Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004383.1 Hibiscus syriacus cultivar Beakdansim tig00009609_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: 135631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:4976 original size:32 final size:32
Alignment explanation
Indices: 4934--5043 Score: 105
Period size: 32 Copynumber: 3.5 Consensus size: 32
4924 GCTCATGTGT
* *
4934 ATTATATGAATACAACACTAACTCTGTTATAC
1 ATTATTTGAATACAACACTAACTCTGTTATGC
* * * *
4966 ATTATTTGAATGC-ATACTAACTTTGTTGTGC
1 ATTATTTGAATACAACACTAACTCTGTTATGC
* * ** *
4997 ATTATTTAAATGCAACACTAACTCCATTATGT
1 ATTATTTGAATACAACACTAACTCTGTTATGC
*
5029 ATTATCTGAATACAA
1 ATTATTTGAATACAA
5044 TATTGACTCT
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
31 26 0.43
32 35 0.57
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (32 bp):
ATTATTTGAATACAACACTAACTCTGTTATGC
Found at i:5000 original size:31 final size:32
Alignment explanation
Indices: 4946--5020 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 32
4936 TATATGAATA
*
4946 CAACACTAACTCTGTTATACATTATTTGAATG
1 CAACACTAACTCTGTTATACATTATTTAAATG
* * * *
4978 C-ATACTAACTTTGTTGTGCATTATTTAAATG
1 CAACACTAACTCTGTTATACATTATTTAAATG
5009 CAACACTAACTC
1 CAACACTAACTC
5021 CATTATGTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (32 bp):
CAACACTAACTCTGTTATACATTATTTAAATG
Found at i:5083 original size:32 final size:32
Alignment explanation
Indices: 4974--5079 Score: 81
Period size: 32 Copynumber: 3.3 Consensus size: 32
4964 ACATTATTTG
* * *
4974 AATGC-ATACTAACTTTGTTGTGCATT-ATTT
1 AATGCAATACTAACTCTATTGTGCATTAACTT
* * * * * *
5004 AAATGCAACACTAACTCCATTATGTATTATCTG
1 -AATGCAATACTAACTCTATTGTGCATTAACTT
* * *
5037 AATACAATATTGACTCTATTGTGCATTAACTT
1 AATGCAATACTAACTCTATTGTGCATTAACTT
5069 AATGCAATACT
1 AATGCAATACT
5080 GACTTTTCTA
Statistics
Matches: 53, Mismatches: 20, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
31 5 0.09
32 47 0.89
33 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (32 bp):
AATGCAATACTAACTCTATTGTGCATTAACTT
Found at i:5109 original size:32 final size:31
Alignment explanation
Indices: 5024--5142 Score: 96
Period size: 32 Copynumber: 3.7 Consensus size: 31
5014 CTAACTCCAT
* *
5024 TATGTATTATCTGAATACAATATTGACTCTAT-
1 TATGCATTATCTAAATACAATA-TGACT-TATC
* * * * *
5056 TGTGCATTAACTTAATGCAATACTGACTTTTC
1 TATGCATTATCTAAATACAATA-TGACTTATC
* * * *
5088 TATGAATTATCTAAATACAATATTAGCTCAAC
1 TATGCATTATCTAAATACAATATGA-CTTATC
5120 TATGCATTATCTAAATACAATAT
1 TATGCATTATCTAAATACAATAT
5143 TATAACTATT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
31 4 0.06
32 64 0.94
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39
Consensus pattern (31 bp):
TATGCATTATCTAAATACAATATGACTTATC
Found at i:7946 original size:19 final size:20
Alignment explanation
Indices: 7901--7950 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
7891 TTATGTTTGT
*
7901 AGTATCGATACTGACCCTTG
1 AGTATCGATACTCACCCTTG
*
7921 GGTATCGATACTCACCC-TG
1 AGTATCGATACTCACCCTTG
7940 AGTATCGATAC
1 AGTATCGATAC
7951 CAAAAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCACCCTTG
Found at i:15406 original size:21 final size:21
Alignment explanation
Indices: 15371--15411 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15361 ACATTCTAAC
* *
15371 TTAAAATCCATCATTTAATAA
1 TTAAAATCCAACATTGAATAA
*
15392 TTAAAATTCAACATTGAATA
1 TTAAAATCCAACATTGAATA
15412 CTCATAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (21 bp):
TTAAAATCCAACATTGAATAA
Found at i:16560 original size:30 final size:30
Alignment explanation
Indices: 16508--16595 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
16498 TGAAATATAT
* * *
16508 AACTTTTAAAAAC-TACATTTTGGTTC-CTA
1 AACTTTT-AAAACTTATAATTTGGTCCACTA
*
16537 AACTTTTTAAAATTTATAATTTGG-CCACTA
1 AAC-TTTTAAAACTTATAATTTGGTCCACTA
*
16567 AACTTTTAAAACTTATATTTTGGT-CACTA
1 AACTTTTAAAACTTATAATTTGGTCCACTA
16596 CCTAAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
29 31 0.63
30 18 0.37
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (30 bp):
AACTTTTAAAACTTATAATTTGGTCCACTA
Found at i:16574 original size:29 final size:30
Alignment explanation
Indices: 16534--16595 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
16524 ATTTTGGTTC
*
16534 CTAAACTTTTTAAAATTTATAATTTGGCCA
1 CTAAACTTTTTAAAACTTATAATTTGGCCA
* *
16564 CTAAAC-TTTTAAAACTTATATTTTGGTCA
1 CTAAACTTTTTAAAACTTATAATTTGGCCA
16593 CTA
1 CTA
16596 CCTAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (30 bp):
CTAAACTTTTTAAAACTTATAATTTGGCCA
Found at i:18076 original size:21 final size:20
Alignment explanation
Indices: 18026--18078 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
18016 CCACCCTTGG
* *
18026 GTATCGATACCTAATGAATA
1 GTATCGATACCCAATGAACA
* *
18046 ATATCAATACCCAATGAACA
1 GTATCGATACCCAATGAACA
18066 TGTATCGATACCC
1 -GTATCGATACCC
18079 CAACCAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCAATGAACA
Found at i:20155 original size:2 final size:2
Alignment explanation
Indices: 20148--20189 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
20138 ATTTAATGAT
20148 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
20190 AATTGTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20337 original size:40 final size:40
Alignment explanation
Indices: 20284--20360 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
20274 TATTACTTAA
* *
20284 GTTAAACAATTTAAATTGATGATTATATGTAAAAATTACT
1 GTTAAACAATTTAAATTAAAGATTATATGTAAAAATTACT
* *
20324 GTTAAA-AATTTTAATTTAAAGATTATATGTATAAATT
1 GTTAAACAA-TTTAAATTAAAGATTATATGTAAAAATT
20361 TATATATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (40 bp):
GTTAAACAATTTAAATTAAAGATTATATGTAAAAATTACT
Found at i:22009 original size:17 final size:18
Alignment explanation
Indices: 21979--22017 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
21969 AAATTGTCCT
* *
21979 TATTATATATTTGTATAA
1 TATTACATATTTGTAAAA
21997 TATTACATA-TTGTAAAA
1 TATTACATATTTGTAAAA
22014 TATT
1 TATT
22018 TATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTACATATTTGTAAAA
Found at i:22024 original size:18 final size:17
Alignment explanation
Indices: 21979--22025 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
21969 AAATTGTCCT
*
21979 TATTATATATTTGTATAA
1 TATTATATA-TTGTAAAA
*
21997 TATTACATATTGTAAAA
1 TATTATATATTGTAAAA
22014 TATTTATATATT
1 TA-TTATATATT
22026 TTCTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TATTATATATTGTAAAA
Found at i:27135 original size:5 final size:5
Alignment explanation
Indices: 26979--27198 Score: 54
Period size: 5 Copynumber: 43.2 Consensus size: 5
26969 AAAATGTAAG
* * * *
26979 AAAT- AAAT- AAATA AATTA AATTA AATTA AAATGA AGAA-A AAAT- AAATT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A A-AATA AAATA AAATA
* * ** *
27027 AAATAA AAGATA AGAT- AAAGA AAGCA AAGATA AAATA GTAAGTA AAAT-
1 AAAT-A AA-ATA AAATA AAATA AAATA AA-ATA AAATA --AAATA AAATA
* *
27075 AAATA TAAA-A AAATA AAGA-A AAAGA AGAA-A AATATA TAAATA AAA-C
1 AAATA -AAATA AAATA AA-ATA AAATA A-AATA AA-ATA -AAATA AAATA
* * *
27121 AAAT- AAATA AAATA ATAATAA AGAAGTA AAA-A TAATA TATATA TATATA
1 AAATA AAATA AAATA A-AAT-A A-AA-TA AAATA AAATA -AAATA -AAATA
27170 AAAT- AAAT- AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
27199 TAGTAAATAT
Statistics
Matches: 170, Mismatches: 18, Indels: 55
0.70 0.07 0.23
Matches are distributed among these distances:
4 43 0.25
5 77 0.45
6 33 0.19
7 16 0.09
8 1 0.01
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:27178 original size:53 final size:51
Alignment explanation
Indices: 27106--27283 Score: 193
Period size: 53 Copynumber: 3.4 Consensus size: 51
27096 AAGAAGAAAA
* * *
27106 ATATATAAATAAAACAAATAAATAAAATAATAATAAAGAAGTAAAAATAATAT
1 ATATATATATAAAATAAATAAATAAAATAATAATAAA-AA-TAATAATAATAT
*
27159 ATATATATATAAAATAAATAAATAAAATAA-AAT-AAAATAATAGTAAATAT
1 ATATATATATAAAATAAATAAATAAAATAATAATAAAAATAATAAT-AATAT
* * *
27209 ATATATATATATATATAAATTAATAAAACTGATAATAAAAA-AATAATATATAT
1 ATATATATATA-AAATAAATAAATAAAA-TAATAATAAAAATAATAATA-ATAT
*
27262 ATATATAATCTAAAA-AAATAAA
1 ATATAT-ATATAAAATAAATAAA
27284 AATATATACT
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
49 5 0.05
50 18 0.17
51 16 0.15
52 12 0.11
53 48 0.45
54 8 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (51 bp):
ATATATATATAAAATAAATAAATAAAATAATAATAAAAATAATAATAATAT
Found at i:27200 original size:13 final size:13
Alignment explanation
Indices: 26979--27194 Score: 75
Period size: 13 Copynumber: 16.8 Consensus size: 13
26969 AAAATGTAAG
26979 AAATAAATAAATA
1 AAATAAATAAATA
*
26992 AATTAAATTAAATTA
1 AAATAAA-TAAA-TA
* *
27007 AAATGAA-GAA-A
1 AAATAAATAAATA
27018 AAATAAATTAAATAA
1 AAATAAA-TAAAT-A
*
27033 AAGATAAGATAAA-G
1 AA-ATAA-ATAAATA
