp):
ATCGCAACGACGAAAATGACT
Found at i:55197 original size:16 final size:14
Alignment explanation
Indices: 55156--55215 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
55146 GGAAATGACT
*
55156 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
*
55170 ATCGCAATACGAATTAAA
1 ATCGC-A-ACG-A-GAAA
55188 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
55202 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
55216 CCAAAATCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 21 0.55
15 2 0.05
16 6 0.16
17 2 0.05
18 7 0.18
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:55251 original size:19 final size:19
Alignment explanation
Indices: 55199--55245 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
55189 TCGCAACGAG
55199 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
55218 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
*
55237 AAATTCGCA
1 AAAATCGCA
55246 TTGCGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.47, C:0.30, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:55267 original size:20 final size:19
Alignment explanation
Indices: 55240--55308 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 19
55230 CGAAACCAAA
55240 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
55259 TTCCGCATTGCGATTTTC--
1 TT-CGCATTGCGATTTTCAT
*
55277 -TCG--TTGCGA-TTTCAA
1 TTCGCATTGCGATTTTCAT
55292 TTCGCATTGCGATTTTC
1 TTCGCATTGCGATTTTC
55309 TCGTTGCGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 4 0.09
14 6 0.14
16 5 0.12
17 1 0.02
18 6 0.14
19 6 0.14
20 15 0.35
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:55283 original size:14 final size:14
Alignment explanation
Indices: 55266--55318 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
55256 CATTTCCGCA
55266 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
55280 TTGCGA-TTTCAATTCG
1 TTGCGATTTTC---TCG
55296 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
55312 TTGCGAT
1 TTGCGAT
55319 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 4 0.12
14 13 0.39
16 6 0.18
18 6 0.18
19 4 0.12
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:55302 original size:32 final size:33
Alignment explanation
Indices: 55246--55338 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
55236 CAAATTCGCA
*
55246 TTGCGATTTTCATTTCCGCATTGCGATTTTCTCG
1 TTGCGA-TTTCAATTCCGCATTGCGATTTTCTCG
55280 TTGCGATTTCAATT-CGCATTGCGATTTTCTCG
1 TTGCGATTTCAATTCCGCATTGCGATTTTCTCG
* * *
55312 TTGCGATAGTCATTTCCGCGTTGCGAT
1 TTGCGAT-TTCAATTCCGCATTGCGAT
55339 AGTCATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.47
33 12 0.23
34 16 0.30
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
TTGCGATTTCAATTCCGCATTGCGATTTTCTCG
Found at i:55387 original size:20 final size:20
Alignment explanation
Indices: 55310--55386 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
55300 GCGATTTTCT
55310 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
55330 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
55350 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
55370 TGTTGCGATAGTCATTT
1 CGTTGCGATAGTCATTT
55387 TGTCGTTGCG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:55394 original size:20 final size:20
Alignment explanation
Indices: 55303--55398 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 20
55293 TCGCATTGCG
*
55303 ATTTTCTCGTTGCGATAGTC
1 ATTTTGTCGTTGCGATAGTC
*
55323 ATTTCCG-CGTTGCGATAGTC
1 ATTT-TGTCGTTGCGATAGTC
*
55343 ATTTCCG-CGTTGCGATAGTC
1 ATTT-TGTCGTTGCGATAGTC
55363 ATTTTCGT-GTTGCGATAGTC
1 ATTTT-GTCGTTGCGATAGTC
55383 ATTTTGTCGTTGCGAT
1 ATTTTGTCGTTGCGAT
55399 TTTAAGTTTC
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
19 2 0.03
20 67 0.97
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.42
Consensus pattern (20 bp):
ATTTTGTCGTTGCGATAGTC
Found at i:55394 original size:40 final size:40
Alignment explanation
Indices: 55303--55398 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
55293 TCGCATTGCG
*
55303 ATTTTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTC
1 ATTTTGTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTC
* * *
55343 ATTTCCG-CGTTGCGATAGTCATTTTCGTGTTGCGATAGTC
1 ATTT-TGTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTC
55383 ATTTTGTCGTTGCGAT
1 ATTTTGTCGTTGCGAT
55399 TTTAAGTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.02
40 48 0.98
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.42
Consensus pattern (40 bp):
ATTTTGTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTC
