Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 57 of 64
Found at i:11495013 original size:18 final size:18
Alignment explanation
Indices: 11494990--11495166 Score: 266
Period size: 18 Copynumber: 9.8 Consensus size: 18
11494980 CCTGAACATG
* *
11494990 AATCTCAATCTCAATCTC
1 AATCTCAATCTAAATCTA
*
11495008 AATCTCAATCTCAATCTA
1 AATCTCAATCTAAATCTA
11495026 AATCTCAATCTAAATCTA
1 AATCTCAATCTAAATCTA
* *
11495044 AATCTCAATCTCAATCTC
1 AATCTCAATCTAAATCTA
*
11495062 AATCTAAATCTAAATCTA
1 AATCTCAATCTAAATCTA
11495080 AATCTCAATCTAAATCTA
1 AATCTCAATCTAAATCTA
*
11495098 AATCTCAATCTAAATCTC
1 AATCTCAATCTAAATCTA
11495116 AATCTCAATCTAAATCTA
1 AATCTCAATCTAAATCTA
*
11495134 AATCTCAATCTCAATCT-
1 AATCTCAATCTAAATCTA
11495151 AATCTCAATCATAAAT
1 AATCTCAATC-TAAAT
11495167 AACATAAACA
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
17 10 0.07
18 136 0.93
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.33
Consensus pattern (18 bp):
AATCTCAATCTAAATCTA
Found at i:11495176 original size:6 final size:6
Alignment explanation
Indices: 11495167--11495998 Score: 1210
Period size: 6 Copynumber: 144.2 Consensus size: 6
11495157 AATCATAAAT
11495167 AACATA AACATAAA AACATAA AACATA AACATAAA AACATA AACATA AACATA
1 AACATA AACAT--A AACAT-A AACATA AACAT--A AACATA AACATA AACATA
* *
11495220 AACAT- AACATA AACATA AACATA AATAAA CAACAT- AACATA AACATA
1 AACATA AACATA AACATA AACATA AACATA -AACATA AACATA AACATA
11495267 AACATA AACATA AACATA AACAT- AACATA AACAT- AACATA AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495313 AACATA AACATA AACAT- AACATA AACATA AACA-A AACAT- AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
*
11495358 AACATA AAC-TA AACAT- AACATA AACATA AA-AAA AACAT- AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
*
11495402 AACATA AACATA AACCTA AACAT- AACATA AACAT- AA-ATA AACA-A
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495446 AACATA AACATA AACAT- AACATA AACATA AACATA AAC--A AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
*
11495491 AACA-A AACAT- -ACA-A AACATAA AACAAA AACAT- AAC--A AACATA
1 AACATA AACATA AACATA AACAT-A AACATA AACATA AACATA AACATA
11495533 AACATA AACAT- AACATA AACATA AACATA AAC-TA AACATA AAC-TA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495578 AACATA AACATA AACATA AA-ACTA AACATA AACAT- AAC-TA AACATA
1 AACATA AACATA AACATA AACA-TA AACATA AACATA AACATA AACATA
11495624 AACATAA AACATA AACATA AACAT- AACAT- AA-ATA AACATA AACATA
1 AACAT-A AACATA AACATA AACATA AACATA AACATA AACATA AACATA
*
11495670 AACAT- AACA-A AACCTA AACATA AACATA AAC--A AACATA AACAT-
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495713 AACATA AACATA AACATA AACAT- AACATA AACATA AACATA AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495760 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495808 AACATA AACATA AACATA AACATA AACAT- AACATA AACATA AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495855 AACATA AAC--A AACATA AACATA AACATAA AACATA AACATA AACATA
1 AACATA AACATA AACATA AACATA AACAT-A AACATA AACATA AACATA
11495902 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
*
11495950 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AATATA
1 AACATA AACATA AACATA AACATA AACATA AACATA AACATA AACATA
11495998 A
1 A
11495999 TAATAATAAT
Statistics
Matches: 762, Mismatches: 13, Indels: 102
0.87 0.01 0.12
Matches are distributed among these distances:
4 23 0.03
5 137 0.18
6 562 0.74
7 28 0.04
8 12 0.02
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.16
Consensus pattern (6 bp):
AACATA
Found at i:11495185 original size:8 final size:8
Alignment explanation
Indices: 11495160--11495209 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
11495150 TAATCTCAAT
11495160 CATAAATAA
1 CATAAA-AA
11495169 CAT--AAA
1 CATAAAAA
11495175 CATAAAAA
1 CATAAAAA
11495183 CAT-AAAA
1 CATAAAAA
11495190 CAT--AAA
1 CATAAAAA
11495196 CATAAAAA
1 CATAAAAA