** *
27047 AAAGCAA-AGATA
1 AAATAAATAAATA
* *
27059 AAAT-AGTAAGTA
1 AAATAAATAAATA
27071 AAATAAAT--ATA
1 AAATAAATAAATA
*
27082 AAA-AAATAAAGA
1 AAATAAATAAATA
* *
27094 AAA-AGA-AGA-A
1 AAATAAATAAATA
*
27104 AAATATATAAATA
1 AAATAAATAAATA
*
27117 AAACAAATAAATA
1 AAATAAATAAATA
27130 AAAT-AAT-AATA
1 AAATAAATAAATA
27141 AAGA-AGTAA-AAATA
1 AA-ATA--AATAAATA
* *
27155 ATATATATATATATA
1 A-A-ATAAATAAATA
27170 AAATAAATAAATA
1 AAATAAATAAATA
27183 AAATAAAATAAA
1 AAAT-AAATAAA
27195 ATAATAGTAA
Statistics
Matches: 148, Mismatches: 30, Indels: 49
0.65 0.13 0.22
Matches are distributed among these distances:
10 8 0.05
11 25 0.17
12 24 0.16
13 42 0.28
14 22 0.15
15 17 0.11
16 9 0.06
17 1 0.01
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:28457 original size:39 final size:36
Alignment explanation
Indices: 28414--28504 Score: 128
Period size: 39 Copynumber: 2.4 Consensus size: 36
28404 CGAGGGTTTG
*
28414 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTGTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTT-T-T-T
* *
28453 GTGTTTCAAGAGAAACAATTTCGAGGGTTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
28489 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
28505 TGTCTCAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 17 0.35
37 1 0.02
38 1 0.02
39 30 0.61
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (36 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
Found at i:28530 original size:36 final size:36
Alignment explanation
Indices: 28490--28723 Score: 236
Period size: 36 Copynumber: 6.6 Consensus size: 36
28480 TTTTTTTTTG
*
28490 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
28526 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
28563 AG-TTCTAAAAGAAACTGTCTCAA-AGAAGACAAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAG-AGACAAAATT
* * * *
28599 TGTTTCAAGAAAAAGATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAGAAA-CTGTCTCAAGAGAGACAAAATT
* *
28628 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
28664 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
*
28701 TGTTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAGAGAAACTGTCTCAA
28724 AACTCGTTTT
Statistics
Matches: 168, Mismatches: 16, Indels: 27
0.80 0.08 0.13
Matches are distributed among these distances:
28 2 0.01
29 17 0.10
30 1 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 2 0.01
36 82 0.49
37 59 0.35
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:28724 original size:102 final size:102
Alignment explanation
Indices: 28524--28709 Score: 261
Period size: 102 Copynumber: 1.8 Consensus size: 102
28514 AGGGACAAAA
*
28524 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAAGA
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCTAAAAGAAACTGTCTCAAAGA
28589 AGACAAAATTTGTTTCAAGAAAAAGATATTCAAAGAT
66 AGACAAAATTTGTTTCAAGAAAAAGATATTCAAAGAT
** * **
28626 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAAATTTGTT-TCAAGGGAAACTGTCTC-AAG
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCT-AAAAGAAACTGTCTCAAAG
*
28688 AGAGACAAGATTTTGTTTCAAG
65 A-AGACAA-AATTTGTTTCAAG
28710 GGAAACTGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 5 0.07
101 28 0.38
102 41 0.55
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCTAAAAGAAACTGTCTCAAAGA
AGACAAAATTTGTTTCAAGAAAAAGATATTCAAAGAT
Found at i:28805 original size:37 final size:36
Alignment explanation
Indices: 28759--28854 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 36
28749 AAATATTTTG
*
28759 TGTTTCAAGGGAAACGTTTTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACGTTTTCAAGAGAGACAAAA-TT
* *
28796 TGTTTCAAGGGAAAC-TATCTCAAGAGATACAAAATT
1 TGTTTCAAGGGAAACGT-TTTCAAGAGAGACAAAATT
** * *
28832 AATTTCAAAGGAAATGTTTTCAA
1 TGTTTCAAGGGAAACGTTTTCAA
28855 TGTTTATGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
36 19 0.39
37 30 0.61
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGGGAAACGTTTTCAAGAGAGACAAAATT
Found at i:28893 original size:102 final size:102
Alignment explanation
Indices: 28759--28971 Score: 320
Period size: 102 Copynumber: 2.1 Consensus size: 102
28749 AAATATTTTG
* * * * * *
28759 TGTTTCAAGGGAAACGTTTTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAT
1 TGTTTCAAGAGAAACGTTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTACCCCAAGAGAG
28824 ACAAAATTAATTTCAAAGGAAATGTTTTCAATGTTTA
66 ACAAAATTAATTTCAAAGGAAATGTTTTCAATGTTTA
*
28861 TGTTTCAAGAGAAAC-TGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGA
1 TGTTTCAAGAGAAACGT-TCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTACCCCAAGAGA
* * *
28925 GATAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
65 GACAAAATTAATTTCAAAGGAAATGTTTTCAATGTTTA
28963 TGTTTCAAG
1 TGTTTCAAG
28972 GGAGACAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 99 0.99
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (102 bp):
TGTTTCAAGAGAAACGTTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTACCCCAAGAGAG
ACAAAATTAATTTCAAAGGAAATGTTTTCAATGTTTA
Found at i:28971 original size:87 final size:87
Alignment explanation
Indices: 28880--29064 Score: 307
Period size: 87 Copynumber: 2.1 Consensus size: 87
28870 AGAAACTGTC
* *
28880 TCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAAACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGAG
28945 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* * * *
28967 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTTATTTCAAGAG
1 TCAAGGGAAACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGAG
29032 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
*
29054 TCAAGAGAAAC
1 TCAAGGGAAAC
29065 TGTCTCAAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (87 bp):
TCAAGGGAAACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGAG
AAATGTTTTCAATGTTTATGTT
Found at i:29158 original size:189 final size:188
Alignment explanation
Indices: 28776--29163 Score: 507
Period size: 189 Copynumber: 2.1 Consensus size: 188
28766 AGGGAAACGT
*
28776 TTTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGATACAAAATTAATTTCAAA
1 TTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGATA-AAAATTAATTTCAAA
* *
28841 GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAA
65 GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTAGTTCCAA
** * * * * * *
28906 GGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATG
130 AAGAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAAAGTATTCAATATTTATG
*
28965 TTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGAT-AAAATTTATTTC-A
1 TTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAA--GAGATAAAAATTAATTTCAA
*
29028 AGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCC
64 AG-GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTAGTTCC
** * * * *
29093 AAAAGAAAATGTCTCAAGGGAGACGAAA-TTAGTTTCAATGAAAACAG-ATTCAAATATTT-TG
128 AAAAGAAAATACCCCAAGCGAGACAAAATTTA-TTTCAAGGAAAA-AGTATTC-AATATTTATG
29154 TTTCAAGGGA
1 TTTCAAGGGA
29164 AACTTGGAAA
Statistics
Matches: 174, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
188 6 0.03
189 156 0.90
190 7 0.04
191 5 0.03
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (188 bp):
TTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGATAAAAATTAATTTCAAAG
GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTAGTTCCAAA
AGAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAAAGTATTCAATATTTATG
Found at i:29500 original size:106 final size:106
Alignment explanation
Indices: 29363--29637 Score: 383
Period size: 106 Copynumber: 2.6 Consensus size: 106
29353 CTGGAACTAA
* * ** * *
29363 GAAATTGTTTGTTGACAGCCAGCCACCCCTTCGCTATGAAGTTGAGA-TTGTGCTGTCTCGAGTC
1 GAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTATGAAGTTGA-ACTTGTGTTGTCTCGAGTC
29427 CAATATTC-TTCGCTGTGAAGTTGAAATTAGCTCCGAAATTGG
65 CAATA-TCATTCGCTGTGAAGTTGAAATTAGCTCCGAAATTGG
* * ** *
29469 GAAATTGTTTGTTGACAACTAGTTGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTCAAGTCC
1 GAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTCGAGTCC
*
29534 AATATCATTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGG
66 AATATCATTCGCTGTGAAGTTGAAATTAGCTCCGAAATTGG
* * *
29575 GAAATTATTTGTTGACAACCAGCCGTCTCTTCGTTGTGGAGTTGAACTTGTGTTGTCTCGAGT
1 GAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTCGAGT
29638 GGCACGATAT
Statistics
Matches: 149, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
105 3 0.02
106 146 0.98
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (106 bp):
GAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTCGAGTCC
AATATCATTCGCTGTGAAGTTGAAATTAGCTCCGAAATTGG
Found at i:30300 original size:32 final size:32
Alignment explanation
Indices: 30214--30301 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