Found at i:58642 original size:12 final size:12
Alignment explanation
Indices: 58625--58649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58615 TCTTCGGGGA
58625 CTTTTTCTTCTT
1 CTTTTTCTTCTT
58637 CTTTTTCTTCTT
1 CTTTTTCTTCTT
58649 C
1 C
58650 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:59626 original size:21 final size:20
Alignment explanation
Indices: 59595--59689 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
59585 GAACTTTGAA
* *
59595 AATCGCATTGCGATTATGTAT
1 AATCGCGTTGCGA-TATGTAG
* *
59616 TATCTCGTTGCGATA-GTCAG
1 AATCGCGTTGCGATATGT-AG
* * *
59636 AATCACGTTGCGATAGGCAG
1 AATCGCGTTGCGATATGTAG
* *
59656 AATCGCGTTGCGATTTTGTAT
1 AATCGCGTTGCGA-TATGTAG
*
59677 TATCGCGTTGCGA
1 AATCGCGTTGCGA
59690 AAGTCAGTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.03
20 30 0.52
21 26 0.45
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (20 bp):
AATCGCGTTGCGATATGTAG
Found at i:59667 original size:61 final size:61
Alignment explanation
Indices: 59595--59710 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
59585 GAACTTTGAA
* * *
59595 AATCGCATTGCGATTATGTATTATCTCGTTGCGATAGTCAGAATCACGTTGCGATAGGCAG
1 AATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCACATTGCGATAGGCAG
* * * *
59656 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGCATTGCGAT
1 AATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCACATTGCGAT
59711 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
AATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCACATTGCGATAGGCAG
Found at i:59702 original size:20 final size:20
Alignment explanation
Indices: 59616--59710 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
59606 GATTATGTAT
*
59616 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
59636 AATCACGTTGCGATAGGCAG
1 TATCGCGTTGCGATAGTCAG
* * *
59656 AATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
59677 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
59697 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
59711 TTTCCAAATT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
19 2 0.03
20 42 0.71
21 13 0.22
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:59743 original size:20 final size:21
Alignment explanation
Indices: 59699--59750 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
59689 AAAGTCAGTA
*
59699 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
59720 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
59740 TCGCATTGCGA
1 TCGCATTGCGA
59751 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:61904 original size:21 final size:22
Alignment explanation
Indices: 61865--61905 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
61855 AGTAAAACTT
*
61865 AGTGAGACAGAAATATAAATAA
1 AGTGAGACAGAAACATAAATAA
*
61887 AGTGATACA-AAACATAAAT
1 AGTGAGACAGAAACATAAAT
61906 TTCATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (22 bp):
AGTGAGACAGAAACATAAATAA
Found at i:62479 original size:18 final size:17
Alignment explanation
Indices: 62456--62561 Score: 113
Period size: 18 Copynumber: 6.1 Consensus size: 17
62446 TTATTAATCT
62456 ATATCTGATAACTATAAA
1 ATATCTGATAACTAT-AA
* ** *
62474 ATATCTTATATTTGTAA
1 ATATCTGATAACTATAA
* *
62491 TTATCTGATAACTGTAA
1 ATATCTGATAACTATAA
62508 ATCATCTGATAACTATAA
1 AT-ATCTGATAACTATAA
*
62526 ATATCTGATAACTAAAA
1 ATATCTGATAACTATAA
*
62543 ATCATCTGATAATTATAA
1 AT-ATCTGATAACTATAA
62561 A
1 A
62562 CATTTAGAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
17 32 0.44
18 41 0.56
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (17 bp):
ATATCTGATAACTATAA
Found at i:62501 original size:35 final size:36
Alignment explanation
Indices: 62456--62561 Score: 128
Period size: 35 Copynumber: 3.0 Consensus size: 36
62446 TTATTAATCT
* ** *
62456 ATATCTGATAACTATAAAAT-ATCTTATATTTGTAA
1 ATATCTGATAACTATAAAATCATCTGATAACTATAA
* *
62491 TTATCTGATAACTGT-AAATCATCTGATAACTATAA
1 ATATCTGATAACTATAAAATCATCTGATAACTATAA
*
62526 ATATCTGATAACTA-AAAATCATCTGATAATTATAA
1 ATATCTGATAACTATAAAATCATCTGATAACTATAA
62561 A
1 A
62562 CATTTAGAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
34 4 0.07
35 56 0.93
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (36 bp):
ATATCTGATAACTATAAAATCATCTGATAACTATAA
Found at i:68341 original size:21 final size:23
Alignment explanation
Indices: 68298--68342 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
68288 ATAAGATAAG
*
68298 TTAAAAAAATGAATTATCATCAAT
1 TTAAAAAAATG-ATAATCATCAAT
68322 TTAAAAAAATG-TAATC-TCAAT
1 TTAAAAAAATGATAATCATCAAT
68343 GATTAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
