Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009073.1 Hibiscus syriacus cultivar Beakdansim tig00112505_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: 329414
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:4862 original size:14 final size:14
Alignment explanation
Indices: 4839--4869 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4829 TCCTATTATT
4839 ATTTTAAAGTATGA
1 ATTTTAAAGTATGA
*
4853 ATTTTTAAGTATGA
1 ATTTTAAAGTATGA
4867 ATT
1 ATT
4870 ATTTCCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
ATTTTAAAGTATGA
Found at i:7769 original size:22 final size:22
Alignment explanation
Indices: 7744--7789 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7734 CTCAACACTA
7744 ATACTAAAGTGCCTTAGT-ATTG
1 ATACTAAAGTGCCTTA-TCATTG
*
7766 ATACTAAAGTGTCTTATCATTG
1 ATACTAAAGTGCCTTATCATTG
7788 AT
1 AT
7790 GTAGATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (22 bp):
ATACTAAAGTGCCTTATCATTG
Found at i:9013 original size:24 final size:24
Alignment explanation
Indices: 8985--9040 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
8975 GAAGTTCAAA
8985 AGAGGAAAATAATGAAGAAAAAT-G
1 AGAGGAAAATAA-GAAGAAAAATGG
*
9009 AGAGG--AATAAGAGGAAAAATGG
1 AGAGGAAAATAAGAAGAAAAATGG
*
9031 TGAGGAAAAT
1 AGAGGAAAAT
9041 GAGATAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
24 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.12
Consensus pattern (24 bp):
AGAGGAAAATAAGAAGAAAAATGG
Found at i:12134 original size:17 final size:16
Alignment explanation
Indices: 12112--12143 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12102 GTGGATCTAA
12112 AATTATTATGAAATAAT
1 AATTATTAT-AAATAAT
12129 AATTATTATAAATAA
1 AATTATTATAAATAA
12144 ATTCAGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AATTATTATAAATAAT
Found at i:12146 original size:14 final size:16
Alignment explanation
Indices: 12109--12144 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
12099 CATGTGGATC
12109 TAAAATTATTATGAAA
1 TAAAATTATTATGAAA
12125 TAATAATTATTAT-AAA
1 TAA-AATTATTATGAAA
12141 TAAA
1 TAAA
12145 TTCAGTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 9 0.47
17 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAAATTATTATGAAA
Found at i:12240 original size:18 final size:18
Alignment explanation
Indices: 12193--12260 Score: 84
Period size: 17 Copynumber: 3.6 Consensus size: 18
12183 TACAACTATG
*
12193 ATAAAAATATAAAAGTATAAA
1 ATAAAAATAT--AATTAT-AA
12214 ATAAAAAATATAATTATAA
1 AT-AAAAATATAATTATAA
12233 ATAAAAATATAATTA-AA
1 ATAAAAATATAATTATAA
12250 ATAAAAATATA
1 ATAAAAATATA
12261 TTTTATAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
17 13 0.29
18 13 0.29
19 4 0.09
20 5 0.11
21 2 0.04
22 8 0.18
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (18 bp):
ATAAAAATATAATTATAA
Found at i:12270 original size:18 final size:17
Alignment explanation
Indices: 12217--12270 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
12207 GTATAAAATA
12217 AAAAATATAATTATAAAT
1 AAAAATATAATTAT-AAT
*
12235 AAAAATATAATTAAAAT
1 AAAAATATAATTATAAT
*
12252 AAAAATATATTTTATAAT
1 AAAAATATA-ATTATAAT
12270 A
1 A
12271 CCTCACTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATATAATTATAAT
Found at i:12797 original size:13 final size:13
Alignment explanation
Indices: 12779--12811 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
12769 GTCTTTGGCC
12779 ATGGCAGTCGGCT
1 ATGGCAGTCGGCT
12792 ATGGCAGTCGGCT
1 ATGGCAGTCGGCT
12805 ATGGCAG
1 ATGGCAG
12812 GGGAGGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (13 bp):
ATGGCAGTCGGCT
Found at i:13700 original size:5 final size:4
Alignment explanation
Indices: 13679--13869 Score: 50
Period size: 4 Copynumber: 48.8 Consensus size: 4
13669 AAAAGGTAAG
* *
13679 AAAT AAAT AAAT AAATT AAATT AAAAT GAAG AAA- AAA- AAATT AAAT
1 AAAT AAAT AAAT AAA-T AAA-T -AAAT AAAT AAAT AAAT AAA-T AAAT
* * * * * *
13725 AAA- AGAT AAGAT AAAG AAAGC AAAT ATA- AAAT -AGT AAGT AAAAT AAAT
1 AAAT AAAT AA-AT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT -AAAT AAAT
* * * *
13773 --AT AAAA AAAT AAAG AAA- AAA- ATAT AAAT AAAT CAAAT AAAA AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
* * * *
13818 -AAT AAA- AAA- AAAT -AAT ATAT ATAT ATAT AAAAT AAAAA AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT
13863 AAAT AAA
1 AAAT AAA
13870 AATAGTATAT
Statistics
Matches: 145, Mismatches: 23, Indels: 38
0.70 0.11 0.18
Matches are distributed among these distances:
2 2 0.01
3 32 0.22
4 77 0.53
5 31 0.21
6 3 0.02
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:13782 original size:26 final size:23
Alignment explanation
Indices: 13746--13827 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
13736 TAAAGAAAGC
* *
13746 AAATATAAAATAGT-AAGTAAAA
1 AAATATAAAAAAATAAAGTAAAA
13768 TAAATATAAAAAAATAAAG-AAAA
1 -AAATATAAAAAAATAAAGTAAAA
*
13791 AAATATAAATAAATCAAA-TAAAA
1 AAATATAAAAAAAT-AAAGTAAAA
13814 AAATAATAAAAAAA
1 AAAT-ATAAAAAAA
13828 AATAATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
22 13 0.25
23 27 0.53
24 11 0.22
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATATAAAAAAATAAAGTAAAA
Found at i:13791 original size:13 final size:12
Alignment explanation
Indices: 13764--13873 Score: 60
Period size: 13 Copynumber: 8.5 Consensus size: 12
13754 AATAGTAAGT
13764 AAAATAAATATAAA
1 AAAATAAA-A-AAA
13778 AAAATAAAGAAAA
1 AAAATAAA-AAAA
*
13791 AAATATAAATAAAT
1 AAA-ATAAA-AAAA
*
13805 CAAAT-AAAAAA
1 AAAATAAAAAAA
*
13816 ATAATAAAAAAA
1 AAAATAAAAAAA
* * *
13828 AATAATATATATA
1 AA-AATAAAAAAA
* *
13841 TATATAAAATAAAA
1 AAAAT-AAA-AAAA
13855 AAAATAAAAAATA
1 AAAATAAAAAA-A
13868 AAAATA
1 AAAATA
13874 GTATATATAT
Statistics
Matches: 72, Mismatches: 18, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
11 6 0.08
12 14 0.19
13 28 0.39
14 24 0.33
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:13816 original size:35 final size:39
Alignment explanation
Indices: 13767--13928 Score: 154
Period size: 42 Copynumber: 4.1 Consensus size: 39
13757 AGTAAGTAAA
*
13767 ATAAATATAAAAAAATAAAGAAAAAAATATA-A-ATA-A-
1 ATAAA-ATAAAAAAATAAAAAAAAAAATATATATATATAT
*
13803 ATCAAATAAAAAAATAATAAAAAAAAATAATATATATATAT
1 ATAAAATAAAAAAATAA-AAAAAAAAAT-ATATATATATAT
13844 ATAAAATAAAAAAAATAAAAAATAAAAATAGTATATATATAT
1 ATAAAAT-AAAAAAATAAAAAA-AAAAATA-TATATATATAT
*** * *
13886 A-AATTAATAAATTGATAATAAAAATAATATATATATATAT
1 ATAA--AATAAAAAAATAAAAAAAAAAATATATATATATAT
13926 ATA
1 ATA
13929 TATATATATA
Statistics
Matches: 106, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
35 12 0.11
36 13 0.12
37 3 0.03
38 1 0.01
39 3 0.03
40 13 0.12
41 20 0.19
42 38 0.36
43 3 0.03
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.28
Consensus pattern (39 bp):
ATAAAATAAAAAAATAAAAAAAAAAATATATATATATAT
Found at i:13871 original size:42 final size:41
Alignment explanation
Indices: 13767--13926 Score: 151
Period size: 40 Copynumber: 4.1 Consensus size: 41
13757 AGTAAGTAAA
*
13767 ATAAATATAAAAAAATAAAGAA-AAAAAT-ATA-A-ATA-A-
1 ATAAA-ATAAAAAAATAAAAAATAAAAATAATATATATATAT
*
13803 ATCAAATAAAAAAATAATAAAA-AAAAATAATATATATATAT
1 ATAAAATAAAAAAATAA-AAAATAAAAATAATATATATATAT
*
13844 ATAAAATAAAAAAAATAAAAAATAAAAAT-A-GTATATATAT
1 ATAAAAT-AAAAAAATAAAAAATAAAAATAATATATATATAT
* * ** *
13884 AT-AAATTAATAAATTGATAATAAAAATAATATATATATAT
1 ATAAAATAAAAAAATAAAAAATAAAAATAATATATATATAT
13924 ATA
1 ATA
13927 TATATATATA
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
35 12 0.12
36 13 0.13
37 3 0.03
38 17 0.17
39 8 0.08
40 23 0.22
41 11 0.11
42 16 0.16
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.28
Consensus pattern (41 bp):
ATAAAATAAAAAAATAAAAAATAAAAATAATATATATATAT
Found at i:13879 original size:38 final size:37
Alignment explanation
Indices: 13769--13922 Score: 139
Period size: 38 Copynumber: 4.0 Consensus size: 37
13759 TAAGTAAAAT
* * * *
13769 AAATATAAAAAAATAAAGAAAAAAAT-ATAAATAAATC
1 AAATA-AAAAAAATAAAAAAAAAAATAATATATATATA
13806 AAATAAAAAAATAATAAAAAAAAATAATATATATATATATA
1 AAAT-AAAAAA-AATAAAAAAAAA-AATA-ATATATATATA
*
13847 AAATAAAAAAAATAAAAAATAAAAATAGTATATATATA
1 AAATAAAAAAAATAAAAAA-AAAAATAATATATATATA
* * * * * *
13885 TAAATTAATAAATTGATAATAAAAATAATATATATATA
1 -AAATAAAAAAAATAAAAAAAAAAATAATATATATATA
13923 TATATATATA
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
37 9 0.09
38 39 0.40
39 29 0.30
40 9 0.09
41 12 0.12
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.27
Consensus pattern (37 bp):
AAATAAAAAAAATAAAAAAAAAAATAATATATATATA
Found at i:13919 original size:2 final size:2
Alignment explanation
Indices: 13912--13945 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13902 AATAAAAATA
13912 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
13946 CTAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13989 original size:22 final size:24
Alignment explanation
Indices: 13947--13999 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
13937 TATATATATC
*
13947 TAAAAAAAAAAATATACT-AAA-G
1 TAAAAAAAAAAATACACTAAAATG
*
13969 TAAAAAAAGAAAATGCA-TAAAATG
1 TAAAAAAA-AAAATACACTAAAATG
13993 TAAAAAA
1 TAAAAAA
14000 TATTACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 9 0.35
23 9 0.35
24 8 0.31
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.17