30204 TTTTCATCAA
* *
30214 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-ACAAAGATGCCCCAACATTC
* * * *
30246 AATGTTGAATCTAAAAAAATGCCCCAACATTT
1 GATGTTGAATCTACAAAGATGCCCCAACATTC
*
30278 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTACAAAGATGCCC
30302 TCATTGTTCC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
32 44 0.98
33 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTACAAAGATGCCCCAACATTC
Found at i:31342 original size:69 final size:69
Alignment explanation
Indices: 31228--31365 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
31218 TGTCTCTCTC
* ** * * *
31228 TTGATGCTCTATGATCTTCAAGTGGAGTGATTCAGTGATTTAGAAATGATTGTGATTGATCAATC
1 TTGATGCTCTATGATCTTCAAGTGAAGTGATTCAAAGATTCAGAAATAATTATGATTGATCAATC
31293 TCAT
66 TCAT
* * *
31297 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAAAGATTCAGAAATAATTATGCTTGATCAATC
1 TTGATGCTCTATGATCTTCAAGTGAAGTGATTCAAAGATTCAGAAATAATTATGATTGATCAATC
31362 TCAT
66 TCAT
31366 AGTTTGAATC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCAAGTGAAGTGATTCAAAGATTCAGAAATAATTATGATTGATCAATC
TCAT
Found at i:31462 original size:21 final size:21
Alignment explanation
Indices: 31438--31489 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
31428 TTTCCTTTGA
* *
31438 TTTTCCTTTGTTTTTTTATCT
1 TTTTACTTTGTCTTTTTATCT
* *
31459 TTTTATTTTATCTTTTTATCT
1 TTTTACTTTGTCTTTTTATCT
*
31480 TTTTGCTTTG
1 TTTTACTTTG
31490 ATTAAATCTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTTACTTTGTCTTTTTATCT
Found at i:31467 original size:13 final size:13
Alignment explanation
Indices: 31451--31477 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31441 TCCTTTGTTT
31451 TTTTATCTTTTTA
1 TTTTATCTTTTTA
31464 TTTTATCTTTTTA
1 TTTTATCTTTTTA
31477 T
1 T
31478 CTTTTTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATCTTTTTA
Found at i:31967 original size:69 final size:69
Alignment explanation
Indices: 31852--31989 Score: 197
Period size: 69 Copynumber: 2.0 Consensus size: 69
31842 TGTTTCTCTC
* ** * *
31852 TTGATGCTCTATGATCTTCATGTGGAGTGATTCAGTGATTTAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCATGTGAAGTGATTCAAAGATTCAGAAATGATTGTGCTTAATCAATC
31917 TCAT
66 TCAT
* *
31921 TTGATGCTCTATGATCTTCGA-GTGAAGTGGTTCAAAGATTCGGAAATGATTGTGCTTAATCAAT
1 TTGATGCTCTATGATCTTC-ATGTGAAGTGATTCAAAGATTCAGAAATGATTGTGCTTAATCAAT
31985 CTCAT
65 CTCAT
31990 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 60 0.98
70 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCATGTGAAGTGATTCAAAGATTCAGAAATGATTGTGCTTAATCAATC
TCAT
Found at i:35143 original size:9 final size:9
Alignment explanation
Indices: 35125--35202 Score: 66
Period size: 9 Copynumber: 8.3 Consensus size: 9
35115 AAATAGTAAG
*
35125 TAAAATAAA
1 TAAAAAAAA
35134 TAAAAAAAA
1 TAAAAAAAA
35143 TAAAGAAAAA
1 TAAA-AAAAA
35153 TAAAGAAAAA
1 TAAA-AAAAA
*
35163 GAAGAAAAAA
1 TAA-AAAAAA
* * *
35173 TTATATAAA
1 TAAAAAAAA
*
35182 TAAAACAAA
1 TAAAAAAAA
*
35191 TAAATAAAA
1 TAAAAAAAA
35200 TAA
1 TAA
35203 TAATAAAGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 32 0.57
10 23 0.41
11 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:35219 original size:47 final size:48
Alignment explanation
Indices: 35129--35226 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 48
35119 AGTAAGTAAA
*
35129 ATAAATAAAAAAAATAAAGAAAAATAAAGAAAAAGAAGAAAAAATTAT
1 ATAAATAAAAAAAATAAAGAAAAATAAAGAAAAAGAAGAAAAAATAAT
* * * *
35177 ATAAATAAAACAAATAAA-TAAAATAATA-ATAAAGAAGTAAAAATAAT
1 ATAAATAAAAAAAATAAAGAAAAATAA-AGAAAAAGAAGAAAAAATAAT
35224 ATA
1 ATA
35227 TATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
47 26 0.59
48 18 0.41
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (48 bp):
ATAAATAAAAAAAATAAAGAAAAATAAAGAAAAAGAAGAAAAAATAAT
Found at i:35306 original size:42 final size:40
Alignment explanation
Indices: 35199--35347 Score: 131
Period size: 42 Copynumber: 3.5 Consensus size: 40
35189 AATAAATAAA
* *
35199 ATAAT-AATAAAGAAGTAAAAATAATATATATATATATATATAT
1 ATAATAAATAAA-AAAT-AAAA-AATA-ATAAATATATATATAT
*
35242 ATAATAAATAAAAAATAAAAAATAGTAAATATATATATAT
1 ATAATAAATAAAAAATAAAAAATAATAAATATATATATAT
* * *
35282 A-AATTAATAAAACTGATAATAAAATAATATATATATATATAT
1 ATAATAAATAAAA--AATAA-AAAATAATAAATATATATATAT
*
35324 ATATATAATCTAAAAAAATAAAAA
1 ATA-ATAA-AT-AAAAAATAAAAA
35348 TATATATTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
39 10 0.11
40 15 0.17
41 8 0.09
42 25 0.28
43 12 0.14
44 13 0.15
45 1 0.01
46 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (40 bp):
ATAATAAATAAAAAATAAAAAATAATAAATATATATATAT
Found at i:36206 original size:21 final size:21
Alignment explanation
Indices: 36155--36207 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
36145 ATTATGACTA
36155 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
36176 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
36197 TCGCAATGCGA
1 TCGCAATGCGA
36208 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:36240 original size:21 final size:20
Alignment explanation
Indices: 36197--36244 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
36187 TTTTCCCAAT
*
36197 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
36217 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
36238 TCGCAAT
1 TCGCAAT
36245 ACGATACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:36262 original size:20 final size:20
Alignment explanation
Indices: 36237--36304 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
36227 AATTTGGAAA
36237 ATCGCAATACG-ATACTGACT
1 ATCGCAATACGAAT-CTGACT
* *
36257 ATCGCAATGCGAATCTTACT
1 ATCGCAATACGAATCTGACT
* *
36277 ATCGCAATGCGAATCTTACT
1 ATCGCAATACGAATCTGACT
*
36297 ATCACAAT
1 ATCGCAAT
36305 GCGATTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (20 bp):
ATCGCAATACGAATCTGACT
Found at i:36305 original size:20 final size:20
Alignment explanation
Indices: 36254--36308 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
36244 TACGATACTG
36254 ACTATCGCAATGCGAATCTT
1 ACTATCGCAATGCGAATCTT
36274 ACTATCGCAATGCGAATCTT
1 ACTATCGCAATGCGAATCTT
*
36294 ACTATCACAATGCGA
1 ACTATCGCAATGCGA
36309 TTTACATAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (20 bp):
ACTATCGCAATGCGAATCTT
Found at i:36575 original size:27 final size:27
Alignment explanation
Indices: 36518--36570 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36508 CATCGCCGGC
* *
36518 GAAATCCCTCACAACCATTCACAGTCA
1 GAAATCCCTCACAACCATTCAAAATCA
*
36545 GAAATCCCTCACAATCATTCAGAAAT
1 GAAATCCCTCACAACCATTCA-AAAT
36571 GGAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.21
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCAAAATCA
Found at i:36888 original size:19 final size:19
Alignment explanation
Indices: 36824--36897 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
36814 TAGTTTCGAG
36824 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
36844 AAT-AAATATCGCAA--CG-
1 AATGAAA-ATCGCAACGCGA
*
36860 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
36877 AATGAAAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
36896 AA
1 AA
36898 CCAAAATCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 7 0.16
15 3 0.07
16 2 0.04
17 1 0.02
18 2 0.04
19 20 0.44
20 10 0.22
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:36903 original size:19 final size:19
Alignment explanation
Indices: 36864--36905 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
36854 GCAACGAGAG
**
36864 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
36883 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
36902 AATC
1 AATC
36906 ACATTGCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:36949 original size:33 final size:33
Alignment explanation
Indices: 36907--37005 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
36897 ACCAAAATCA
36907 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
36940 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
* **
36973 CGTTGCGATAGTCATTTCTGCGTTGCGATTCTC
1 CATTGCGATTTTCATTTC-GCGTTGCGATTCTC
37006 ATTATCTCGT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 48 0.77
34 14 0.23
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.43
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:37022 original size:20 final size:19
Alignment explanation
Indices: 36909--37030 Score: 84
Period size: 20 Copynumber: 6.8 Consensus size: 19
36899 CAAAATCACA
* *
36909 TTGCGATTTTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
*
36928 TTGCGA-T-TC---TCTCA
1 TTGCGATTCTCATTTCTCG
* *
36942 TTGCGATTTTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
36961 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
**
36975 TTGCGATAGTCATTTCTGCG
1 TTGCGATTCTCATTTCT-CG
36995 TTGCGATTCTCATTATCTCG