11495204 CATAAA
1 CATAAA
11495210 CATAAACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 11 0.30
7 8 0.22
8 15 0.41
9 3 0.08
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (8 bp):
CATAAAAA
Found at i:11496546 original size:135 final size:135
Alignment explanation
Indices: 11496161--11496802 Score: 856
Period size: 135 Copynumber: 4.8 Consensus size: 135
11496151 CACTGTTCAC
* *
11496161 TAGGGGAGATCAGACTCGAG--AAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGGTTGAATCG
1 TAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCG
* * * * *
11496224 GA-TTCGATTTGCTTCACTACTCTTCAAGAAGACCAAATATGAAAGAAGAAGAATCTGCTCCACT
66 AACTT-GATTTGCTTCGCTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCGCT
11496288 ACTCTT
130 ACTCTT
* * * ** *
11496294 TAGGGGAGACCAGACTCGAGAAAAA-TGTGATCCACTTCATTATTCTTCGGGGAAGATTGAATCA
1 TAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATC-
* * * *
11496358 GAA-TGGATTTTCTTCAG-TGCTTTTTAAGATA-ACCAAATCTGAAAGAAGAAGAATCTGCTCCG
65 GAACTTGATTTGCTTC-GCTGCTCTTCAAGA-AGACCAAATCTGAAAGAAGAAGAATCTGCTCCG
11496420 CTACTCTT
128 CTACTCTT
* *
11496428 TAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACCTCACTGCTCTTCAGGGAAGATTGAATCA
1 TAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCG
* * * *
11496493 AACTTGATTTGCTTCGCTGCTCTTCAGGAATACCAAATTTGAAAGAAGAAGAATATGCTCCGCTA
66 AACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCGCTA
11496558 CTCTT
131 CTCTT
* * * * * *
11496563 TAAGGGAGATTAAACTGGAGAAAAATTTCGATCCACTTCACTGCTCTTCAGGGAAGATTGAATTG
1 TAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCG
* * * *
11496628 AACTTGATTTGTTTCACTGCTATTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCGCTA
66 AACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCGCTA
11496693 CTCTT
131 CTCTT
11496698 TAGGGGAGATCTA-ACTC---AAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATC
1 TAGGGGAGATC-AGACTCGAGAAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATC
*
11496759 GAACTTGATTTGCTTCGCTGCTCTTCATGAAGACCAAATCTGAA
65 GAACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATCTGAA
11496803 GGTTTGGAAT
Statistics
Matches: 444, Mismatches: 55, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
132 82 0.18
133 19 0.04
134 114 0.26
135 228 0.51
136 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (135 bp):
TAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCG
AACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCGCTA
CTCTT
Found at i:11500361 original size:13 final size:13
Alignment explanation
Indices: 11500343--11500367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11500333 AGATTCACAT
11500343 CATTATATAATTC
1 CATTATATAATTC
11500356 CATTATATAATT
1 CATTATATAATT
11500368 TAACATAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
CATTATATAATTC
Found at i:11500804 original size:19 final size:22
Alignment explanation
Indices: 11500756--11500806 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 22
11500746 TCTTACTATA
*
11500756 GTACCGATACTACCCTCTTATG
1 GTACCGATACTACCCTCATATG
*
11500778 GTATCGATA-TACCC-CATA-G
1 GTACCGATACTACCCTCATATG
11500797 GTACCGATAC
1 GTACCGATAC
11500807 CATTTTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 3 0.12
21 5 0.20
22 8 0.32
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (22 bp):
GTACCGATACTACCCTCATATG
Found at i:11514221 original size:3 final size:3
Alignment explanation
Indices: 11514185--11514252 Score: 94
Period size: 3 Copynumber: 24.7 Consensus size: 3
11514175 GGGCTTGCAA
11514185 AAT AA- AAT -AT AAT -AT AAT -AT AAT -AT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11514227 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11514253 GGTTCCAGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
2 12 0.20
3 47 0.80
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:11517381 original size:115 final size:117
Alignment explanation