24 11 0.55
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
TTAAAAAAATGATAATCATCAAT
Found at i:68348 original size:23 final size:22
Alignment explanation
Indices: 68322--68375 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
68312 TATCATCAAT
68322 TTAAAAAAATGTAATCTCAA-TG
1 TTAAAAAAATGTAATC-CAAGTG
** *
68344 ATTAAACTAATTTAATCCAAGTG
1 -TTAAAAAAATGTAATCCAAGTG
68367 TTAAAAAAA
1 TTAAAAAAA
68376 ACATGTGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (22 bp):
TTAAAAAAATGTAATCCAAGTG
Found at i:68758 original size:12 final size:12
Alignment explanation
Indices: 68741--68774 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
68731 CATATCGTTC
68741 TCTTTCTTTTCA
1 TCTTTCTTTTCA
68753 TCTTTCTTTTCA
1 TCTTTCTTTTCA
68765 TCTTTCTTTT
1 TCTTTCTTTT
68775 ATGAATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTTTCTTTTCA
Found at i:77010 original size:52 final size:52
Alignment explanation
Indices: 76954--77080 Score: 238
Period size: 53 Copynumber: 2.4 Consensus size: 52
76944 TAAATTAAAT
76954 ATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATCATTTTTA
77006 ATTAGATAGAATCAGTTTTTTATTCTATTAGTTATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAG-TTTTTATTCTATTAGTTATTAGATAGGATCATTTTTA
77059 ATTAGATAGAATCA-TTTTTATT
1 ATTAGATAGAATCAGTTTTTATT
77081 ATGTTGCTAA
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
51 8 0.11
52 15 0.20
53 51 0.69
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.49
Consensus pattern (52 bp):
ATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATCATTTTTA
Found at i:77011 original size:20 final size:21
Alignment explanation
Indices: 76986--77025 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
76976 TCTATTAGTT
*
76986 ATTAGATAGGATCA-TTTTTA
1 ATTAGATAGAATCAGTTTTTA
77006 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTT
77026 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:77064 original size:20 final size:20
Alignment explanation
Indices: 77039--77078 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
77029 TCTATTAGTT
*
77039 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
77059 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
77079 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:81679 original size:20 final size:20
Alignment explanation
Indices: 81654--81744 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
81644 TAAATTAAAT
*
81654 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
81674 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
81694 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
81706 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
81726 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
81745 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:81731 original size:52 final size:52
Alignment explanation
Indices: 81653--81800 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
81643 CTAAATTAAA
*
81653 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
81705 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
81758 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
81801 ATGTTGCTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.37
53 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:81784 original size:20 final size:20
Alignment explanation
Indices: 81759--81798 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
81749 TCTATTAGTT
*
81759 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
81779 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
81799 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:85353 original size:39 final size:39
Alignment explanation
Indices: 85299--85377 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
85289 GGTTGTATCT
85299 TATGTAATTTCTTTTGGTTAATGAAATCTTTAGGCACTC
1 TATGTAATTTCTTTTGGTTAATGAAATCTTTAGGCACTC
85338 TATGTAATTTCTTTTGGTTAATGAAATCTTTAGGCACTC
1 TATGTAATTTCTTTTGGTTAATGAAATCTTTAGGCACTC
85377 T
1 T
85378 TTTCCTCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (39 bp):
TATGTAATTTCTTTTGGTTAATGAAATCTTTAGGCACTC
Found at i:104759 original size:23 final size:23
Alignment explanation
Indices: 104729--104774 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
104719 TAATCATTTA
*
104729 AGTACGTAAAGACCGATTCGGAT
1 AGTACGTAAAGACCGACTCGGAT
104752 AGTACGTAAAGACCGACTCGGAT
1 AGTACGTAAAGACCGACTCGGAT
104775 TGTTGTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (23 bp):
AGTACGTAAAGACCGACTCGGAT
Found at i:107034 original size:21 final size:21