1 TTGCGATTCTCATT-TCTCG
*
37015 TTGCGATTTTCATTTC
1 TTGCGATTCTCATTTC
37031 AACCAAAAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.23
15 1 0.01
16 4 0.05
17 4 0.05
18 2 0.02
19 20 0.24
20 29 0.35
21 3 0.04
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTCTCATTTCTCG
Found at i:39199 original size:21 final size:21
Alignment explanation
Indices: 39175--39241 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
39165 TCATTCCTCG
39175 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
39196 AGAGGCCACTATCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
39217 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
39238 AGAG
1 AGAG
39242 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:39199 original size:42 final size:42
Alignment explanation
Indices: 39123--39241 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 42
39113 AACTCGCCTG
* * * *
39123 TCATCCCTC-AAGA-GTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCAT-CCTCGAAGAGGTCC-CTCCCACCATTCAAGAGGCCACTA
*
39165 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAGGCCACTA
1 TCA-TCCTCGAAGAGGT-CCCTCCCACCATTCAAGAGGCCACTA
* *
39207 TCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAG
39242 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 4 0.06
42 55 0.86
43 5 0.08
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAGGCCACTA
Found at i:40611 original size:14 final size:14
Alignment explanation
Indices: 40592--40627 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
40582 ATTATTTAAT
40592 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
40606 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
40620 TGATTTGT
1 TGATTTGT
40628 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:40758 original size:19 final size:19
Alignment explanation
Indices: 40734--40780 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
40724 AAAAAGTACT
*
40734 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
40753 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
40772 ATCGCAACG
1 ATCGCAACG
40781 AGAGAATCGC
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:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:40818 original size:19 final size:19
Alignment explanation
Indices: 40796--40916 Score: 92
Period size: 19 Copynumber: 7.2 Consensus size: 19
40786 ATCGCAACGT
40796 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
**
40815 GA--TTC-CCTCG--TTGC
1 GATTTTCATTTCGCATTGC
40829 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
* *
40848 GA-----AATTCGCGTTGC
1 GATTTTCATTTCGCATTGC
40862 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
*
40881 GA--TTC---TCTCATTGC
1 GATTTTCATTTCGCATTGC
40895 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
40914 GAT
1 GAT
40917 AGTAATTTCC
Statistics
Matches: 77, Mismatches: 10, Indels: 30
0.66 0.09 0.26
Matches are distributed among these distances:
14 28 0.36
16 9 0.12
17 9 0.12
19 31 0.40
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (19 bp):
GATTTTCATTTCGCATTGC
Found at i:40833 original size:33 final size:32
Alignment explanation
Indices: 40796--40916 Score: 181
Period size: 33 Copynumber: 3.7 Consensus size: 32
40786 ATCGCAACGT
40796 GATTTTCATTTCGCATTGCGATTCCCTCGTTGC
1 GATTTTCATTTCGCATTGCGATT-CCTCGTTGC
*
40829 GATTTTCATTTCGCATTGCGAAATT-CGCGTTGC
1 GATTTTCATTTCGCATTGCG--ATTCCTCGTTGC
*
40862 GATTTTCATTTCGCATTGCGATTCTCTCATTGC
1 GATTTTCATTTCGCATTGCGATTC-CTCGTTGC
40895 GATTTTCATTTCGCATTGCGAT
1 GATTTTCATTTCGCATTGCGAT
40917 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
31 3 0.04
33 75 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (32 bp):
GATTTTCATTTCGCATTGCGATTCCTCGTTGC
Found at i:43226 original size:12 final size:12
Alignment explanation
Indices: 43209--43245 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
43199 TCTTCGGGGA
43209 CTTTTTCTTCTT
1 CTTTTTCTTCTT
43221 CTTTTTCTTCTT
1 CTTTTTCTTCTT
43233 CTTTTTCTTCTT
1 CTTTTTCTTCTT
43245 C
1 C
43246 AGGAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:44584 original size:20 final size:20
Alignment explanation
Indices: 44559--44626 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
44549 CAACGGGGAA
44559 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ****
44579 ATCGCAATTCG-AAATAAAAA
1 ATCGCAACGCGAAAAT-GGCT
44599 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
44619 ATCGCAAC
1 ATCGCAAC
44627 TAGAAAATCG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 4 0.12
20 26 0.76
21 4 0.12
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:44639 original size:34 final size:34
Alignment explanation
Indices: 44543--44646 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
44533 ATTCATTTGA
** *
44543 CTATCGCAACGGGGAAATCGCAACGCGAAAATGG
1 CTATCGCAACTAGAAAATCGCAACGCGAAAATGG
*
44577 CTATCGCAATTCGAAATAAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C----TAGAAAATCGCAACGCGAAAATGG
*
44617 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACTAGAAAATCGCAACGCGAAA
44647 TGAAAATCGC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 27 0.47
36 1 0.02
38 1 0.02
40 29 0.50
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.15
Consensus pattern (34 bp):
CTATCGCAACTAGAAAATCGCAACGCGAAAATGG
Found at i:44694 original size:19 final size:19
Alignment explanation
Indices: 44653--44720 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
44643 GAAATGAAAA
44653 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
44669 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
44686 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
44705 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
44721 TCGTTGCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:44696 original size:52 final size:53
Alignment explanation
Indices: 44634--44741 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 53
44624 AACTAGAAAA
* *
44634 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCA-TT
1 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCAATATTCAGTT
* ** ** **
44686 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCAATATTCAGTT
1 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCAATATTCAGTT
44739 TCG
1 TCG
44742 TGTTGCGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 41 0.89
53 5 0.11
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (53 bp):
TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCAATATTCAGTT
Found at i:46349 original size:40 final size:42
Alignment explanation
Indices: 46305--46395 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
46295 CCTCTTCAAC
* *
46305 GATGACAGTGGCCTCTTGAATG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
46345 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
*
46387 AATGACAGG
1 GATGACAGG
46396 TGAGTCGGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 19 0.44
41 3 0.07
42 21 0.49
ACGTcount: A:0.22, C:0.14, G:0.41, T:0.23
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:46784 original size:20 final size:20
Alignment explanation
Indices: 46770--46834 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
46760 TGCAACGCTA
46770 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
*
46790 AAATGACTATCACAACGCGG
1 AAATGACTATCGCAACGCGG
* *
46810 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
46829 AAATGA
1 AAATGA
46835 AAATTGCAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 6 0.15
20 34 0.85
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:46860 original size:33 final size:33
Alignment explanation
Indices: 46818--46897 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
46808 GGAAATGGCT
**
46818 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
46851 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
*
46884 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
46898 CACAAATCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGACAAA
Found at i:46872 original size:19 final size:19
Alignment explanation
Indices: 46818--46872 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
46808 GGAAATGGCT
46818 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
46837 ATTGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
46851 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
46870 ATC
1 ATC
46873 ACAACGACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 12 0.44
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:46926 original size:19 final size:19
Alignment explanation
Indices: 46904--46997 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 19
46894 GAAACACAAA
46904 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
46923 TCGCGTTTCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