Consensus pattern (24 bp):
TAAAAAAAAAAATACACTAAAATG
Found at i:15200 original size:21 final size:21
Alignment explanation
Indices: 15174--15213 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15164 CAAGGGAAAC
15174 TGTCTCAAGAGAGACAAAATT
1 TGTCTCAAGAGAGACAAAATT
15195 TGTCTCAAGAGAGACAAAA
1 TGTCTCAAGAGAGACAAAA
15214 ACTTCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (21 bp):
TGTCTCAAGAGAGACAAAATT
Found at i:15359 original size:36 final size:36
Alignment explanation
Indices: 15312--15394 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
15302 AAGTTTATGC
* * * **
15312 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
* *
15348 TTCAAGGGAAACTATCTCATGAGTGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
15384 TTCAAGGGAAA
1 TTCAAGGGAAA
15395 TGTTTTCAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:15429 original size:101 final size:102
Alignment explanation
Indices: 15288--15545 Score: 383
Period size: 102 Copynumber: 2.5 Consensus size: 102
15278 TTGTTTTAAA
* * *
15288 GGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT-GTTTCA
1 GGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCATTTCA
* * *
15352 AGGGAAACTATCTCATGAGTGACAAAATTCATTTCAAG
65 AGGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAG
* *
15390 GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTTCATTTCAA
1 GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCATTTCAA
*
15455 GGGAACCTATCTCAAGAGAGACAAAATTCATCTCAAG
66 GGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAG
* * * *
15492 CGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA
1 GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
15546 CTTAGTTCCA
Statistics
Matches: 140, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
101 48 0.34
102 92 0.66
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (102 bp):
GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCATTTCAA
GGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAG
Found at i:15969 original size:106 final size:106
Alignment explanation
Indices: 15777--16099 Score: 434
Period size: 106 Copynumber: 3.0 Consensus size: 106
15767 TGTTTTGATC
* * * *
15777 CGAGTCCAATATCCTCTAC-C-GTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGA
1 CGAGTCCAATATCCT-T-CGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTGA
* * * * * *
15840 CAGCCAGCCGCCCCTTTGCTGTGAAGTTGAGCTTGTGCTGTCT
64 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
15883 CGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTGACA
*
15948 ACCAGCCGTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** * *
15989 TTAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTGACA
* *
16054 ACCAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
16095 CGAGT
1 CGAGT
16100 GGCACGATAT
Statistics
Matches: 189, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
104 1 0.01
105 2 0.01
106 186 0.98
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:16697 original size:32 final size:32
Alignment explanation
Indices: 16676--16769 Score: 127
Period size: 31 Copynumber: 2.9 Consensus size: 32
16666 ATTCCCAAAG
* *
16676 ATGCCCTAATATTTGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
* **
16708 ATGCCCCAACATTTGATGTTAAAT-AAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
16739 ATGCCCCAACATTTGATGTTGAATCTTCAAA
1 ATGCCCCAACATTTGATGTTGAATC-TCAAA
16770 GATGCCCTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
31 28 0.54
32 21 0.40
33 3 0.06
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCAAAAA
Found at i:17819 original size:69 final size:69
Alignment explanation
Indices: 17703--17840 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
17693 TGTCTCTCTC
* * * * ** *
17703 TTGATGCTCTATGATCTTCTAGTGGAGTGATTCAGTGATTCGGAAATGATTGTGCTTGGTCAATC
1 TTGATACTCTATGATCATCGAGTGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
17768 TCAT
66 TCAT
*
17772 TTGATACTCTATGATCATCGAGTGAAGTGATTCAGTGATTTAAAAATGATTGTGCTTGATCAATC
1 TTGATACTCTATGATCATCGAGTGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
17837 TCAT
66 TCAT
17841 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATACTCTATGATCATCGAGTGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
TCAT
Found at i:17957 original size:21 final size:21
Alignment explanation
Indices: 17903--17963 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
17893 TTGTCTTCTT
* *
17903 TTTTCTTCAATTTTC-CTTTGT
1 TTTT-TTCTATTTTCTCTTTGC
*
17924 TTTTTTTTATTTTCTCTTTGC
1 TTTTTTCTATTTTCTCTTTGC
* *
17945 TTTTTTCTCTTTTTTCTTT
1 TTTTTTCTATTTTCTCTTT
17964 TTGTTCTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTTCTATTTTCTCTTTGC
Found at i:21018 original size:23 final size:22
Alignment explanation
Indices: 20992--21145 Score: 62
Period size: 23 Copynumber: 6.5 Consensus size: 22
20982 AAAGGTAAGA
*
20992 AATAAATAAATAAAATTAAAATG
1 AATAAAAAAATAAAA-TAAAATG
* *
21015 AATAAAAAAATTAAATAAAAGCTA
1 AATAAAAAAATAAAATAAAA--TG
**
21039 AGATAAAGAAAGCAAAGATAAAATAG
1 A-ATAAA-AAAATAAA-ATAAAAT-G
*
21065 TAAGTAAAATAAATATAAA-AAAATA
1 -AA-TAAAA-AAATA-AAATAAAATG
* * * *
21090 AAGAAAAAGAAAAAAATATATATA
1 AATAAAAA-AATAAAATA-AAATG
21114 AATAAAACAAAT-AAATAAAAT-
1 AATAAAA-AAATAAAATAAAATG
21135 AATAATAAAAA
1 AATAA-AAAAA
21146 AGTAAAAATT
Statistics
Matches: 100, Mismatches: 16, Indels: 32
0.68 0.11 0.22
Matches are distributed among these distances:
21 8 0.08
22 14 0.14
23 26 0.26
24 16 0.16
25 7 0.07
26 12 0.12
27 15 0.15
28 2 0.02
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (22 bp):
AATAAAAAAATAAAATAAAATG
Found at i:21108 original size:28 final size:27
Alignment explanation
Indices: 21070--21145 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 27
21060 AATAGTAAGT
21070 AAAATAAATATAAAAAAATAAAGAAAAAG
1 AAAA-AAATATAAAAAAATAAA-AAAAAG
* * * *
21099 AAAAAAATATATATAAATAAAACAAAT
1 AAAAAAATATAAAAAAATAAAAAAAAG
21126 AAATAAAATAATAATAAAAA
1 AAA-AAAAT-ATAA-AAAAA
21146 AGTAAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 7 0.18
28 20 0.53
29 7 0.18
30 4 0.11
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (27 bp):
AAAAAAATATAAAAAAATAAAAAAAAG
Found at i:21120 original size:18 final size:17
Alignment explanation
Indices: 21071--21136 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 17
21061 ATAGTAAGTA
21071 AAATAAATATAAAAAAAT
1 AAATAAA-ATAAAAAAAT
* *
21089 AAAGAAAAAGAAAAAAAT
1 AAA-TAAAATAAAAAAAT
*
21107 ATATATAAATAAAACAAAT
1 AAATA-AAATAAAA-AAAT
21126 AAATAAAATAA
1 AAATAAAATAA
21137 TAATAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.03
18 27 0.69
19 11 0.28
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAATAAAAAAAT
Found at i:21160 original size:2 final size:2
Alignment explanation
Indices: 21155--21219 Score: 53
Period size: 2 Copynumber: 33.0 Consensus size: 2
21145 AAGTAAAAAT
* * * * *
21155 TA TA TA TA TA TA TA TA TA TA TA -A TA AA TA AA AA AA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
21195 AA TA GTA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA
21220 AATTAATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
1 2 0.04
2 51 0.93
3 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (2 bp):
TA
Found at i:21178 original size:41 final size:42
Alignment explanation
Indices: 21133--21258 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
21123 AATAAATAAA
* *
21133 ATAATAATAAAAAAGTAAAAATTA-TATATATATATATATAT
1 ATAATAATAAAAAAATAAAAAATAGTATATATATATATATAT
21174 ATAATAAATAAAAAAATAAAAAATAGTATATATATATATATAT
1 ATAAT-AATAAAAAAATAAAAAATAGTATATATATATATATAT
*
21217 ATAAATTAATAAAACTGATAATAAAAAAATAATATATATATA
1 AT-AA-TAATAAAA---A-AAT-AAAAAATAGTATATATATA
21259 ATCTAAAAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
41 5 0.07
42 17 0.23
43 19 0.26
44 9 0.12
45 1 0.01
47 1 0.01
48 3 0.04
49 18 0.25
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (42 bp):
ATAATAATAAAAAAATAAAAAATAGTATATATATATATATAT
Found at i:21180 original size:49 final size:48
Alignment explanation
Indices: 21073--21258 Score: 150
Period size: 49 Copynumber: 3.9 Consensus size: 48
21063 AGTAAGTAAA
* * *
21073 ATAAAT-ATAAAAAAATAA-AGAAAAAG-AAAAAAATATATATAAATAAA
1 ATAAATAATAAAAAAATAATA-AAAAAGTAAAAATATATATATATAT-AT
* *
21120 ACAAATAAATAAAATAATAATAAAAAAGTAAAAATTATATATATATATAT
1 ATAAAT-AATAAAAAAATAATAAAAAAGTAAAAA-TATATATATATATAT
* * **
21170 ATATATAATAAATAAAAAAATAAAAAA-T-AGTATATATATATATATAT
1 ATAAATAATAAA-AAAATAATAAAAAAGTAAAAATATATATATATATAT
** * *
21217 ATAAATTAATAAAACTGATAATAAAAAAAT-AATATATATATA
1 ATAAA-TAATAAAA-AAATAATAAAAAAGTAAAAATATATATA
21259 ATCTAAAAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
47 25 0.22
48 19 0.17
49 36 0.32
50 23 0.20
51 11 0.10
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (48 bp):
ATAAATAATAAAAAAATAATAAAAAAGTAAAAATATATATATATATAT
Found at i:21293 original size:27 final size:24
Alignment explanation
Indices: 21238--21294 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
21228 AAACTGATAA
* *
21238 TAAAAAAATAATATATATATAATC
1 TAAAAAAATAAAATATATATAAAC
*
21262 TAAAAAAATAAAAATATATATTAAAG
1 TAAAAAAAT-AAAATATATA-TAAAC
21288 TAAAAAA
1 TAAAAAA
21295 GAAAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 9 0.32
25 9 0.32