Alignment explanation
Indices: 106983--107035 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
106973 ATTATGACTA
106983 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
107004 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
107025 TCGCAATGCGA
1 TCGCAATGCGA
107036 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:107050 original size:20 final size:21
Alignment explanation
Indices: 107025--107076 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
107015 TTTTCCCAAT
*
107025 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
**
107045 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTACGAAAA
107066 TCGCAATGCGA
1 TCGCAATGCGA
107077 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:107089 original size:41 final size:39
Alignment explanation
Indices: 107044--107174 Score: 111
Period size: 41 Copynumber: 3.2 Consensus size: 39
107034 GAATACGTAA
* * * *
107044 ATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATAT--AAAATCGCAACGAGATACTGACT
107085 ATCGCAACGCGATAATATAAAATCGCAACGAGATACTGACT
1 ATCGCAACGCG--AATATAAAATCGCAACGAGATACTGACT
* *** * *
107126 TTCGCAACGCG-ATACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATA-T-AAAATCGCAACGAGATACTGACT
107166 ATCGCAACG
1 ATCGCAACG
107175 AGATAATACA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
38 3 0.04
39 1 0.01
40 26 0.35
41 41 0.55
43 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (39 bp):
ATCGCAACGCGAATATAAAATCGCAACGAGATACTGACT
Found at i:107090 original size:20 final size:20
Alignment explanation
Indices: 107065--107179 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
107055 AATTTGGAAA
*
107065 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * **
107085 ATCGCAACGCGATAATATAAA
1 ATCGCAACGCGATACT-GACT
*
107106 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
107126 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
107146 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
107166 ATCGCAACGAGATA
1 ATCGCAACGCGATA
107180 ATACAGAATC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 63 0.81
21 15 0.19
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:107192 original size:61 final size:60
Alignment explanation
Indices: 107064--107199 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 60
107054 GAATTTGGAA
*
107064 AATCGCAATGCGATACTGACTATCGCAACGCGATAATATAAAATCGCAACGAGATACTGAC
1 AATCGCAATGCGATACTGACTATCGCAACGCGAT-ATATAAAATCGCAACGAGATAATGAC
** * * * **
107125 TTTCGCAACGCGATACTGACTTTCGCAACGCGAT-TCTGACTATCGCAACGAGATAAT-AC
1 AATCGCAATGCGATACTGACTATCGCAACGCGATATAT-AAAATCGCAACGAGATAATGAC
107184 AGAATCGCAATGCGAT
1 --AATCGCAATGCGAT
107200 TTTCAAAGCG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
59 4 0.07
60 16 0.26
61 41 0.67
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (60 bp):
AATCGCAATGCGATACTGACTATCGCAACGCGATATATAAAATCGCAACGAGATAATGAC
Found at i:107400 original size:22 final size:22
Alignment explanation
Indices: 107372--107419 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
107362 CTACGGCGAC
* *
107372 ATCCGTCCCCATCTTCGATGAA
1 ATCCGTCCCCATCTCCGACGAA
107394 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
107416 ATCC
1 ATCC
107420 ATCTATCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.23
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:107782 original size:19 final size:20
Alignment explanation
Indices: 107753--107831 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
107743 TTTAGTATTT
107753 GAAACTGAGAATCGCAAC-AC
1 GAAA-TGAGAATCGCAACGAC
107773 GAAATGAGAATCGCAACGAC
1 GAAATGAGAATCGCAACGAC
* ** **
107793 AAAATGACTATCGCAACGTG
1 GAAATGAGAATCGCAACGAC
**
107813 GAAATGACTATCGCAACGA
1 GAAATGAGAATCGCAACGA
107832 GAGAATCGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.25
20 38 0.75
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (20 bp):
GAAATGAGAATCGCAACGAC
Found at i:107927 original size:20 final size:20
Alignment explanation
Indices: 107904--107979 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
107894 CCACATTGCG
107904 ATTTTCTCGTTGCGATAGTC
1 ATTTTCTCGTTGCGATAGTC
* *
107924 ATTTCCGCGTTGCGATAGTC
1 ATTTTCTCGTTGCGATAGTC
107944 ATTTTCGT-GTTGCGATAGTC
1 ATTTTC-TCGTTGCGATAGTC
*
107964 ATTTTGTCGTTGCGAT
1 ATTTTCTCGTTGCGAT
107980 TTTAAGTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.98
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTTCTCGTTGCGATAGTC
Found at i:108715 original size:20 final size:19
Alignment explanation
Indices: 108689--108756 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