Indices: 11517121--11517387 Score: 351
Period size: 119 Copynumber: 2.3 Consensus size: 117
11517111 AATAACAATA
* * * ** *
11517121 TTGATCCACC-TCATTCTGTGATGGATTTGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
1 TTGATCCACCTTC-TTCTGTGATGGATTTGAGTAAAAGCTCAAACAAGCCCTTATCATTATGAAC
* *
11517185 TTATTCTCCTTCTTCGGACGAATTCTTCTCATTATGAACCCCTCCATTGGAAATG
65 -T-TTCTCCCTCTTCAGACGAATTCTTCTCATTATGAACCCCTCCATTGGAAATG
* * *
11517240 TTGATCCACCTCCTTCTGTGATGGATTTGAGTAAAAGCTCAAACAAGCCCTTATTATTTTGAAC-
1 TTGATCCACCTTCTTCTGTGATGGATTTGAGTAAAAGCTCAAACAAGCCCTTATCATTATGAACT
* * * *
11517304 TTCTCCCTCTTCAGATGCATTCTTCTCATTATGAA-CTCTTCATTGGAAATG
66 TTCTCCCTCTTCAGACGAATTCTTCTCATTATGAACCCCTCCATTGGAAATG
11517355 TTGATCCACCTTCTTCTGTGATGGATTTGAGTA
1 TTGATCCACCTTCTTCTGTGATGGATTTGAGTA
11517388 TGTAAAAAGG
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
115 46 0.35
116 31 0.24
119 53 0.40
120 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (117 bp):
TTGATCCACCTTCTTCTGTGATGGATTTGAGTAAAAGCTCAAACAAGCCCTTATCATTATGAACT
TTCTCCCTCTTCAGACGAATTCTTCTCATTATGAACCCCTCCATTGGAAATG
Found at i:11521809 original size:3 final size:3
Alignment explanation
Indices: 11521797--11521837 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
11521787 TGTAAATATC
*
11521797 ATA A-A ATA ATA ATA ATA ATA ATA ATA AT- ATA TTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11521838 CTTTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11526979 original size:24 final size:24
Alignment explanation
Indices: 11526950--11526999 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11526940 CGGTGGTTGA
*
11526950 TTTAATGG-ATGTTTAAGCTTTATT
1 TTTAATGGTATATTTAAG-TTTATT
11526974 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAAGTTTATT
11526998 TT
1 TT
11527000 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGTATATTTAAGTTTATT
Found at i:11530271 original size:23 final size:23
Alignment explanation
Indices: 11530245--11530288 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11530235 TTGTCATGAG
* *
11530245 TGTTTTGTTTGTTTATTTTTATT
1 TGTTTTATTTCTTTATTTTTATT
11530268 TGTTTTATTTCTTTATTTTTA
1 TGTTTTATTTCTTTATTTTTA
11530289 ATTTTACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.77
Consensus pattern (23 bp):
TGTTTTATTTCTTTATTTTTATT
Found at i:11530299 original size:23 final size:24
Alignment explanation
Indices: 11530256--11530311 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
11530246 GTTTTGTTTG
** *
11530256 TTTATTTTT-ATTTGTTTTATTTC
1 TTTATTTTTAATTTGTACTATTAC
11530279 TTTATTTTTAATTT-TACTATTAC
1 TTTATTTTTAATTTGTACTATTAC
*
11530302 TTTTTTTTTA
1 TTTATTTTTA
11530312 GGAAAAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTATTTTTAATTTGTACTATTAC
Found at i:11536744 original size:37 final size:38
Alignment explanation
Indices: 11536678--11536762 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 38
11536668 GAAATAATTT
* * * *
11536678 TAAAGTTTGTGTTTCAAGAGAAATTATCTCATGCGAGA
1 TAAAATTTGTGTTTCAAGACAAATAATCTCAAGCGAGA
*
11536716 TAAAATTT-TGTTTCAAGACAAATAATCTCAAGTGAGA
1 TAAAATTTGTGTTTCAAGACAAATAATCTCAAGCGAGA
11536753 TGAAAATTTG
1 T-AAAATTTG
11536763 AATGAAATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 26 0.65
38 14 0.35
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (38 bp):
TAAAATTTGTGTTTCAAGACAAATAATCTCAAGCGAGA
Found at i:11538794 original size:5 final size:5
Alignment explanation
Indices: 11538784--11538808 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11538774 TTGAGACCCC
11538784 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
11538809 TCTCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:11538811 original size:6 final size:6
Alignment explanation
Indices: 11538785--11538881 Score: 53
Period size: 6 Copynumber: 16.7 Consensus size: 6
11538775 TGAGACCCCC
* * * * *
11538785 TTTTC- TTTTC- TTTTC- TTTTCT TTTTCT CTCTCT CTCTCT TTTCACT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT-TCT