26 10 0.36
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
TAAAAAAATAAAATATATATAAAC
Found at i:23895 original size:6 final size:6
Alignment explanation
Indices: 23884--23909 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23874 ACGAAGGTAG
23884 GGTTGA GGTTGA GGTTGA GGTTGA GG
1 GGTTGA GGTTGA GGTTGA GGTTGA GG
23910 CCGAGGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (6 bp):
GGTTGA
Found at i:23915 original size:18 final size:18
Alignment explanation
Indices: 23884--23918 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23874 ACGAAGGTAG
**
23884 GGTTGAGGTTGAGGTTGA
1 GGTTGAGGCCGAGGTTGA
23902 GGTTGAGGCCGAGGTTG
1 GGTTGAGGCCGAGGTTG
23919 TAAGTATTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.51, T:0.29
Consensus pattern (18 bp):
GGTTGAGGCCGAGGTTGA
Found at i:26145 original size:59 final size:61
Alignment explanation
Indices: 26034--26162 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 61
26024 TATAATTTGA
* *
26034 GATGAAA-TTAGAATGTTCAAAAAATTTGAGGACCAATTTAGAATGAAGGTCATAGTTTAGG
1 GATGAAATTTAGAATGTTC-AAAAATTTAAGGACCAATTTAAAATGAAGGTCATAGTTTAGG
* *
26095 GATGAAATTTA-AATGTTC-AACATTTAAGGACTAATTTAAAATGACA-GTCATAGTTTAGG
1 GATGAAATTTAGAATGTTCAAAAATTTAAGGACCAATTTAAAATGA-AGGTCATAGTTTAGG
26154 GATGAAATT
1 GATGAAATT
26163 GGAACATTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
59 44 0.71
60 1 0.02
61 14 0.23
62 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (61 bp):
GATGAAATTTAGAATGTTCAAAAATTTAAGGACCAATTTAAAATGAAGGTCATAGTTTAGG
Found at i:33520 original size:21 final size:21
Alignment explanation
Indices: 33494--33565 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
33484 TAAACGTTAA
33494 TATCGATACTCATTCATAGAG
1 TATCGATACTCATTCATAGAG
** *
33515 TATCGATAC-CAAGGCA-GGAG
1 TATCGATACTC-ATTCATAGAG
*
33535 TATCGATACTC-TTCATAGGGG
1 TATCGATACTCATTCATA-GAG
33556 TATCGATACT
1 TATCGATACT
33566 GGGGTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 25 0.62
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (21 bp):
TATCGATACTCATTCATAGAG
Found at i:38236 original size:30 final size:29
Alignment explanation
Indices: 38198--38289 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 29
38188 CTAAAATATA
38198 TAAATTTTAAAAATTATATTTTTAGTCCC
1 TAAATTTTAAAAATTATATTTTTAGTCCC
*
38227 TAAACTTTTACAAAA-TATATACTTTAG-CCAC
1 TAAA-TTTTA-AAAATTATAT-TTTTAGTCC-C
* * *
38258 CAAATTTTAAAAACTTCTA-TTTTAGTCAC
1 TAAATTTTAAAAA-TTATATTTTTAGTCCC
38287 TAA
1 TAA
38290 CCAAAATTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
29 16 0.32
30 18 0.36
31 16 0.32
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.41
Consensus pattern (29 bp):
TAAATTTTAAAAATTATATTTTTAGTCCC
Found at i:41232 original size:32 final size:32
Alignment explanation
Indices: 41196--41274 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
41186 GTTTTATAGG
** *
41196 TTGTAGTATCAATATTAGTATCAATAATGTTC
1 TTGTAGTATCAATACCAATATCAATAATGTTC
* * *
41228 TTGTATTATCGATACCAATATCAATAGTGTTC
1 TTGTAGTATCAATACCAATATCAATAATGTTC
*
41260 TTGTAGTATCGATAC
1 TTGTAGTATCAATAC
41275 TTGTAGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (32 bp):
TTGTAGTATCAATACCAATATCAATAATGTTC
Found at i:41508 original size:26 final size:26
Alignment explanation
Indices: 41479--41530 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
41469 AACATACCCT
41479 TAGTGAGTAAAAAACTTCAAAAGTAC
1 TAGTGAGTAAAAAACTTCAAAAGTAC
*
41505 TAGTGAGTAAGAAACTTCAAAAGTAC
1 TAGTGAGTAAAAAACTTCAAAAGTAC
41531 CCCCAAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (26 bp):
TAGTGAGTAAAAAACTTCAAAAGTAC
Found at i:61748 original size:60 final size:60
Alignment explanation
Indices: 61669--61838 Score: 234
Period size: 60 Copynumber: 2.8 Consensus size: 60
61659 ATCTTTTATT
*
61669 TTGGACTCATAGATCTTAGTGGTTTAGGGTAAGTCCTTATAGATGCATGTATCTTCCATA
1 TTGGACTCATAGATCTTAGTGGTCTAGGGTAAGTCCTTATAGATGCATGTATCTTCCATA
* * ** * *
61729 TTGGACTCCTAGATATTAGTGGTCTAGGGTAAGTCCTTATAGATGTTTGTATCTTCTATG
1 TTGGACTCATAGATCTTAGTGGTCTAGGGTAAGTCCTTATAGATGCATGTATCTTCCATA
* * *
61789 TTGGATTCTTATATCTTAGTGGTCTAGGGTAAGTCCTTAT-GTATGCATGT
1 TTGGACTCATAGATCTTAGTGGTCTAGGGTAAGTCCTTATAG-ATGCATGT
61839 TCTGGGAAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
59 1 0.01
60 95 0.99
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (60 bp):
TTGGACTCATAGATCTTAGTGGTCTAGGGTAAGTCCTTATAGATGCATGTATCTTCCATA
Found at i:66981 original size:17 final size:18
Alignment explanation
Indices: 66946--67011 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
66936 AATATATGTT
66946 TGATAATTGTAAAACATC
1 TGATAATTGTAAAACATC
*
66964 TGATAATTGT-AGACATC
1 TGATAATTGTAAAACATC
*
66981 TGATAACTG-AAAATCATC
1 TGATAATTGTAAAA-CATC
* *
66999 TAAAAATTGTAAA
1 TGATAATTGTAAA
67012 TATCTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 16 0.41
18 20 0.51
19 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (18 bp):
TGATAATTGTAAAACATC
Found at i:67012 original size:18 final size:18
Alignment explanation
Indices: 66950--67022 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 18
66940 TATGTTTGAT
* * *
66950 AATTGTAAAACATCTGAT
1 AATTGTAAATCATCTAAA
* * *
66968 AATTGTAGA-CATCTGAT
1 AATTGTAAATCATCTAAA
* *
66985 AACTGAAAATCATCTAAA
1 AATTGTAAATCATCTAAA
67003 AATTGTAAAT-ATCTAAA
1 AATTGTAAATCATCTAAA
67020 AAT
1 AAT
67023 CATCTGATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
17 24 0.52
18 22 0.48
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (18 bp):
AATTGTAAATCATCTAAA
Found at i:71091 original size:60 final size:60
Alignment explanation
Indices: 70996--71167 Score: 247
Period size: 60 Copynumber: 2.9 Consensus size: 60
70986 TGTTCTCATT
* *
70996 TTCCATATTGGACTCCTAGATCTTAGTGGTATAGGGTAAGTCTTTATGGATGCATGTAAC
1 TTCCATATTGGACTCCTAGATCTTAGTGGTCTAGGGTAAGTCCTTATGGATGCATGTAAC
* * * * *
71056 TTCCATATTGGACCCCTAGATATTATTGGTCTAGGGTAAGTCCTTATGGATACATGTATC
1 TTCCATATTGGACTCCTAGATCTTAGTGGTCTAGGGTAAGTCCTTATGGATGCATGTAAC
* * *
71116 TTCTATATTGAACTCCTAGTTCTTAGTGGTCTA-GGTAAGTCCTTATGGATGC
1 TTCCATATTGGACTCCTAGATCTTAGTGGTCTAGGGTAAGTCCTTATGGATGC
71168 CTATTCTGGG
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 18 0.18
60 80 0.82
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (60 bp):
TTCCATATTGGACTCCTAGATCTTAGTGGTCTAGGGTAAGTCCTTATGGATGCATGTAAC
Found at i:75534 original size:2 final size:2
Alignment explanation
Indices: 75527--75552 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75517 TGCGTAAATC
75527 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
75553 GGGTAAATTA
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:77424 original size:111 final size:110
Alignment explanation
Indices: 77041--77646 Score: 688
Period size: 111 Copynumber: 5.5 Consensus size: 110
77031 GGCAGACTTG
* * *
77041 TTCCGCTTCTTCTAAAGGGAATATCATATATGGGGGAGCTGATCCATTGAATCGGGGAAGACTTG
1 TTCCGCTTCTTCT-AAGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGAGGAAGACTTG
77106 TTCCGCTGTCACT-AGGGGAATATCAAATCTTGGAAGAGAGGGATTT
65 TTCCGCTGTCACTCA-GGGAATATCAAATCTTGGAAGAGAGGGATTT
* * * * *
77152 TTCCGCTTCTTCTAAGGGAATATCAGATCTGAGGGAATTAATACATTGAATC-AGAGAAGACTTG
1 TTCCGCTTCTTCTAAGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGAG-GAAGACTTG
* * ** *
77216 TTCCGCTGTCACTCAGGGAATATTAAATCTTAGAAGAGAAAGATATG
65 TTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGAT-TT
* * * * * * *
77263 TTCCG-TTTTTCTATGGCAATATCAGACTA--GGGGAGTTTATCCATTGAATCGAGGCATATTTG
1 TTCCGCTTCTTCTAAGGGAATATCAGA-TATGGGGGAGTTGATCCATTGAATCGAGGAAGACTTG
* * * *
77325 ATT-TGTTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGGGATTT
65 -TTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGATTT
* * * * *
77371 ATTCTGCTTCTTCTATGGGAATATCAGATATGGGGGAGTTGATACATTGAATCGGGGTAGACTTG
1 -TTCCGCTTCTTCTAAGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGAGGAAGACTTG
* *
77436 TTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATATGT
65 TTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGAT-T-T
* * * *
77484 TT-CGCTTCTTCTAAGGGAATATCAGATCTGGAGGAGTTGATTCATTGAATC-AGTACAGACTTG
1 TTCCGCTTCTTCTAAGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGAGGA-AGACTTG
* * *
77547 TTCCGCTTTCACTCAGGGAATATCAAGTCTTGGAAGAGAGGGATCTG
65 TTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGAT-TT
* * *
77594 TTCTGCTTCTTCTAAGGGAATATCAGATCTGGGAGAGTTGATCCATTGAATCG
1 TTCCGCTTCTTCTAAGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCG
77647 GTATTGAACC
Statistics
Matches: 415, Mismatches: 64, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
108 1 0.00
109 63 0.15
110 125 0.30
111 222 0.53
112 3 0.01
113 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (110 bp):
TTCCGCTTCTTCTAAGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGAGGAAGACTTGT
TCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGATTT
Found at i:77442 original size:220 final size:221
Alignment explanation
Indices: 77039--77647 Score: 730
Period size: 220 Copynumber: 2.8 Consensus size: 221
77029 GAGGCAGACT
* * * * * * *
77039 TGTTCCGCTTCTTCTAAAGGGAATATCATATATGGGGGAGCTGATCCATTGAATCGGGGA-AGAC
1 TGTTCCGCTTCTTCT-AAGGCAATATCAGATCTGGAGGAGTTGATCCATTGAATC-AGTACAGAC
* * *
77103 TTGTTCCGCTGTCACT-AGGGGAATATCAAATCTTGGAAGAGAGGGATTTTTCCGCTTCTTCTAA