46939 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
46956 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
46972 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
46989 TCGCATTGC
1 TCGCATTGC
46998 AATAGCCATT
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 11 0.19
15 6 0.10
16 8 0.14
17 8 0.14
18 6 0.10
19 19 0.33
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:46948 original size:14 final size:14
Alignment explanation
Indices: 46926--46984 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
46916 TTTCATTTCG
*
46926 CGTTTCGATTTTGT
1 CGTTGCGATTTTGT
*
46940 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
46957 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
46973 CGTTGCGATTTT
1 CGTTGCGATTTT
46985 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:46951 original size:33 final size:33
Alignment explanation
Indices: 46909--46997 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
46899 ACAAATCGCA
* *
46909 TTGCGATTTTCATTTCGCGTTTCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
46942 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
46975 TTGCGATTTTCATTTCGCATTGC
1 TTGCGATTTTCATTTCGCATTGC
46998 AATAGCCATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:47022 original size:20 final size:19
Alignment explanation
Indices: 46985--47039 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
46975 TTGCGATTTT
* *
46985 CATTTCGCATTGCAATAGC
1 CATTTCGCGTTGCGATAGC
*
47004 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
47024 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
47040 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:47603 original size:18 final size:18
Alignment explanation
Indices: 47580--47627 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
47570 TGGGTCGATC
47580 AGGTGATGGCTCTGAGTG
1 AGGTGATGGCTCTGAGTG
* *
47598 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGAGTG
47616 AGGTGATGGCTC
1 AGGTGATGGCTC
47628 CCGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGAGTG
Found at i:48986 original size:20 final size:20
Alignment explanation
Indices: 48938--48996 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
48928 AATAGTTTCT
* *
48938 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
48958 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
48978 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
48997 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:49286 original size:22 final size:22
Alignment explanation
Indices: 49259--49302 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49249 GATGGAGATA
*
49259 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAAATGGG
*
49281 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGCCGGAAATGGG
49303 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAAATGGG
Found at i:49520 original size:20 final size:20
Alignment explanation
Indices: 49495--49622 Score: 105
Period size: 20 Copynumber: 6.3 Consensus size: 20
49485 GTATTATCTC
*
49495 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
49515 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
49535 GTTGCGAAAGTCAGTATCGT
1 GTTGCGAAAGTCAGTATCGA
** * *
49555 GTTGCGATTTTGT-ATTATCGC
1 GTTGCGA--AAGTCAGTATCGA
* * *
49576 GTTGCGATAGTCAGTACCGC
1 GTTGCGAAAGTCAGTATCGA
* * *
49596 GTTGCGATAGTCAGTACCGC
1 GTTGCGAAAGTCAGTATCGA
49616 GTTGCGA
1 GTTGCGA
49623 TTTTCCAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 3 0.03
20 74 0.80
21 13 0.14
22 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:49588 original size:41 final size:41
Alignment explanation
Indices: 49475--49603 Score: 143
Period size: 41 Copynumber: 3.2 Consensus size: 41
49465 GAAAATCGCA
* * *
49475 TTGCGATTATGTATTATCTCGTTGCGAAAGTCAGTATTGAG
1 TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
** * * * *
49516 TTGCGAAATT-AAGTATCGAGTTGCGAAAGTCAGTATCGTG
1 TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
* * *
49556 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTACCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
49597 TTGCGAT
1 TTGCGAT
49604 AGTCAGTACC
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 32 0.46
41 38 0.54
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (41 bp):
TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
Found at i:49643 original size:21 final size:21
Alignment explanation
Indices: 49617--49684 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
49607 CAGTACCGCG
49617 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
49638 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
* **
49659 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTCCAAATTCGCA
49679 TTGCGA
1 TTGCGA
49685 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCA
Found at i:49726 original size:21 final size:22
Alignment explanation
Indices: 49674--49726 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
49664 ATTTACTTAT
49674 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
49695 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
49716 TCGCATTGCGA
1 TCGCATTGCGA
49727 TAGTCATAAT
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:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:51592 original size:19 final size:19
Alignment explanation
Indices: 51568--51611 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
51558 GTTTGGTTTG
51568 TATATAAGA-TTATTCTAAA
1 TATATAAGATTTATT-TAAA
*
51587 TATATAAGATTTATTTAGA
1 TATATAAGATTTATTTAAA
51606 TATATA
1 TATATA
51612 TTTTATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TATATAAGATTTATTTAAA
Found at i:51858 original size:3 final size:3
Alignment explanation
Indices: 51845--51893 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
51835 CTATAAAAAG
51845 ATT ATTT ATT ATT ATT ATT ATT A-T ATT A-T ATT ATT ATT ATT ATGT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
51890 ATT A
1 ATT A
51894 ATTTACTTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.10
3 32 0.76
4 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:51866 original size:16 final size:16
Alignment explanation
Indices: 51845--51893 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
51835 CTATAAAAAG
51845 ATTATTTATTATTATT
1 ATTATTTATTATTATT
51861 ATTATTATATTA-TATT
1 ATTATT-TATTATTATT
51877 ATTA-TTATTATGTATT
1 ATTATTTATTAT-TATT
51893 A
1 A
51894 ATTTACTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.17
15 1 0.03
16 19 0.63
17 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTATTTATTATTATT
Found at i:51876 original size:19 final size:19
Alignment explanation
Indices: 51845--51893 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
51835 CTATAAAAAG
51845 ATTATTTATTATTATTATT
1 ATTATTTATTATTATTATT
51864 ATTATATTA-TATTATTATT
1 ATTAT-TTATTATTATTATT
*
51883 ATTATGTATTA
1 ATTATTTATTA
51894 ATTTACTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 22 0.81
20 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTATTTATTATTATTATT
Found at i:54013 original size:36 final size:36
Alignment explanation
Indices: 53973--54047 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
53963 TAATAATAAA
53973 ATAATAAAAATAAATG-TTTCAAAAACTATATAATAT
1 ATAATAAAAA-AAATGTTTTCAAAAACTATATAATAT
*** *
54009 ATAATTTCAAAAATGTTTTTAAAAACTATATAATAT
1 ATAATAAAAAAAATGTTTTCAAAAACTATATAATAT
54045 ATA
1 ATA
54048 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (36 bp):
ATAATAAAAAAAATGTTTTCAAAAACTATATAATAT
Found at i:54070 original size:36 final size:37
Alignment explanation
Indices: 53984--54412 Score: 271
Period size: 36 Copynumber: 10.8 Consensus size: 37
53974 TAATAAAAAT
* *
53984 AAATGTTTCAAAAACTATATAATATATA-A-TTTCAA
1 AAATGTTTTAAAAACTATATAATATATATATTTTTAA
**
54019 AAATGTTTTTAAAAACTATATAATATATATATTTTTTT
1 AAATG-TTTTAAAAACTATATAATATATATATTTTTAA
* *
54057 AAATGTTTT-AAAACTATATATTATATATAAGTTTTCAA
1 AAATGTTTTAAAAACTATATAATATATAT-A-TTTTTAA
* * *
54095 AAATGTTTTAAAAACTAAATATTATATATAAGTTTTCAAA
1 AAATGTTTTAAAAACTATATAATATATAT-A-TTTT-TAA
*
54135 AAATGTTTTAAAAACTATATATTAGATATATATATATATATTCA
1 AAATGTTTTAAAAAC--TATA-TA-ATATATATAT-T-T-TTAA
*
54179 AAATGTTTTAAAAAAACTATATAATATATATATTTTTTCA
1 AAATGTTTT--AAAAACTATATAATATATATA-TTTTTAA
* *
54219 AAATGTTTTTTTTCTTCTGAAAACTATATAATATAAAAATATTTTT-A
1 AAATG-------T-TT-TAAAAACTATATAATAT--ATATATTTTTAA
* * *
54266 AAATGTTTTCAAAACTATATATTATATATA-TTTTAG
1 AAATGTTTTAAAAACTATATAATATATATATTTTTAA
*
54302 AAATGTTTTCATAAACTATATAATATATATATATTTTCGAA
1 AAATGTTTT-AAAAACTATATAATATATATAT-TTTT--AA
* * *
54343 AAAAGTTTTCTGAAAATTATAT-AT-TATAT-TTTTTAA
1 AAATG-TTT-TAAAAACTATATAATATATATATTTTTAA
** *
54379 AAACATTTTCAAAAATTATACTATATATATATAT
1 AAATGTTTT-AAAAACTATA-TA-ATATATATAT