108679 GAAACTTAAA
108689 ATCGCAACGCGAAAATGAAT
1 ATCGCAACGCG-AAATGAAT
* **
108709 ATTGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAT
* *
108729 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAT
108748 ATCGCAACG
1 ATCGCAACG
108757 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 14 0.37
20 23 0.61
21 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAT
Found at i:108791 original size:19 final size:20
Alignment explanation
Indices: 108763--108816 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
108753 AACGACAAAA
*
108763 TCGCAATGCGAATTT-AGTT
1 TCGCATTGCGAATTTGAGTT
*
108782 TCGCATTGCG-ATTTGTGTT
1 TCGCATTGCGAATTTGAGTT
* *
108801 TCGCGTTGCGATTTTG
1 TCGCATTGCGAATTTG
108817 TCATTGCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.43
Consensus pattern (20 bp):
TCGCATTGCGAATTTGAGTT
Found at i:108825 original size:14 final size:14
Alignment explanation
Indices: 108806--108862 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
108796 GTGTTTCGCG
108806 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
*
108820 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTT--TGT--CA
*
108839 TTGCGATTTTGTCG
1 TTGCGATTTTGTCA
108853 TTGCGATTTT
1 TTGCGATTTT
108863 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 17 0.49
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 8 0.23
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCA
Found at i:108827 original size:33 final size:33
Alignment explanation
Indices: 108785--108878 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
108775 TTTAGTTTCG
* *
108785 CATTGCGATTTGT-GTTTCGCGTTGCGATTTTGT
1 CATTGCGATTT-TCATTTCGCATTGCGATTTTGT
108818 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
*
108851 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CATTGCGATTTTCATTTCGCATTGCGAT
108879 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 1 0.02
33 56 0.98
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:108897 original size:20 final size:19
Alignment explanation
Indices: 108863--108918 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
108853 TTGCGATTTT
*
108863 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
108882 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
108902 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
108919 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:108928 original size:20 final size:20
Alignment explanation
Indices: 108905--108948 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
108895 CGATAGTCAT
108905 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
108925 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
108945 TTTC
1 TTTC
108949 AGATTCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:109326 original size:21 final size:20
Alignment explanation
Indices: 109300--109369 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
109290 CTGTCATCCC
109300 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
109321 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
*
109342 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGTCCCCT-CCATCGT
109363 TCAAGAG
1 TCAAGAG
109370 GACACTGTCA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:109381 original size:42 final size:42
Alignment explanation
Indices: 109290--109381 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
109280 CCCGACTCAC
* * *
109290 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGACA
* *
109332 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGACA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGACA
109374 CTGTCATC
1 CTGTCATC
109382 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGACA
Found at i:110804 original size:14 final size:14
Alignment explanation
Indices: 110785--110820 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
110775 ATTGTTTAAT
110785 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
110799 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
110813 TGATTTGT
1 TGATTTGT
110821 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:110949 original size:20 final size:20
Alignment explanation
Indices: 110916--110954 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110906 ATGTTGAAGG
*
110916 CAAAACAGATTATCACAACA
1 CAAAACAGACTATCACAACA
* *
110936 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCACAAC
110955 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.28, G:0.08, T:0.15
Consensus pattern (20 bp):
CAAAACAGACTATCACAACA
Done.