64 TTGTTCCGCTTTCACTCA-GAGAATATCAAATCTTGGAAGAGAGGGATTTTTCTGCTTCTTCTAA
* * * *
77167 GGGAATATCAGATCTGAGGGAATTAATACATTGAATCAGAGAAGACTTGTTCCGCTGTCACTCAG
128 GGGAATATCAGATCTGGGGGAGTTGATACATTGAATCGGAGAAGACTTGTTCCGCTGTCACTCAG
* *
77232 GGAATATTAAATCTTAGAAGAGAAAGATA
193 AGAATATCAAATCTTAGAAGAGAAAGATA
* * * * * *
77261 TGTTCCG-TTTTTCTATGGCAATATCAGA-CTAGG-GGAGTTTATCCATTGAATCGAG-GCATAT
1 TGTTCCGCTTCTTCTAAGGCAATATCAGATCT-GGAGGAGTTGATCCATTGAATC-AGTACAGAC
* *
77322 TTGATT-TG-TTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGGGATTTATTCTGCTTCTTCT
64 TTG-TTCCGCTT-TCACTCAGAGAATATCAAATCTTGGAAGAGAGGGATTT-TTCTGCTTCTTCT
* * * *
77385 ATGGGAATATCAGATATGGGGGAGTTGATACATTGAATCGGGGTAGACTTGTTCCGCTGTCACTC
126 AAGGGAATATCAGATCTGGGGGAGTTGATACATTGAATCGGAGAAGACTTGTTCCGCTGTCACTC
* **
77450 AGAGAATATCAAATCTTGGAAGAGAGTGATA
191 AGAGAATATCAAATCTTAGAAGAGAAAGATA
* * *
77481 TGTTTCGCTTCTTCTAAGGGAATATCAGATCTGGAGGAGTTGATTCATTGAATCAGTACAGACTT
1 TGTTCCGCTTCTTCTAAGGCAATATCAGATCTGGAGGAGTTGATCCATTGAATCAGTACAGACTT
* * *
77546 GTTCCGCTTTCACTCAGGGAATATCAAGTCTTGGAAGAGAGGGATCTGTTCTGCTTCTTCTAAGG
66 GTTCCGCTTTCACTCAGAGAATATCAAATCTTGGAAGAGAGGGAT-TTTTCTGCTTCTTCTAAGG
* *
77611 GAATATCAGATCTGGGAGAGTTGATCCATTGAATCGG
130 GAATATCAGATCTGGGGGAGTTGATACATTGAATCGG
77648 TATTGAACCT
Statistics
Matches: 327, Mismatches: 47, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
218 1 0.00
219 60 0.18
220 117 0.36
221 30 0.09
222 116 0.35
223 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (221 bp):
TGTTCCGCTTCTTCTAAGGCAATATCAGATCTGGAGGAGTTGATCCATTGAATCAGTACAGACTT
GTTCCGCTTTCACTCAGAGAATATCAAATCTTGGAAGAGAGGGATTTTTCTGCTTCTTCTAAGGG
AATATCAGATCTGGGGGAGTTGATACATTGAATCGGAGAAGACTTGTTCCGCTGTCACTCAGAGA
ATATCAAATCTTAGAAGAGAAAGATA
Found at i:79823 original size:20 final size:20
Alignment explanation
Indices: 79787--79824 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
79777 TTTTTATTTA
*
79787 TTTCATTTCTATTCTTATTC
1 TTTCATTTCCATTCTTATTC
79807 TTTCA-TTCCATTACTTAT
1 TTTCATTTCCATT-CTTAT
79825 ATTATTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTCATTTCCATTCTTATTC
Found at i:91364 original size:2 final size:2
Alignment explanation
Indices: 91359--91405 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
91349 GAAAAAATTA
91359 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
91401 AC AC A
1 AC AC A
91406 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:91410 original size:2 final size:2
Alignment explanation
Indices: 91405--91442 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
91395 ACACACACAC
91405 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
91443 TATCCATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91772 original size:2 final size:2
Alignment explanation
Indices: 91761--91817 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
91751 TTTTATATGC
91761 TA TA -A 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
91802 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
91818 ATTCACTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:92743 original size:15 final size:16
Alignment explanation
Indices: 92723--92757 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
92713 AACCTTTACA
92723 TTTC-TTTACTTGTTT
1 TTTCTTTTACTTGTTT
92738 TTTCTTTTTACTTGTTT
1 TTTC-TTTTACTTGTTT
92755 TTT
1 TTT
92758 TCCTTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
17 14 0.78
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTCTTTTACTTGTTT
Found at i:92920 original size:24 final size:24
Alignment explanation
Indices: 92892--92944 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
92882 GGCCTGGGCT
92892 AGATCTGGACCATTGGATGGGTCC
1 AGATCTGGACCATTGGATGGGTCC
*
92916 AGATCTGGACCGTTGGATGGGTCC
1 AGATCTGGACCATTGGATGGGTCC
92940 AGATC
1 AGATC
92945 CGACGGCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.25
Consensus pattern (24 bp):
AGATCTGGACCATTGGATGGGTCC
Found at i:94191 original size:29 final size:29
Alignment explanation
Indices: 94147--94204 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
94137 GTATGTCCCC
* *
94147 CTTTTTTCTTCATCAACTTTTGTCCTCTT
1 CTTTTCTCTTCATCAACTTTTCTCCTCTT
* *
94176 CTTTTCTCTTCTTCAATTTTTCTCCTCTT
1 CTTTTCTCTTCATCAACTTTTCTCCTCTT
94205 TAGAAAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.09, C:0.29, G:0.02, T:0.60
Consensus pattern (29 bp):
CTTTTCTCTTCATCAACTTTTCTCCTCTT
Found at i:102040 original size:35 final size:35
Alignment explanation
Indices: 101994--102063 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
101984 TTTTCGTTCC
101994 AAAACAATTAAAGTTGGCTCATCGCAAGCCGTCCT
1 AAAACAATTAAAGTTGGCTCATCGCAAGCCGTCCT
102029 AAAACAATTAAAGTTGGCTCATCGCAAGCCGTCCT
1 AAAACAATTAAAGTTGGCTCATCGCAAGCCGTCCT
102064 CATATCATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (35 bp):
AAAACAATTAAAGTTGGCTCATCGCAAGCCGTCCT
Found at i:106283 original size:2 final size:2
Alignment explanation
Indices: 106240--106271 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
106230 AAAAATAATA
106240 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106272 AGTTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:106326 original size:18 final size:17
Alignment explanation
Indices: 106293--106340 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
106283 AAATTATACA
106293 TATAAACTATAT-TTAT
1 TATAAACTATATATTAT
106309 TATAAACTATATAATTAT
1 TATAAACTATAT-ATTAT
*
106327 TATAAGCTATATAT
1 TATAAACTATATAT
106341 ATAAATTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 15 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (17 bp):
TATAAACTATATATTAT
Found at i:106380 original size:15 final size:15
Alignment explanation
Indices: 106292--106408 Score: 57
Period size: 13 Copynumber: 7.9 Consensus size: 15
106282 TAAATTATAC
**
106292 ATATAAACTATATTT
1 ATATAAACTATAAAT
106307 ATTATAAACTATATAATT
1 A-TATAAACTATA-AA-T
*
106325 ATTATAAGCTAT--AT
1 A-TATAAACTATAAAT
* ***
106339 ATATAAATTATGTTT
1 ATATAAACTATAAAT
*
106354 ATATGAAC--TAAAT
1 ATATAAACTATAAAT
106367 ATATAAACTAT-AA-
1 ATATAAACTATAAAT
* *
106380 ATGTAAACTATATAT
1 ATATAAACTATAAAT
*
106395 GTATAAACTATAAA
1 ATATAAACTATAAA
106409 AGGTATATAC
Statistics
Matches: 76, Mismatches: 17, Indels: 18
0.68 0.15 0.16
Matches are distributed among these distances:
13 27 0.36
14 5 0.07
15 21 0.28
16 11 0.14
18 12 0.16
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (15 bp):
ATATAAACTATAAAT
Found at i:106446 original size:2 final size:2
Alignment explanation
Indices: 106435--106476 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
106425 AACTATAATT
106435 TA TA TA -A 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
106476 T
1 T
106477 TATTCAAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:106598 original size:17 final size:18
Alignment explanation
Indices: 106576--106629 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
106566 TTGAGAAATT
*
106576 TTGAGAA-TATAGGGAAA
1 TTGAGAATTAGAGGGAAA
106593 TTGAGAATTTAGAGGGAAA
1 TTGAGAA-TTAGAGGGAAA
*
106612 TTGGGAAATTTAGAGGGA
1 TTGAG-AA-TTAGAGGGA
106630 TTAGAACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 7 0.22
19 13 0.41
20 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
TTGAGAATTAGAGGGAAA
Found at i:106608 original size:19 final size:20
Alignment explanation
Indices: 106586--106629 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
106576 TTGAGAATAT
106586 AGGGAAATTGAG-AATTTAG
1 AGGGAAATTGAGAAATTTAG
*
106605 AGGGAAATTGGGAAATTTAG
1 AGGGAAATTGAGAAATTTAG
106625 AGGGA
1 AGGGA
106630 TTAGAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.23
Consensus pattern (20 bp):
AGGGAAATTGAGAAATTTAG
Found at i:106876 original size:15 final size:16
Alignment explanation
Indices: 106847--106879 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
106837 TTTCTATATG
106847 TATGTATATAACTATA
1 TATGTATATAACTATA
106863 TATGTATA-AACTATA
1 TATGTATATAACTATA
106878 TA
1 TA
106880 AAATATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
TATGTATATAACTATA
Found at i:106929 original size:10 final size:9
Alignment explanation
Indices: 106911--107007 Score: 72
Period size: 8 Copynumber: 11.7 Consensus size: 9
106901 ATTTATATTA
106911 ATATAGTAT
1 ATATAGTAT
106920 ATATACGTAT
1 ATATA-GTAT
*
106930 CTATA--ACT
1 ATATAGTA-T
106938 ATA-AGTA-
1 ATATAGTAT
*
106945 ATAGAG-AT
1 ATATAGTAT
106953 ATATA-TAT
1 ATATAGTAT
106961 ATATA-TAT
1 ATATAGTAT
106969 ATATA-TAT
1 ATATAGTAT
106977 ATATA-TAT
1 ATATAGTAT
106985 ATATA-TAT
1 ATATAGTAT
106993 ATATA-TAT
1 ATATAGTAT
107001 ATTATAG
1 A-TATAG
107008 AAACACTATG
Statistics
Matches: 76, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
7 6 0.08
8 52 0.68
9 10 0.13
10 8 0.11
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (9 bp):
ATATAGTAT
Found at i:106958 original size:2 final size:2
Alignment explanation
Indices: 106951--107006 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
106941 AGTAATAGAG
106951 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
106993 AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT A
107007 GAAACACTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107084 original size:21 final size:21