54413 ATATATATAT
Statistics
Matches: 321, Mismatches: 31, Indels: 79
0.74 0.07 0.18
Matches are distributed among these distances:
34 1 0.00
35 21 0.07
36 59 0.18
37 24 0.07
38 42 0.13
39 37 0.12
40 33 0.10
41 8 0.02
42 25 0.08
43 8 0.02
44 22 0.07
45 1 0.00
46 6 0.02
47 22 0.07
48 7 0.02
49 5 0.02
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
AAATGTTTTAAAAACTATATAATATATATATTTTTAA
Found at i:54085 original size:40 final size:41
Alignment explanation
Indices: 53999--54416 Score: 217
Period size: 40 Copynumber: 10.3 Consensus size: 41
53989 TTTCAAAAAC
* *
53999 TATATAATATATAATTTCAAAAATGTTTTTAAAAACTATATA-
1 TATAT-ATATATATTTTTAAAAATG-TTTTAAAAACTATATAT
*
54041 -ATATATATAT-TTTTT-TAAATGTTTT-AAAACTATATAT
1 TATATATATATATTTTTAAAAATGTTTTAAAAACTATATAT
* * *
54078 TATATATA-A-GTTTTCAAAAATGTTTTAAAAACTAAATAT
1 TATATATATATATTTTTAAAAATGTTTTAAAAACTATATAT
**
54117 TATATATA-AGT-TTTCAAAAAATGTTTTAAAAACTATATAT
1 TATATATATA-TATTTTTAAAAATGTTTTAAAAACTATATAT
* *
54157 TAGATATATATATATATATTCAAAATGTTTTAAAAAAACTATATA-
1 T--ATATATATATAT-TTTTAAAAATGTTTT--AAAAACTATATAT
* *
54202 -ATATATATAT-TTTTTCAAAATGTTTTTTTTCTTCTGAAAACTATATA-
1 TATATATATATATTTTTAAAAATG-------T-TT-TAAAAACTATATAT
* * *
54249 -ATATAAAAATATTTTT-AAAATGTTTTCAAAAC--TATA-
1 TATATATATATATTTTTAAAAATGTTTTAAAAACTATATAT
* *
54285 TAT-TATATATA-TTTTAGAAATGTTTTCATAAACTATATA-
1 TATATATATATATTTTTAAAAATGTTTT-AAAAACTATATAT
* * **
54324 -ATATATATATATTTTCGAAAAAAGTTTTCTGAAA--AT-TA-
1 TATATATATATATTTT-TAAAAATGTTTT-AAAAACTATATAT
** *
54362 TATAT-TATAT-TTTTTAAAAACATTTTCAAAAATTATACTAT
1 TATATATATATATTTTTAAAAATGTTTT-AAAAACTATA-TAT
54403 ATATATATATATAT
1 -TATATATATATAT
54417 ATATATATAT
Statistics
Matches: 302, Mismatches: 33, Indels: 80
0.73 0.08 0.19
Matches are distributed among these distances:
35 4 0.01
36 43 0.14
37 19 0.06
38 38 0.13
39 43 0.14
40 49 0.16
41 18 0.06
42 23 0.08
43 7 0.02
44 12 0.04
46 12 0.04
47 26 0.09
48 7 0.02
49 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (41 bp):
TATATATATATATTTTTAAAAATGTTTTAAAAACTATATAT
Found at i:54388 original size:77 final size:75
Alignment explanation
Indices: 54238--54414 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 75
54228 TTTTCTTCTG
* * * * *
54238 AAAACTATATAATATAAAAATATTTTTAAAATGTTTTCAAAACTATATATTATATATATTTTAGA
1 AAAACTATATAATATATATATATTTTAAAAAAGTTTTCAAAACTATATATTATATATATTTTAAA
**
54303 AATGTTTTCA
66 AACATTTTCA
* *
54313 TAAACTATATAATATATATATATTTTCGAAAAAAGTTTTCTGAAAATTATATATTATAT-T-TTT
1 AAAACTATATAATATATATATATTTT--AAAAAAGTTTTC--AAAACTATATATTATATATATTT
54376 TAAAAACATTTTCA
62 TAAAAACATTTTCA
*
54390 AAAATTATACTATATATATATATAT
1 AAAACTATA-TA-ATATATATATAT
54415 ATATATATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
75 23 0.27
77 31 0.36
78 3 0.04
79 28 0.33
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (75 bp):
AAAACTATATAATATATATATATTTTAAAAAAGTTTTCAAAACTATATATTATATATATTTTAAA
AACATTTTCA
Found at i:54407 original size:2 final size:2
Alignment explanation
Indices: 54395--54431 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
54385 TTTCAAAAAT
54395 TA TA CTA 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
54432 ACAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:60146 original size:32 final size:32
Alignment explanation
Indices: 60104--60167 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
60094 AAGAAACAAT
60104 GAATGATGGGGCATCTTTGGAGATTCAACATC
1 GAATGATGGGGCATCTTTGGAGATTCAACATC
* *
60136 GAATGTTGGGGCATCTTTGGGGATTCAACATC
1 GAATGATGGGGCATCTTTGGAGATTCAACATC
60168 CTGATATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (32 bp):
GAATGATGGGGCATCTTTGGAGATTCAACATC
Found at i:60874 original size:134 final size:131
Alignment explanation
Indices: 60563--60926 Score: 344
Period size: 134 Copynumber: 2.8 Consensus size: 131
60553 GATAGCCTAC
* * * * * *
60563 CATCCTCATCACGTAGGAAC-GTGCCATCTC-CCAACTAGACCTCCTCATCACGTAGGAGCCGTG
1 CATCCTCATCACATAAGAACTGTGTCATC-CACCGACCAGACCTCCTCATCACGTAGGAGTCGTG
* * * ** ***
60626 TCACCCCT-TATAACCAGTCGTCCTCATCACGTAGGAACTGTGTTATCATACCTAAAGATGGTTT
65 TCACCCCTAGATAACCAGTCGTCATCATCACGTATGAACCATGTTATCATACCTAAAGATGGCAG
*
60690 AC
130 AA
* *
60692 CATCCTCGTCACATAAGAACTGTGTCATCCCCCGACCAGACCTCCTCATCACGTAGGAGTCGTGT
1 CATCCTCATCACATAAGAACTGTGTCATCCACCGACCAGACCTCCTCATCACGTAGGAGTCGTGT
* *
60757 CACCCCTAGATAACCAGTCGTCATCATCGCGTATGAACCATGTTATCACCCTTCCTAAAGATGGC
66 CACCCCTAGATAACCAGTCGTCATCATCACGTATGAACCATGTTATCA---TACCTAAAGATGG-
60822 CAGAA
127 CAGAA
* * * * * * * *
60827 C-TCTTCATCACGTATG-AGTCGTGTCATCTACCGACCATATCTCCTCATCACGTAGGATTCGTG
1 CATCCTCATCACATAAGAACT-GTGTCATCCACCGACCAGACCTCCTCATCACGTAGGAGTCGTG
* * * *
60890 TCACCCTTAGA-AGACCAGACCTCTTCATCACGTATGA
65 TCACCCCTAGATA-ACCAGTCGTCATCATCACGTATGA
60927 GCAGTGTCAT
Statistics
Matches: 193, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
129 18 0.09
130 45 0.23
131 34 0.18
133 3 0.02
134 91 0.47
135 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (131 bp):
CATCCTCATCACATAAGAACTGTGTCATCCACCGACCAGACCTCCTCATCACGTAGGAGTCGTGT
CACCCCTAGATAACCAGTCGTCATCATCACGTATGAACCATGTTATCATACCTAAAGATGGCAGA
A
Found at i:61100 original size:3 final size:3
Alignment explanation
Indices: 61092--61173 Score: 155
Period size: 3 Copynumber: 27.0 Consensus size: 3
61082 ACAGAAAGAT
61092 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61140 TTA TTA TTA TTA TTA TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
61174 ATTTACAGTT
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
3 75 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:63565 original size:17 final size:17
Alignment explanation
Indices: 63536--63568 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
63526 ATACTTATTT
63536 ATATAAAATATAATATA
1 ATATAAAATATAATATA
63553 ATATGAAAA-ATAATAT
1 ATAT-AAAATATAATAT
63569 TATAATCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:63659 original size:15 final size:16
Alignment explanation
Indices: 63634--63676 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
63624 CTCAAAATTA
*
63634 AATATTATTTTA-AAT
1 AATAATATTTTACAAT
*
63649 AATTATATTTTTACAAT
1 AATAATA-TTTTACAAT
63666 AATAATATTTT
1 AATAATATTTT
63677 CACCTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAATATTTTACAAT
Found at i:63666 original size:17 final size:16
Alignment explanation
Indices: 63641--63676 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
63631 TTAAATATTA
*
63641 TTTTAAATAATTATAT
1 TTTTAAATAATAATAT
63657 TTTTACAATAATAATAT
1 TTTTA-AATAATAATAT
63674 TTT
1 TTT
63677 CACCTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAAATAATAATAT
Found at i:66764 original size:18 final size:18
Alignment explanation
Indices: 66738--66780 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
66728 TTTGATATCA
*
66738 ATACTCAGGTGATTATAG
1 ATACCCAGGTGATTATAG
*
66756 ATACCCAGGTGATTATCG
1 ATACCCAGGTGATTATAG
66774 ATACCCA
1 ATACCCA
66781 AGGATCTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (18 bp):
ATACCCAGGTGATTATAG
Found at i:68145 original size:55 final size:55
Alignment explanation
Indices: 67959--68299 Score: 288
Period size: 57 Copynumber: 6.2 Consensus size: 55
67949 CCTGCTTATA
* * *
67959 ATGAACTTCTTA-TATTTGCACATATATTTG-CTATACGGAAATTCAT--AC--AGT
1 ATGAACTTCTTAGT-TTTGCACACATA-GTGCCCATACGGAAATTCATAAACAAAGT
* * * * **
68010 ATGAATTTTTTAG-TTCGCACACATAGTGCCCATACGGAAATTCATACAC-TTGT
1 ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACAAAGT
* * * **
68063 ATGAACTTCTTAGTTTTGTACACATAGTGCCCATACAGAAATTCATACACTTAGT
1 ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACAAAGT
* * *
68118 ATGAACTTCTTAGTTTTGCACACATAGTTCCCATACGAAAATTCATAAACAAATT
1 ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACAAAGT
* * * * *
68173 ATGAATTTCTTAACTTTTTGCACA-AGAAGTCCCCATACGGAAATTCATAAACAAATT
1 ATGAACTTCTT-A-GTTTTGCACACA-TAGTGCCCATACGGAAATTCATAAACAAAGT
* * * * *
68230 ATGAATTTCTTAACTTTTTGCACACGA-AGTGCCCAAACGGAAATTCATAAGCAAATT
1 ATGAACTTCTT-A-GTTTTGCACAC-ATAGTGCCCATACGGAAATTCATAAACAAAGT
*
68287 ATGAATTTCTTAG
1 ATGAACTTCTTAG
68300 CCATTTGGTA
Statistics
Matches: 248, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.01
50 25 0.10
51 10 0.04
52 2 0.01
53 13 0.05
54 33 0.13
55 60 0.24
56 3 0.01
57 99 0.40
59 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (55 bp):
ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACAAAGT
Found at i:68755 original size:20 final size:20
Alignment explanation
Indices: 68719--68767 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
68709 GTTAACAATG
*
68719 ATATCGATATCATCCTCTTA
1 ATATCGATATCACCCTCTTA
*
68739 ATATCGATAT-ACCCCTCTTG
1 ATATCGATATCA-CCCTCTTA
*
68759 GTATCGATA
1 ATATCGATA