Alignment explanation
Indices: 107060--107124 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
107050 TTATTAAAAA
* **
107060 AAACCCTAAACACTAAACTTT
1 AAACCATAAACACTAAACACT
* *
107081 AAACGATACACACTAAACACT
1 AAACCATAAACACTAAACACT
* * *
107102 AAACCTTAAACCCTAAACCCT
1 AAACCATAAACACTAAACACT
107123 AA
1 AA
107125 TATAAATAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACCATAAACACTAAACACT
Found at i:107120 original size:14 final size:14
Alignment explanation
Indices: 107060--107120 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
107050 TTATTAAAAA
*
107060 AAACCCTAAACACT
1 AAACCTTAAACACT
*
107074 AAACTTTAAACGA-T
1 AAACCTTAAAC-ACT
*
107088 ACACAC-TAAACACT
1 AAAC-CTTAAACACT
*
107102 AAACCTTAAACCCT
1 AAACCTTAAACACT
107116 AAACC
1 AAACC
107121 CTAATATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
13 2 0.05
14 34 0.92
15 1 0.03
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
AAACCTTAAACACT
Found at i:107483 original size:2 final size:2
Alignment explanation
Indices: 107467--107540 Score: 89
Period size: 2 Copynumber: 37.0 Consensus size: 2
107457 TAAATAATTT
* * *
107467 TA TA TA -A TA TG TA TA TA AA CTA TG TA TA GTA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA
107509 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
107541 AACTATATGA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
1 2 0.03
2 57 0.92
3 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:108586 original size:23 final size:25
Alignment explanation
Indices: 108529--108586 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 25
108519 ATTAATCATG
108529 TTTTATATAATTTACATTTAAATAA
1 TTTTATATAATTTACATTTAAATAA
*
108554 TTTTAT-TAATTT-CA-TTGAATAA
1 TTTTATATAATTTACATTTAAATAA
108576 TTTTATATAAT
1 TTTTATATAAT
108587 ATGTATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 13 0.42
23 6 0.19
24 6 0.19
25 6 0.19
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTATATAATTTACATTTAAATAA
Found at i:108619 original size:20 final size:21
Alignment explanation
Indices: 108580--108638 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
108570 GAATAATTTT
* *
108580 ATATAATATGTATGTATAAACC
1 ATAT-ATATATATATATAAACC
* *
108602 ATGTATAT-TATATATAAACT
1 ATATATATATATATATAAACC
108622 ATATATATATATATATA
1 ATATATATATATATATA
108639 TATATAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 17 0.53
21 12 0.38
22 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATATATATATATATATAAACC
Found at i:108653 original size:2 final size:2
Alignment explanation
Indices: 108605--108644 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
108595 ATAAACCATG
*
108605 TA TA T- TA TA TA TA AA CTA 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
108645 AACTATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:108671 original size:27 final size:27
Alignment explanation
Indices: 108605--108661 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
108595 ATAAACCATG
* *
108605 TATATTATATATAAACTATATATATATA
1 TATA-TATATATAAACTATATAAATAAA
108633 TATATATATATAAACTATATAAAGTAAA
1 TATATATATATAAACTATATAAA-TAAA
108661 T
1 T
108662 TACTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (27 bp):
TATATATATATAAACTATATAAATAAA
Found at i:108969 original size:14 final size:14
Alignment explanation
Indices: 108950--108996 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
108940 ATTTTTTCTT
108950 TATATAAATTAAAC
1 TATATAAATTAAAC
108964 TATAT-AATT----
1 TATATAAATTAAAC
108973 TATATAAATTAAAC
1 TATATAAATTAAAC
*
108987 TATATTAATT
1 TATATAAATT
108997 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:108975 original size:23 final size:24
Alignment explanation
Indices: 108948--108997 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
108938 TTATTTTTTC
108948 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
108971 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
108995 TTT
1 TTT
108998 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:109257 original size:16 final size:16
Alignment explanation
Indices: 109238--109287 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
109228 AAATATCAGA
109238 TCAGGTTGAAAACAGG
1 TCAGGTTGAAAACAGG
109254 TCAGGTTGAAAACAGG
1 TCAGGTTGAAAACAGG
109270 TCAGGTTGAAAACAGG
1 TCAGGTTGAAAACAGG
109286 TC
1 TC
109288 GGGTAATACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (16 bp):
TCAGGTTGAAAACAGG
Found at i:109956 original size:22 final size:23
Alignment explanation
Indices: 109923--109973 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
109913 TGAAACATAA
*
109923 ATTTTATATCATCCAATGGCTCT
1 ATTTTATATCATCAAATGGCTCT
**
109946 ATTTT-TATCATCAAATTTCTCT
1 ATTTTATATCATCAAATGGCTCT
109968 ATTTTA
1 ATTTTA
109974 ACAAATCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTTATATCATCAAATGGCTCT
Found at i:118578 original size:11 final size:11
Alignment explanation
Indices: 118550--118581 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
118540 GAGCTGTTAT
118550 AAATAAA-TAA
1 AAATAAAGTAA
118560 AAAT-AAGTAA
1 AAATAAAGTAA
118570 AAATAAAGTAA
1 AAATAAAGTAA
118581 A
1 A
118582 TAGATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 11 0.55
11 7 0.35
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (11 bp):
AAATAAAGTAA
Found at i:128770 original size:20 final size:20
Alignment explanation
Indices: 128710--128787 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
128700 AAATAACCAA
* * *
128710 CAAATTCGCAACGCGGTAT-
1 CAAATTCGCAACACAGTTTC
**
128729 CAAATTCGCAACAC-GAACTC
1 CAAATTCGCAACACAG-TTTC
*
128749 CAATTTCGCAACACAGTTTC
1 CAAATTCGCAACACAGTTTC
*
128769 CAAATTCGCAACTCAGTTT
1 CAAATTCGCAACACAGTTT
128788 TGAAATTCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.02
19 14 0.29
20 32 0.67
21 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACACAGTTTC
Found at i:128793 original size:20 final size:20
Alignment explanation
Indices: 128747--128803 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
128737 CAACACGAAC
* *
128747 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACTCAGTT
128767 TCCAAATTCGCAACTCAGTT
1 TCCAAATTCGCAACTCAGTT
** *
128787 TTGAAATTCACAACTCA
1 TCCAAATTCGCAACTCA
128804 AATTTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (20 bp):
TCCAAATTCGCAACTCAGTT
Found at i:131038 original size:60 final size:60
Alignment explanation
Indices: 130937--131053 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
130927 ACTTCGACAC
* ** * * * *
130937 CGAGATCCATCACCTCATCGAGCCTCTTCTCCACTTTGACACCGAGATCCATCACCTCAT
1 CGAGAGCCATCACCTCATCGAGCCGATTCTACACCTCGACACCGAGAGCCATCACCTCAT
* *
130997 CGAGAGCCATCACCTGATGGAGCCGATTCTACACCTCGACACCGAGAGCCATCACCT
1 CGAGAGCCATCACCTCATCGAGCCGATTCTACACCTCGACACCGAGAGCCATCACCT
131054 ATTCCATCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.21
Consensus pattern (60 bp):
CGAGAGCCATCACCTCATCGAGCCGATTCTACACCTCGACACCGAGAGCCATCACCTCAT
Found at i:131192 original size:21 final size:21
Alignment explanation
Indices: 131168--131217 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
131158 GTTAGGGGAG
*
131168 TTACGTGATGAGTTCAGTGCT
1 TTACGTGATGAGGTCAGTGCT
*
131189 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCAGTGCT
131210 TTACGTGA
1 TTACGTGA
131218 CGCCAATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTGCT
Found at i:131280 original size:42 final size:43
Alignment explanation
Indices: 131234--131330 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
131224 TGGTGCATGG
* *
131234 CGTGATGAGGTAGGGT-CTTTACGTGGTGAGGTAGT-TATTTTA
1 CGTGATGAGGTAGGGTGCTTTACATGGTGAGGTA-TCTACTTTA
** * *
131276 CGTGATGA-CAATGGTGCTTTACATGGTGAGGTATCTGCTTTA
1 CGTGATGAGGTAGGGTGCTTTACATGGTGAGGTATCTACTTTA
131318 CGTGATGAGGTAG
1 CGTGATGAGGTAG
131331 CTGCTCTGCG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
41 5 0.12
42 37 0.86
43 1 0.02
ACGTcount: A:0.21, C:0.10, G:0.34, T:0.35
Consensus pattern (43 bp):
CGTGATGAGGTAGGGTGCTTTACATGGTGAGGTATCTACTTTA
Found at i:131314 original size:21 final size:21
Alignment explanation
Indices: 131290--131335 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
131280 ATGACAATGG
* *
131290 TGCTTTACATGGTGAGGTATC
1 TGCTTTACATGATGAGGTAGC
*
131311 TGCTTTACGTGATGAGGTAGC
1 TGCTTTACATGATGAGGTAGC
131332 TGCT
1 TGCT
131336 CTGCGTGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.30, T:0.37
Consensus pattern (21 bp):
TGCTTTACATGATGAGGTAGC
Found at i:131342 original size:21 final size:21
Alignment explanation
Indices: 131302--131343 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
131292 CTTTACATGG
* *
131302 TGAGGTATCTGCTTTACGTGA
1 TGAGGTAGCTGCTCTACGTGA
*
131323 TGAGGTAGCTGCTCTGCGTGA
1 TGAGGTAGCTGCTCTACGTGA
131344 GATTGTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (21 bp):
TGAGGTAGCTGCTCTACGTGA
Found at i:131737 original size:21 final size:21
Alignment explanation
Indices: 131625--131755 Score: 97
Period size: 21 Copynumber: 6.2 Consensus size: 21
131615 AGAAGCCCGT
* *
131625 TCCACCTACCATTGTTCAGGA
1 TCCACCTCCCATCGTTCAGGA
**
131646 TCCACCTCCCATTATTCAGGA
1 TCCACCTCCCATCGTTCAGGA
* ** *
131667 TTCACCTGTCATCGTTCAAGA
1 TCCACCTCCCATCGTTCAGGA
* *
131688 GGCC-CCTCCCATCATTCAAGAGA
1 -TCCACCTCCCATCGTTC-AG-GA
*
131711 -CC-CCTCCCATCGTTTAGGA
1 TCCACCTCCCATCGTTCAGGA
* *
131730 TCCACCTCTCACCGTTCAGGA
1 TCCACCTCCCATCGTTCAGGA
131751 TCCAC
1 TCCAC
131756 ATGGCATACC
Statistics
Matches: 86, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
19 2 0.02
20 4 0.05
21 76 0.88
22 2 0.02
23 2 0.02
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.26
Consensus pattern (21 bp):
TCCACCTCCCATCGTTCAGGA
Found at i:133608 original size:18 final size:18
Alignment explanation
Indices: 133585--133620 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
133575 AAGGCGGTTG
*
133585 TGATTGGGATTTTCATTT
1 TGATTGCGATTTTCATTT
*
133603 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTCATTT
133621 CCTTTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTCATTT
Found at i:135809 original size:24 final size:24
Alignment explanation
Indices: 135782--135847 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
135772 CAAAATCTGA
*
135782 GTATTAACCAAGATCAAAGTCCGG
1 GTATTAACCAAGATCAAAGTCCAG
* *
135806 GTATTCACCAAGATCAAAGTCTAG
1 GTATTAACCAAGATCAAAGTCCAG
*
135830 GTATTGACCAAGATCAAA
1 GTATTAACCAAGATCAAA
135848 TTTCGAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (24 bp):
GTATTAACCAAGATCAAAGTCCAG
Found at i:136570 original size:16 final size:15
Alignment explanation
Indices: 136548--136586 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
136538 GAAATCATTG
136548 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
136564 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
136579 AAAAATTA
1 AAAAATTA
136587 GAGATGAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:136799 original size:40 final size:40
Alignment explanation
Indices: 136763--136973 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
136753 TTAAAATCTA
*
136763 TGTTGCGAATTCAGAAATCGAGTTGCCAAAACA-AAATTCG
1 TGTTGCGAATTCAGAAATCGAGTTGCGAAAA-AGAAATTCG
** * * *
136803 TGTTGCGAA-TCAGAAAATCTTGTTGCGAAAAGGATA-CCTG
1 TGTTGCGAATTCAG-AAATCGAGTTGCGAAAAAGAAATTC-G
* * *
136843 TGTTGCGAATTTC-TAAATCGCGTTGCTAAAAAGAAATTCG
1 TGTTGCGAA-TTCAGAAATCGAGTTGCGAAAAAGAAATTCG
*
136883 CGTTGCGAATTCAGAAATCGAGTTGCGAAAAAGAAATTCG
1 TGTTGCGAATTCAGAAATCGAGTTGCGAAAAAGAAATTCG
*
136923 CGTTGCGAATTCAGAAAATCGAGTTGCGAAAAAGAAA-TCG
1 TGTTGCGAATTCAG-AAATCGAGTTGCGAAAAAGAAATTCG
*
136963 AGTTGCGAATT
1 TGTTGCGAATT
136974 TGAAATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
39 8 0.06
40 112 0.77
41 23 0.16
42 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (40 bp):
TGTTGCGAATTCAGAAATCGAGTTGCGAAAAAGAAATTCG
Found at i:136826 original size:20 final size:20
Alignment explanation
Indices: 136763--136993 Score: 94
Period size: 20 Copynumber: 11.5 Consensus size: 20
136753 TTAAAATCTA
136763 TGTTGCGAATTCAG-AAATCG
1 TGTTGCGAA-TCAGAAAATCG
* * * *
136783 AGTTGCCAAAACA-AAATTCG
1 TGTTG-CGAATCAGAAAATCG
*
136803 TGTTGCGAATCAGAAAATCT
1 TGTTGCGAATCAGAAAATCG
* * * *
136823 TGTTGCGAA-AAGGATACCTG
1 TGTTGCGAATCAGAAAATC-G
****
136843 TGTTGCGAATTTCTAAATCG
1 TGTTGCGAATCAGAAAATCG
* * ** *
136863 CGTTGCTAAAAAGAAATTCG
1 TGTTGCGAATCAGAAAATCG
*
136883 CGTTGCGAATTCAG-AAATCG
1 TGTTGCGAA-TCAGAAAATCG
* ** *
136903 AGTTGCGAAAAAGAAATTCG
1 TGTTGCGAATCAGAAAATCG
*
136923 CGTTGCGAATTCAGAAAATCG
1 TGTTGCGAA-TCAGAAAATCG
* **
136944 AGTTGCGAAAAAG-AAATCG
1 TGTTGCGAATCAGAAAATCG
* ** *
136963 AGTTGCGAATTTGAAATTCCG
1 TGTTGCGAATCAGAAAAT-CG
136984 TGTTGCGAAT
1 TGTTGCGAAT
136994 ACCAAATTCG
Statistics
Matches: 153, Mismatches: 48, Indels: 19
0.70 0.22 0.09
Matches are distributed among these distances:
19 28 0.18
20 90 0.59
21 35 0.23
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (20 bp):
TGTTGCGAATCAGAAAATCG
Found at i:136832 original size:80 final size:78
Alignment explanation
Indices: 136743--136992 Score: 229
Period size: 80 Copynumber: 3.1 Consensus size: 78
136733 AAATAAAAGC
* * *
136743 TGTTGCGAAATTAAAATCTATGTTGCGAATTCAGAAATCGAGTTGCCAAAACA-AAATTCGTGTT
1 TGTTGCGAAA-AAAAATCTGTGTTGCGAATTCAGAAATCGAGTTGCCAAAA-AGAAATTCGAGTT
*
136807 GCGAATCAGAAAATCT
64 GCGAATCAG-AAATCG
* * * * * * *
136823 TGTTGCGAAAAGGATACCTGTGTTGCGAATTTC-TAAATCGCGTTGCTAAAAAGAAATTCGCGTT
1 TGTTGCGAAAA-AAAATCTGTGTTGCGAA-TTCAGAAATCGAGTTGCCAAAAAGAAATTCGAGTT
136887 GCGAATTCAGAAATCG
64 GCGAA-TCAGAAATCG
* * *
136903 AGTTGCGAAAAAGAAAT-TCGCGTTGCGAATTCAGAAAATCGAGTTGCGAAAAAGAAA-TCGAGT
1 TGTTGCGAAAAA-AAATCT-GTGTTGCGAATTCAG-AAATCGAGTTGCCAAAAAGAAATTCGAGT
**
136966 TGCGAATTTGAAATTCCG
63 TGCGAATCAGAAA-T-CG
136984 TGTTGCGAA
1 TGTTGCGAA
136993 TACCAAATTC
Statistics
Matches: 138, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
79 10 0.07
80 91 0.66
81 37 0.27
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
TGTTGCGAAAAAAAATCTGTGTTGCGAATTCAGAAATCGAGTTGCCAAAAAGAAATTCGAGTTGC
GAATCAGAAATCG
Found at i:136978 original size:19 final size:19
Alignment explanation
Indices: 136874--136993 Score: 105
Period size: 21 Copynumber: 5.9 Consensus size: 19
136864 GTTGCTAAAA
*
136874 AGAAATTCGCGTTGCGAATT
1 AGAAA-TCGAGTTGCGAATT
**
136894 CAGAAATCGAGTTGCGAAAA
1 -AGAAATCGAGTTGCGAATT
*
136914 AGAAATTCGCGTTGCGAATT
1 AGAAA-TCGAGTTGCGAATT
**
136934 CAGAAAATCGAGTTGCGAAAA
1 -AG-AAATCGAGTTGCGAATT
136955 AGAAATCGAGTTGCGAATT
1 AGAAATCGAGTTGCGAATT
* *
136974 TGAAATTCCGTGTTGCGAAT
1 AGAAA-T-CGAGTTGCGAAT
136994 ACCAAATTCG
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
19 24 0.30
20 25 0.31
21 29 0.36
22 3 0.04
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (19 bp):
AGAAATCGAGTTGCGAATT
Found at i:136979 original size:60 final size:59
Alignment explanation
Indices: 136796--136993 Score: 173
Period size: 60 Copynumber: 3.3 Consensus size: 59
136786 TGCCAAAACA
* ** * * * * *
136796 AAATTCGTGTTGCGAATCAGAAAATCTTGTTGCGAAAAGGATACCTGTGTTGCGAATTTCT
1 AAATTCGCGTTGCGAATCAGAAAATCGAGTTGCGAAAAAGAAATC-GAGTTGCGAATTT-G
* ** * * ** ***
136857 AAA-TCGCGTTGCTAAAAAGAAATTCGCGTTGCGAATTCAGAAATCGAGTTGCGAAAAAG
1 AAATTCGCGTTGCGAATCAGAAAATCGAGTTGCGAA-AAAGAAATCGAGTTGCGAATTTG
136916 AAATTCGCGTTGCGAATTCAGAAAATCGAGTTGCGAAAAAGAAATCGAGTTGCGAATTTG
1 AAATTCGCGTTGCGAA-TCAGAAAATCGAGTTGCGAAAAAGAAATCGAGTTGCGAATTTG
*
136976 AAATTCCGTGTTGCGAAT
1 AAATT-CGCGTTGCGAAT
136994 ACCAAATTCG
Statistics
Matches: 105, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
59 3 0.03
60 69 0.66
61 33 0.31
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (59 bp):
AAATTCGCGTTGCGAATCAGAAAATCGAGTTGCGAAAAAGAAATCGAGTTGCGAATTTG
Found at i:137081 original size:20 final size:20
Alignment explanation
Indices: 137058--137107 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
137048 AAAGAAATTC
*
137058 GAGTTGTGAATTTCA-AAACT
1 GAGTTGCGAATTT-AGAAACT
137078 GAGTTGCGAATTTAGAAACT
1 GAGTTGCGAATTTAGAAACT
*
137098 GTGTTGCGAA
1 GAGTTGCGAA
137108 ATTGAAGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (20 bp):
GAGTTGCGAATTTAGAAACT
Found at i:137142 original size:19 final size:20
Alignment explanation
Indices: 137100--137149 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
137090 TAGAAACTGT
* * *
137100 GTTGCGAAATTGAAGTTCGT
1 GTTGCGAATTTGAAGATCGC
137120 GTTGCGAATTTG-AGATCGC
1 GTTGCGAATTTGAAGATCGC
137139 GTTGCGAATTT
1 GTTGCGAATTT
137150 ACTGGTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAGATCGC
Found at i:139106 original size:53 final size:53
Alignment explanation
Indices: 138998--139136 Score: 138
Period size: 53 Copynumber: 2.6 Consensus size: 53
138988 GAGGGTGTGA
* * * ** * * *
138998 AAATCCGAATTTTCTTCAGTTAGTTGTTTATTTTACGGACTGTGTCCACCATG
1 AAATCTGAGTTTTCTTCAATTAGTTACTTATTTCACAGACCGTGTCCACCATG
*
139051 AAATCTGAGTTTTCTTCAATTAGTTACTTATTTCACAGACCGTGTCCA-TAGTG
1 AAATCTGAGTTTTCTTCAATTAGTTACTTATTTCACAGACCGTGTCCACCA-TG
* * *
139104 AAAT-TTAGGTTTTCTTTAATTAATTACTTATTT
1 AAATCTGA-GTTTTCTTCAATTAGTTACTTATTT
139137 TACGGACTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
52 3 0.04
53 69 0.96
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (53 bp):
AAATCTGAGTTTTCTTCAATTAGTTACTTATTTCACAGACCGTGTCCACCATG
Found at i:142536 original size:17 final size:17
Alignment explanation
Indices: 142514--142549 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
142504 ACCTTAAGGG
142514 TTGAGGCAATTAACTGC
1 TTGAGGCAATTAACTGC
142531 TTGAGGCAATTAACTGC
1 TTGAGGCAATTAACTGC
142548 TT
1 TT
142550 AAAGCAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (17 bp):
TTGAGGCAATTAACTGC
Found at i:144040 original size:37 final size:37
Alignment explanation
Indices: 143994--144103 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
143984 AAACAAACGT
* *
143994 TAGAATTTTAGTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
*
144031 TAGAGTTTTACTAGGATTGAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
144068 TAGAGTTCTACTATGATTCAAAATCCTAAAAATAGG
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGG
144104 TTCCACATGC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:144708 original size:39 final size:37
Alignment explanation
Indices: 144648--144799 Score: 116
Period size: 39 Copynumber: 3.9 Consensus size: 37
144638 TATATTTTTA
*
144648 TTTT-TTAGATTACATATATATATGTTATTTTTATTATCT
1 TTTTATTA-ATTATATATATATAT-TTATTTTT-TTATCT
* *
144687 GTTTTATTAATT-TATATATATATTTGCTATTTTTTATGT
1 -TTTTATTAATTATATATATATATTT-AT-TTTTTTATCT
*