68768 CTTCTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
ATATCGATATCACCCTCTTA
Found at i:71270 original size:2 final size:2
Alignment explanation
Indices: 71259--71291 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
71249 TTTATGCAAC
71259 AT AT -T 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
71292 GCGATAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:74940 original size:15 final size:15
Alignment explanation
Indices: 74920--75000 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
74910 TTTTAAGTTA
74920 ATATATTTAAAATAT
1 ATATATTTAAAATAT
* *
74935 ATATA-TTCATAT-T
1 ATATATTTAAAATAT
*
74948 ATATCATATAATAATA-
1 ATAT-ATTTAA-AATAT
* *
74964 A-ATATTTTAAGTCA-
1 ATATATTTAAAAT-AT
74978 ATATATTTAAAATAT
1 ATATATTTAAAATAT
74993 ATATATTT
1 ATATATTT
75001 CTATTATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
13 7 0.14
14 13 0.27
15 26 0.53
16 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATATTTAAAATAT
Found at i:86799 original size:3 final size:3
Alignment explanation
Indices: 86791--86849 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
86781 TTTTTACCCA
*
86791 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86839 TAT TAT TAT TA
1 TAT TAT TAT TA
86850 AATATATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:88312 original size:13 final size:13
Alignment explanation
Indices: 88296--88342 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
88286 ATATAATAAA
88296 TAAATATTTATTT
1 TAAATATTTATTT
*
88309 TAAATAAATTATTT
1 TAAAT-ATTTATTT
88323 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
88336 TCAATAT
1 TAAATAT
88343 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:89005 original size:17 final size:17
Alignment explanation
Indices: 88976--89019 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
88966 TTTAATTTTT
*
88976 AATTTTT-TCTTTTCAA
1 AATTTTTATATTTTCAA
*
88992 AATTTTTATATTTTCAT
1 AATTTTTATATTTTCAA
*
89009 AATATTTATAT
1 AATTTTTATAT
89020 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTTTATATTTTCAA
Found at i:99687 original size:1 final size:1
Alignment explanation
Indices: 99681--99722 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
99671 GAAAAGAAAG
* * *
99681 AAAAAAAGAAAAAAAAAGAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
99723 GGAAGGTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:99689 original size:17 final size:17
Alignment explanation
Indices: 99669--99723 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
99659 ATTATGCTTG
*
99669 AAGAAAAGAAAGAAAAA
1 AAGAAAAAAAAGAAAAA
99686 AAGAAAAAAAAAGAAAAA
1 AAG-AAAAAAAAGAAAAA
*
99704 AAGAAAAAAAAAAAAAA
1 AAGAAAAAAAAGAAAAA
99721 AAG
1 AAG
99724 GAAGGTCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAGAAAAA
Found at i:99690 original size:8 final size:8
Alignment explanation
Indices: 99669--99720 Score: 70
Period size: 8 Copynumber: 6.2 Consensus size: 8
99659 ATTATGCTTG
99669 AAGAAAAGA
1 AAGAAAA-A
99678 AAGAAAAA
1 AAGAAAAA
99686 AAGAAAAAAA
1 AAG--AAAAA
99696 AAGAAAAA
1 AAGAAAAA
99704 AAGAAAAA
1 AAGAAAAA
99712 AA-AAAAA
1 AAGAAAAA
99719 AA
1 AA
99721 AAGGAAGGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.17
8 19 0.46
9 7 0.17
10 8 0.20
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:99694 original size:10 final size:10
Alignment explanation
Indices: 99681--99722 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
99671 GAAAAGAAAG
99681 AAAAAAAGAA
1 AAAAAAAGAA
99691 AAAAAAAG--
1 AAAAAAAGAA
99699 AAAAAAAGAA
1 AAAAAAAGAA
99709 AAAAAAA-AA
1 AAAAAAAGAA
99718 AAAAA
1 AAAAA
99723 GGAAGGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.27
9 7 0.23
10 15 0.50
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:99698 original size:18 final size:18
Alignment explanation
Indices: 99672--99723 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
99662 ATGCTTGAAG
*
99672 AAAAGAAAGAAAAAAAGA
1 AAAAAAAAGAAAAAAAGA
99690 AAAAAAAAGAAAAAAAGA
1 AAAAAAAAGAAAAAAAGA
99708 AAAAAAAA-AAAAAAAG
1 AAAAAAAAGAAAAAAAG
99724 GAAGGTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 8 0.24
18 25 0.76
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAGA
Found at i:100071 original size:16 final size:18
Alignment explanation
Indices: 100052--100098 Score: 71
Period size: 16 Copynumber: 2.7 Consensus size: 18
100042 CTATTTCAAG
100052 TTCAATTTATTTG-AG-A
1 TTCAATTTATTTGTAGAA
100068 TTCAATTTATTTGTAGAAA
1 TTCAATTTATTTGTAG-AA
100087 TTCAATTTATTT
1 TTCAATTTATTT
100099 TTATATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.46
17 2 0.07
19 13 0.46
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (18 bp):
TTCAATTTATTTGTAGAA
Found at i:101006 original size:83 final size:83
Alignment explanation
Indices: 100867--101777 Score: 1736
Period size: 83 Copynumber: 11.0 Consensus size: 83
100857 GAAAGAGACT
100867 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
100932 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
*
100950 CAATAGCATCTTCTGTAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101015 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101033 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101098 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101116 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101181 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101199 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101264 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101282 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101347 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101365 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101430 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101448 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
*
101513 TTTAGAAGATAAATTTGC
66 TTTAGAAGATGAATTTGC
101531 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101596 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
*
101614 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
101679 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
* * *
101697 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTAATCTGGTTGGGCAG-ACCAATCATTGA-
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
* *
101760 ATTGGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
101778 TCATAGTAAA
Statistics
Matches: 818, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
81 16 0.02
82 12 0.01
83 790 0.97
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
TTTAGAAGATGAATTTGC
Found at i:102966 original size:228 final size:223
Alignment explanation
Indices: 102569--103147 Score: 858
Period size: 228 Copynumber: 2.6 Consensus size: 223
102559 TAGCAAAGAT
* * **
102569 TCAAATCCATCACTTGATGGATCAACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
1 TCAAATCTATCACTTGATGGATC-ACTTTTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
* * *
102634 GAAGGAAGAAGAAGTTCATAATAAAAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGAT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGAT
*
102699 GGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAA
130 GGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAA
*
102764 TTCATAATGAGAAGAATTTGTTCAACCTTTTG
192 TTCATAATGAGAAGAATCTGTTCAACCTTTTG
*
102796 CTCAAATCTATCACTTGATGGAGCAGCTTTTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGA
1 -TCAAATCTATCACTTGATGGATCA-CTTTTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGA
*
102861 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
* *
102926 TGGATCAATATTGCCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
129 TGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
102990 TTATAATGAGAAGAATCTGTTCAACCTTTTG
193 TCATAATGAGAAGAATCTGTTCAACCTTTTG
* * * *
103021 TCCGAAT-TCATCACATGATGGATTA-TTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATA
1 T-CAAATCT-ATCACTTGATGGATCACTTTTT--CAGAGAA-GTTCATAATGAGAAGAACTCATC
*
103084 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCAT
61 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCAT
103148 CTGAAGAATG
Statistics
Matches: 323, Mismatches: 21, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
223 5 0.02
224 2 0.01
225 76 0.24
226 85 0.26
227 1 0.00
228 151 0.47
229 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (223 bp):
TCAAATCTATCACTTGATGGATCACTTTTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
GATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
TAATGAGAAGAATCTGTTCAACCTTTTG
Found at i:102996 original size:113 final size:113
Alignment explanation
Indices: 102576--103146 Score: 803
Period size: 113 Copynumber: 5.0 Consensus size: 113
102566 GATTCAAATC
*
102576 CATCACTTGATGGATCAACATTGCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
102640 AGAAGAAGTTCATAATAAAAAGAACTTGTTCAACTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
* * *
102688 CATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGA
* * * *
102752 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG-CTCAAAT
62 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
* * **
102803 CTATCACTTGATGGAGCAGCT-TTTTCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAG
1 C-ATCACTTGATGGATCA-ATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
102866 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
*
102916 CATCATTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
102981 AGAAGAAGTTTATAATGAGAAGAA-TCTGTTCAACCTTTTGTCCGAATT
66 AGAAGAAGTTCATAATGAGAAGAACT-TGTTCAACCTTTTGTCTGAATT
* * * * *
103029 CATCACATGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATATGAAGAAGGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
103094 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
103142 CATCA
1 CATCA
103147 TCTGAAGAAT
Statistics
Matches: 409, Mismatches: 37, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
111 3 0.01
112 103 0.25
113 208 0.51
114 1 0.00
115 23 0.06
116 69 0.17
117 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
Found at i:103161 original size:65 final size:65
Alignment explanation
Indices: 103079--103211 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
103069 TGAGAAGAAC
*
103079 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
1 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
* *
103144 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
103209 TCA
1 TCA
103212 CTTGATGGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (65 bp):
TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
Found at i:103182 original size:178 final size:178
Alignment explanation
Indices: 102966--103310 Score: 627
Period size: 178 Copynumber: 1.9 Consensus size: 178
102956 TGAGAAGAAC
*
102966 TCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAATCTGTTCAACCTTTTGTCCGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTGTCCGAATTCA
*
103031 TCACATGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATATGAAGAAGGAAG
66 TCACATGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAG
103096 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
131 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
* * *
103144 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTGTCCGAATTCA
* *
103209 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACATGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAG
103274 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
131 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
103311 TGATCAAATC
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
178 160 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (178 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTGTCCGAATTCA
TCACATGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
Found at i:103190 original size:291 final size:293
Alignment explanation
Indices: 102853--103410 Score: 892
Period size: 291 Copynumber: 1.9 Consensus size: 293
102843 TGAGAAGAAC
102853 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCA
* *
102918 TCATTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACTTGATGGATCAATATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* *
102983 AAGAAGTTTATAATGAGAAGAATCTGTTCAACC-TTTTG-TCCGAAT-TCATCACATGATGGATT
131 AAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTTGAT-CAAATCT-ATCACATGATGGATT
* *
103045 A-TTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGA-AGAAGTTCATA
194 ATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAGA-AAGTTCATA
103108 ATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
258 ATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
* *
103144 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCA
* * *
103209 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACTTGATGGATCAATATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * * *
103274 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGATCAAATCTATTACTTGATGGGTTAT
131 AAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTTGATCAAATCTATCACATGATGGATTAT
** *
103339 TTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGAAAGTTCATAATG
196 TTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAGAAAGTTCATAATG
103404 AGAAGAA
261 AGAAGAA
103411 CTCATCAAAA
Statistics
Matches: 244, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
291 154 0.63
292 22 0.09
293 67 0.27
294 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (293 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCA
TCACTTGATGGATCAATATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTTGATCAAATCTATCACATGATGGATTAT
TTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAGAAAGTTCATAATG
AGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
Found at i:103278 original size:113 final size:115
Alignment explanation
Indices: 103144--103410 Score: 409
Period size: 115 Copynumber: 2.3 Consensus size: 115
103134 TTTGAATTCA
* *
103144 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTTG-TCTGAAT-
1 TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGATC-AAATC
103206 TCATCACTTGATGGATTA-TTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
65 T-ATCACTTGATGGATTATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
*
103257 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGATCAAATCT
1 TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGATCAAATCT
* * **
103322 ATTACTTGATGGGTTATTTTTTTTCAGAGAAAGTTCATAATGAGAAGAAC
66 ATCACTTGATGGATTATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
103372 TCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAGAA
1 TCATCTGAAGAAAGAAGAAG-AAGTTCATAATGAGAAGAA
103411 CTCATCAAAA
Statistics
Matches: 142, Mismatches: 7, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
113 49 0.35
114 24 0.17
115 69 0.49
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (115 bp):
TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGATCAAATCT
ATCACTTGATGGATTATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
Found at i:103670 original size:3 final size:3
Alignment explanation
Indices: 103662--103700 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
103652 TTTTTACCCA
*
103662 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
103701 ATATAAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:106531 original size:3 final size:3
Alignment explanation
Indices: 106523--106569 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
106513 TTTTTACCCA
106523 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
106570 AATATATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:108043 original size:13 final size:13
Alignment explanation
Indices: 108027--108073 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
108017 ATATAATAAA
108027 TAAATATTTATTT
1 TAAATATTTATTT
*
108040 TAAATAAATTATTT
1 TAAAT-ATTTATTT
108054 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
108067 TCAATAT
1 TAAATAT
108074 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:112449 original size:25 final size:25
Alignment explanation
Indices: 112421--112469 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
112411 CTAACATAGC
*
112421 TGCTACCTGGTCGAATGAAACTAGT
1 TGCTACCTGATCGAATGAAACTAGT
* *
112446 TGCTGCCTGATCGAATGAAGCTAG
1 TGCTACCTGATCGAATGAAACTAG
112470 CTGCAATCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
TGCTACCTGATCGAATGAAACTAGT
Found at i:112794 original size:34 final size:34
Alignment explanation
Indices: 112738--112808 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
112728 GGCCCACTAA
* * *
112738 TTTTGTGGATATTCGGATAATCCAAAATTGAGAT
1 TTTTGTGGACATTCAGAAAATCCAAAATTGAGAT
* *
112772 TTTTTTGGACATTCAGAAAATCCGAAATTGAGAT
1 TTTTGTGGACATTCAGAAAATCCAAAATTGAGAT
112806 TTT
1 TTT
112809 CTTGATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (34 bp):
TTTTGTGGACATTCAGAAAATCCAAAATTGAGAT
Found at i:126270 original size:34 final size:34
Alignment explanation
Indices: 126221--126318 Score: 151
Period size: 34 Copynumber: 2.8 Consensus size: 34
126211 ACTCACACCC
*
126221 CACACCCACAACCACACGCGCGAGCGCGCACATACA
1 CACACCCAC--CCACACGCGCGAGCGCGCACACACA
126257 CACACCCACCCACACGCGCGAGCGCGCACACACA
1 CACACCCACCCACACGCGCGAGCGCGCACACACA
*
126291 CACACACACCCCACACGCGCGAGCGCGC
1 CACACCCA-CCCACACGCGCGAGCGCGC
126319 GCGCGCATAC
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
34 31 0.53
35 19 0.32
36 9 0.15
ACGTcount: A:0.30, C:0.51, G:0.18, T:0.01
Consensus pattern (34 bp):
CACACCCACCCACACGCGCGAGCGCGCACACACA
Done.