144726 TTTTATTTATTATATATATATATATATATTATTTTTA-CTT
1 TTTTATTAATTATATATATATAT-T-TATT-TTTTTATC-T
* *
144766 TTTTATT-ATTAT-TTTATTTATTTATTTTATTTAT
1 TTTTATTAATTATATATATATATTTATTTT-TTTAT
144800 ATATATATAT
Statistics
Matches: 94, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
35 2 0.02
36 8 0.09
37 1 0.01
38 19 0.20
39 33 0.35
40 27 0.29
41 4 0.04
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (37 bp):
TTTTATTAATTATATATATATATTTATTTTTTTATCT
Found at i:144736 original size:4 final size:4
Alignment explanation
Indices: 144714--144946 Score: 66
Period size: 4 Copynumber: 58.2 Consensus size: 4
144704 ATATATTTGC
* * *
144714 TATT T-TT TATGT T-TT TATT TATT ATATA TATA TATA TATAT TA-T T-TT
1 TATT TATT TAT-T TATT TATT TATT -TATT TATT TATT TAT-T TATT TATT
*
144761 TACTT T-TT TA-T TA-T TATTT TATT TATT TATTT TATT TATAT ATATA
1 TA-TT TATT TATT TATT TA-TT TATT TATT TA-TT TATT TAT-T -TATT
* * *
144807 TATT T-TT T-TCT T-TT TCTT TATT TTTT TATA TATT T-TT TATT T-TT
1 TATT TATT TAT-T TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * * *
144851 TATT TATTT TACT T-TC TATTT TATC T-TT TCTT TA-T TATCT TATC T-TT
1 TATT TA-TT TATT TATT TA-TT TATT TATT TATT TATT TAT-T TATT TATT
* * * *
144898 TATT TAATT TTTT TCTT CATTT TAATT TAATT AATT TATT TATT TATT
1 TATT T-ATT TATT TATT TA-TT T-ATT T-ATT TATT TATT TATT TATT
144946 T
1 T
144947 CTTACTTTTA
Statistics
Matches: 176, Mismatches: 25, Indels: 56
0.68 0.10 0.22
Matches are distributed among these distances:
3 38 0.22
4 92 0.52
5 42 0.24
6 4 0.02
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:144759 original size:41 final size:40
Alignment explanation
Indices: 144642--144777 Score: 120
Period size: 39 Copynumber: 3.4 Consensus size: 40
144632 TTGGTATATA
* * *
144642 TTTTTATTTTTTAGATTACATATATATATGTTATTTTTATTAT
1 TTTTTATTTATTATA-TATATATATATATGTTA-TTTT-TTAT
* *
144685 CTGTTTTATTAATT-TATATATATAT-T-TGCTATTTTTTAT
1 -T-TTTTATTTATTATATATATATATATATGTTATTTTTTAT
*
144724 GTTTTTATTTATTATATATATATATATATATTA-TTTTTACT
1 -TTTTTATTTATTATATATATATATATATGTTATTTTTTA-T
144765 TTTTTA-TTATTAT
1 TTTTTATTTATTAT
144778 TTTATTTATT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
38 10 0.13
39 23 0.29
40 17 0.22
41 8 0.10
42 1 0.01
43 8 0.10
44 2 0.03
45 9 0.12
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (40 bp):
TTTTTATTTATTATATATATATATATATGTTATTTTTTAT
Found at i:144839 original size:30 final size:28
Alignment explanation
Indices: 144757--144860 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 28
144747 ATATATATTA
*
144757 TTTTTACTTTTTTATTATTATTTTATTTATTT
1 TTTTTATTTTTTTA-TA-TATTTT-TTT-TTT
* *
144789 ATTTTATTTATATATATATATTTTTTTCTTT
1 TTTTTATTT-T-TTTATATATTTTTTT-TTT
144820 TTCTTTATTTTTTTATATATTTTTTATTTT
1 TT-TTTATTTTTTTATATATTTTTT-TTTT
144850 TTATTTATTTT
1 TT-TTTATTTT
144861 ACTTTCTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
30 26 0.43
31 9 0.15
32 20 0.33
33 3 0.05
34 3 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTATTTTTTTATATATTTTTTTTTT
Found at i:144846 original size:51 final size:50
Alignment explanation
Indices: 144675--144848 Score: 158
Period size: 55 Copynumber: 3.4 Consensus size: 50
144665 ATATATGTTA
* * * * * * *
144675 TTTTTATTATCTGTTTTATTAATTTATATATA-TATTTGCTATTTTTTATG
1 TTTTTATTAT-TATTTTATTTATATATATATATTTTTTTCTTTTTTTTATT
* *
144725 TTTTTA-T-TTATTATATATATATATATATATTATTTTTACTTTTTTATTATT
1 TTTTTATTATTATTTTATTTATATATATATATT-TTTTT-CTTTTTT-TTATT
*
144776 ATTTTATTTATTTATTTTATTTATATATATATATTTTTTTCTTTTTCTTTATT
1 TTTTTA-TTA-TTATTTTATTTATATATATATATTTTTTTCTTTTT-TTTATT
144829 TTTTTATATATT-TTTTATTT
1 TTTTTAT-TATTATTTTATTT
144849 TTTATTTATT
Statistics
Matches: 101, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
47 16 0.16
48 2 0.02
49 4 0.04
50 12 0.12
51 17 0.17
52 3 0.03
53 19 0.19
54 6 0.06
55 22 0.22
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.71
Consensus pattern (50 bp):
TTTTTATTATTATTTTATTTATATATATATATTTTTTTCTTTTTTTTATT
Found at i:147927 original size:10 final size:10
Alignment explanation
Indices: 147912--147952 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
147902 CAATCAGAAC
147912 AAAAAGAAAA
1 AAAAAGAAAA
147922 AAAAAGAAAA
1 AAAAAGAAAA
147932 AAAAA-AAAA
1 AAAAAGAAAA
*
147941 ACAAAGGAAAA
1 A-AAAAGAAAA
147952 A
1 A
147953 GTGAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 5 0.18
10 18 0.64
11 5 0.18
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:147929 original size:19 final size:17
Alignment explanation
Indices: 147907--147941 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
147897 AGATCCAATC
147907 AGAACAAAAAGAAAAAAAA
1 AGAA-AAAAA-AAAAAAAA
147926 AGAAAAAAAAAAAAAA
1 AGAAAAAAAAAAAAAA
147942 CAAAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAAA
Found at i:147946 original size:19 final size:18
Alignment explanation
Indices: 147907--147952 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
147897 AGATCCAATC
*
147907 AGAACAAAAAGAAAAAAAA
1 AGAA-AAAAAAAAAAAAAA
147926 AGAAAAAAAAAAAAAACAA
1 AGAAAAAAAAAAAAAA-AA
147945 AGGAAAAA
1 A-GAAAAA
147953 GTGAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 11 0.46
19 7 0.29
20 6 0.25
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAAAAAA
Found at i:147951 original size:15 final size:15
Alignment explanation
Indices: 147913--147952 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
147903 AATCAGAACA
*
147913 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAC
*
147928 AAAAAAAAAAAAAAC
1 AAAAGAAAAAAAAAC
*
147943 AAAGGAAAAA
1 AAAAGAAAAA
147953 GTGAAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAC
Found at i:149582 original size:43 final size:44
Alignment explanation
Indices: 149521--149639 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 44
149511 CGAAGGGGTC
* * *
149521 ATCCACGATTTTAACTCCATGACGGAGGATATCGTAC-C-CACGA
1 ATCCACGATTTCAACTCCATAACAGAGGATATCGTACTCACAC-A
* *
149564 ATCCACGATTTCAACTCCATAATAGAGGATATCGTGCTCACACA
1 ATCCACGATTTCAACTCCATAACAGAGGATATCGTACTCACACA
* *
149608 A-CCACGATTTCAACTTCACAAC-GAAGGATATC
1 ATCCACGATTTCAACTCCATAACAG-AGGATATC
149640 CTACCAACTC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 58 0.89
44 3 0.05
45 3 0.05
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (44 bp):
ATCCACGATTTCAACTCCATAACAGAGGATATCGTACTCACACA
Found at i:149951 original size:124 final size:124
Alignment explanation
Indices: 149784--150027 Score: 319
Period size: 124 Copynumber: 2.0 Consensus size: 124
149774 CAGTACAAGC
* * *
149784 TTGGATTTCAACTTCACGAAGAAGGATATTCAAGTCAAAGCTCAACTTCACGAA-AAAGGGGTCA
1 TTGGATTTCAACTTCACGAAGAAGAATATCCAAGTCAAAGCTCAACTTCAC-AACAAAGGGGCCA
* * *
149848 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCAGCATTCATCTTTAGA
65 TCCACGGTTTCAACTTCACGAAGAAGGGAATCGTACACACAAGCAACATTCATCTTTAGA
* * * * * *
149908 TTGGATTTCAACTTCACGACGAAGAATATCCAATTCAAGGCTCAACTTCGCAACGAATGGGCCAT
1 TTGGATTTCAACTTCACGAAGAAGAATATCCAAGTCAAAGCTCAACTTCACAACAAAGGGGCCAT
* * * * *
149973 CCACGGTTTTAACTTCATGAATAAGGGAATCGTACCCACCAGCAACATTCATCTT
66 CCACGGTTTCAACTTCACGAAGAAGGGAATCGTACACACAAGCAACATTCATCTT
150028 CAGGAACAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 2 0.02
124 100 0.98
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (124 bp):
TTGGATTTCAACTTCACGAAGAAGAATATCCAAGTCAAAGCTCAACTTCACAACAAAGGGGCCAT
CCACGGTTTCAACTTCACGAAGAAGGGAATCGTACACACAAGCAACATTCATCTTTAGA
Found at i:150135 original size:37 final size:36
Alignment explanation
Indices: 150085--150177 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
150075 ATAAGGGGTC
*
150085 GTCTCGCTTGAGACTAATTT-ACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AATTTCACTCAAAACAAA-TTTT
* * **
150122 GTCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTT
1 GTCTCTCTTGAGACAATTTCACTCAAAACAAATTTT
* *
150158 GTCTCTCTTAAGACAGTTTC
1 GTCTCTCTTGAGACAATTTC
150178 CCTTGAAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
36 27 0.55
37 22 0.45
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
GTCTCTCTTGAGACAATTTCACTCAAAACAAATTTT
Found at i:150165 original size:36 final size:36
Alignment explanation
Indices: 150110--150542 Score: 254
Period size: 36 Copynumber: 12.1 Consensus size: 36
150100 AATTTACTCA
*
150110 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTT
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
150147 AAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * *
150183 AAACAAA------ATCT-TTGA-ATATGTTTTACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-G-TTTCCCTTG
* * * **
150212 AAACAAATTTCGTCTCCCTTGGGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * * *
150248 GAACTAAGTTTTGTCTCTCTTGAGAAAATTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
150285 AAATAAATTTTGTCTTTGTCTCTCTTGAGATAGTTTCTCTTG
1 AAACAAA-----T-TTTGTCTCTCTTGAGACAGTTTCCCTTG
150327 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
***** * *
150363 AATTTTTTTTTGTTTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * *
150399 AAACAAA------ATCT-TTGA-ATATGTTTTACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-G-TTTCCCTTG
* * * **
150428 AAACAAATTTCGTCTCCCTTGAGAAAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
150464 GAACTAAGTTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
150501 AAACAAAGTTTTGTCTCTCTTGAGACAGTTACTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
150538 AAACA
1 AAACA
150543 CCAATCTTTG
Statistics
Matches: 301, Mismatches: 64, Indels: 62
0.70 0.15 0.15
Matches are distributed among these distances:
28 5 0.02
29 23 0.08
30 18 0.06
35 14 0.05
36 110 0.37
37 98 0.33
41 1 0.00
42 32 0.11
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:150503 original size:216 final size:212
Alignment explanation
Indices: 150110--150542 Score: 670
Period size: 216 Copynumber: 2.0 Consensus size: 212
150100 AATTTACTCA
*
150110 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCTTAAGACAGT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAGACAGT
* *
150175 TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGGGACAGT
66 TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGAAAGT
* *
150240 TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAAAATTTCTCTTGAAATAAATTTTGTCTTTGTC
131 TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAAAATTTCCCTTGAAACAAA----GT-TTTGTC
* *
150305 TCTCTTGAGATAGTTTCTCTTG
191 TCTCTTGAGACAGTTACTCTTG
***** * * *
150327 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAATTTTTTTTTGTTTCTCTTGAGATAGT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAGACAGT
150391 TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGAAAGT
66 TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGAAAGT
*
150456 TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCT
131 TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAAAATTTCCCTTGAAACAAAGTTTTGTCTCTCT
150521 TGAGACAGTTACTCTTG
196 TGAGACAGTTACTCTTG
150538 AAACA
1 AAACA
150543 CCAATCTTTG
Statistics
Matches: 200, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 31 0.16
212 2 0.01
216 160 0.80
217 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (212 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAGACAGT
TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGAAAGT
TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAAAATTTCCCTTGAAACAAAGTTTTGTCTCTCT
TGAGACAGTTACTCTTG
Found at i:150510 original size:37 final size:37
Alignment explanation
Indices: 150428--150542 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
150418 GTTTTACATT
* * *
150428 AAACAAA-TTTCGTCTCCCTTGAGA-AAGTTTCTTTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAA-TTTCTCTTG
* * *
150464 GAACTAAGTTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG
* *
150501 AAACAAAGTTTTGTCTCTCTTGAGACAGTTACTCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG
150538 AAACA
1 AAACA
150543 CCAATCTTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
36 5 0.08
37 59 0.89
38 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (37 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG
Found at i:150641 original size:71 final size:67
Alignment explanation
Indices: 150492--150643 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
150482 CTTGAGACAA
* * * * *
150492 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTACTCTTGAAACACCAATCTTTGAATA
1 TTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTACTCTTGAAACACAAACCTTTGAAAA
150557 TG
66 TG
* * * *
150559 TTGCTCTTGAAACAAAATTTT-TCCTTTCTTGAGATAGTTTCTCTTGAAACACAAAAAAACCTTT
1 TTTCTCTTGAAACAAAATTTTGT-CTCTCTTGAGACAGTTACTCTTGAAACAC----AAACCTTT
150623 GAAAATG
61 GAAAATG
150630 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
150644 CCAAACCTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
66 1 0.01
67 44 0.63
71 25 0.36
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (67 bp):
TTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTACTCTTGAAACACAAACCTTTGAAAA
TG
Found at i:151264 original size:37 final size:37
Alignment explanation
Indices: 151223--151332 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
151213 AAAAAAACAT
*
151223 TAGAGTTTTAGTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
151260 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* *
151297 TAGAGTTTTACTATGATTCAAACTCCTAAAACTAGG
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGG
151333 TTCCACAAGC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:151989 original size:39 final size:41
Alignment explanation
Indices: 151892--151991 Score: 116
Period size: 39 Copynumber: 2.5 Consensus size: 41
151882 TTTAGATTAC
*
151892 ATATATATATGTTATTTTTTATTATCTGCTTTATTAATTTAT
1 ATATATATATATTATTTTTTATTATCT-CTTTATTAATTTAT
* * * *
151934 ATATATATTTACTATTTTTTA-TGT-T-TTTATTTATTATAT
1 ATATATATATATTATTTTTTATTATCTCTTTATTAATT-TAT
151973 ATATATATATATTATTTTT
1 ATATATATATATTATTTTT
151992 ACTTTTTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
38 9 0.18
39 20 0.40
40 1 0.02
41 2 0.04
42 18 0.36
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (41 bp):
ATATATATATATTATTTTTTATTATCTCTTTATTAATTTAT
Found at i:152012 original size:48 final size:47
Alignment explanation
Indices: 151931--152029 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 47
151921 TTTATTAATT
* *
151931 TATATATATATTTACTATTTTTTATGTTTTTATTTATTATATATATA
1 TATATATATATTTACTATTTTTAATATTTTTATTTATTATATATATA
* * * *
151978 TATATATTATTTTTACT-TTTTTAATAATTTTTATTTGTTTTATTTATA
1 TATATA-TATATTTACTATTTTTAAT-ATTTTTATTTATTATATATATA
152026 TATA
1 TATA
152030 CTTTTTCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 13 0.30
48 31 0.70
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (47 bp):
TATATATATATTTACTATTTTTAATATTTTTATTTATTATATATATA
Found at i:152053 original size:10 final size:10
Alignment explanation
Indices: 152031--152073 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
152021 TTATATATAC
*
152031 TTTTTC-TTC
1 TTTTTCTTTA
152040 TTTTTCTTTA
1 TTTTTCTTTA
152050 TTTTTCTTTA
1 TTTTTCTTTA
152060 TTTTTTCTTTA
1 -TTTTTCTTTA
152071 TTT
1 TTT
152074 ATTTTACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
9 6 0.19
10 15 0.48
11 10 0.32
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:152064 original size:11 final size:11
Alignment explanation
Indices: 152040--152073 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
152030 CTTTTTCTTC
152040 TTTTTCTTTA-
1 TTTTTCTTTAT
152050 TTTTTCTTTAT
1 TTTTTCTTTAT
152061 TTTTTCTTTAT
1 TTTTTCTTTAT
152072 TT
1 TT
152074 ATTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTAT
Found at i:152112 original size:20 final size:20
Alignment explanation
Indices: 152083--152121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
152073 TATTTTACTT
* *
152083 TCTATTTTATCTTTTCTTTC
1 TCTATCTTATCTTATCTTTC
152103 TCTATCTTATCTTATCTTT
1 TCTATCTTATCTTATCTTT
152122 TAATTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.67
Consensus pattern (20 bp):
TCTATCTTATCTTATCTTTC
Found at i:153030 original size:36 final size:36
Alignment explanation
Indices: 152990--153143 Score: 238
Period size: 36 Copynumber: 4.2 Consensus size: 36
152980 TATGTAATAG
152990 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
153026 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
* * *
153062 GTCCATGCATATAATCATCAGTAGTAAG-AGAATGTAT
1 AT-CATGCATATAATCATCAGTAGCAAGCA-CATGTAT
* *
153099 ATCATGCATATAATCATCAATAGCATGCACATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
153135 ATCATGCAT
1 ATCATGCAT
153144 CTTATTTCCT
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
36 75 0.70
37 32 0.30
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (36 bp):
ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
Found at i:153075 original size:73 final size:72
Alignment explanation
Indices: 152990--153143 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 72
152980 TATGTAATAG
* *
152990 ATCATGCATATAATCATCAGTAGCAAGCA-CATGTATATCATGCATATAATCATCAGTAGCAAGC
1 ATCATGCATATAATCATCAGTAGCAAG-AGAATGTATATCATGCATATAATCATCAATAGCAAGC
153054 ACATGTAT
65 ACATGTAT
* * *
153062 GTCCATGCATATAATCATCAGTAGTAAGAGAATGTATATCATGCATATAATCATCAATAGCATGC
1 AT-CATGCATATAATCATCAGTAGCAAGAGAATGTATATCATGCATATAATCATCAATAGCAAGC
153127 ACATGTAT
65 ACATGTAT
153135 ATCATGCAT
1 ATCATGCAT
153144 CTTATTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 9 0.12
73 65 0.88
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (72 bp):
ATCATGCATATAATCATCAGTAGCAAGAGAATGTATATCATGCATATAATCATCAATAGCAAGCA
CATGTAT
Found at i:156081 original size:23 final size:25
Alignment explanation
Indices: 156055--156102 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
156045 CTACCAAGGC
*
156055 CCCAAACCTAAACCCA-A-CCGGAA
1 CCCAAACCGAAACCCAGATCCGGAA
156078 CCCAAACCGAAACCCAGATCCGGAA
1 CCCAAACCGAAACCCAGATCCGGAA
156103 TGCCCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.68
24 1 0.05
25 6 0.27
ACGTcount: A:0.42, C:0.42, G:0.12, T:0.04
Consensus pattern (25 bp):
CCCAAACCGAAACCCAGATCCGGAA
Found at i:156085 original size:12 final size:12
Alignment explanation
Indices: 156055--156093 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
156045 CTACCAAGGC
*
156055 CCCAAACCTAAA
1 CCCAAACCGAAA
*
156067 CCC-AACCGGAA
1 CCCAAACCGAAA
156078 CCCAAACCGAAA
1 CCCAAACCGAAA
156090 CCCA
1 CCCA
156094 GATCCGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.44, C:0.46, G:0.08, T:0.03
Consensus pattern (12 bp):
CCCAAACCGAAA
Done.