* * *
11538831 TTTCACT TTTT-T TTATT-T TTTTCT TTCT-T TTTTCT TTTTCG TTTTCT
1 TTT-TCT TTTTCT TT-TTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
11538878 TTTT
1 TTTT
11538882 TATGTTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
5 24 0.31
6 41 0.53
7 12 0.16
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:11538861 original size:19 final size:18
Alignment explanation
Indices: 11538839--11538891 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
11538829 CTTTTCACTT
11538839 TTTTTTATTTTTTTCTTTC
1 TTTTTTATTTTTTT-TTTC
* *
11538858 TTTTTTCTTTTTCGTTTTC
1 TTTTTTATTTTT-TTTTTC
11538877 TTTTTTATGTTTTTT
1 TTTTTTAT-TTTTTT
11538892 ATGTTTTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTTTTTTTC
Found at i:11544512 original size:30 final size:30
Alignment explanation
Indices: 11544486--11544565 Score: 133
Period size: 30 Copynumber: 2.6 Consensus size: 30
11544476 TCATTGTTAA
11544486 TTGATTATTAGTTGAAATTCAAATTGTGTT
1 TTGATTATTAGTTGAAATTCAAATTGTGTT
*
11544516 TTGATTATTAGTTGAAATTCAAGTTGTGTT
1 TTGATTATTAGTTGAAATTCAAATTGTGTT
*
11544546 TTGATTATTAGGTGATAATT
1 TTGATTATTAGTTGA-AATT
11544566 AAGCTTAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.50
Consensus pattern (30 bp):
TTGATTATTAGTTGAAATTCAAATTGTGTT
Found at i:11545178 original size:22 final size:22
Alignment explanation
Indices: 11545138--11545211 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
11545128 TCATAGGTTA
*
11545138 TTCGGGACA-ACTCATAGGTCC
1 TTCGGGACATACTCACAGGTCC
11545159 TTCGGGACATACTCACAGGTCC
1 TTCGGGACATACTCACAGGTCC
* *
11545181 TTCGGGATATACTCACAGGTCA
1 TTCGGGACATACTCACAGGTCC
11545203 TTCGGGACA
1 TTCGGGACA
11545212 AATTTCATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
21 9 0.19
22 39 0.81
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
TTCGGGACATACTCACAGGTCC
Found at i:11552028 original size:21 final size:21
Alignment explanation
Indices: 11552002--11552064 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
11551992 GTCGAGGGCT
*
11552002 TCATAGGTCCTCCAGGACAAC
1 TCATAGGTCCTTCAGGACAAC
* *
11552023 TCATAGGTCTTTCGGGACATAC
1 TCATAGGTCCTTCAGGACA-AC
* *
11552045 TCACAGCTCCTTCAGGACAA
1 TCATAGGTCCTTCAGGACAA
11552065 ATTTCATATG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCAGGACAAC
Found at i:11552062 original size:22 final size:21
Alignment explanation
Indices: 11552009--11552064 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
11551999 GCTTCATAGG
* * *
11552009 TCCTCCAGGACAACTCATAGG
1 TCCTTCAGGACAACTCACAGC
* *
11552030 TCTTTCGGGACATACTCACAGC
1 TCCTTCAGGACA-ACTCACAGC
11552052 TCCTTCAGGACAA
1 TCCTTCAGGACAA
11552065 ATTTCATATG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (21 bp):
TCCTTCAGGACAACTCACAGC
Found at i:11553251 original size:21 final size:22
Alignment explanation
Indices: 11553225--11553282 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
11553215 CAGTGTTTAA
*
11553225 GTGCATGGATGCACTGCA-GGG
1 GTGCATGGATGCACTACAGGGG
11553246 GTGCATGGATGCACTACAGGGG
1 GTGCATGGATGCACTACAGGGG
*
11553268 GTGGATGGATGCACT
1 GTGCATGGATGCACT
11553283 TTGACACTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.21, C:0.17, G:0.41, T:0.21
Consensus pattern (22 bp):
GTGCATGGATGCACTACAGGGG
Found at i:11553613 original size:20 final size:20
Alignment explanation
Indices: 11553584--11553627 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
11553574 AAGCTCCCCC
11553584 TTTTTCATTAAGAAATTGAA
1 TTTTTCATTAAGAAATTGAA
*
11553604 TTTTTTATTAAGAAATTGAA
1 TTTTTCATTAAGAAATTGAA
11553624 TTTT
1 TTTT
11553628 CCAAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTTTCATTAAGAAATTGAA
Found at i:11554720 original size:18 final size:18
Alignment explanation
Indices: 11554697--11554735 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
11554687 TCATTTTGAT
*
11554697 TTTCAAAATCAAATTTTC
1 TTTCAAAATCAAATTATC
11554715 TTTCAAAATCAAATTATC
1 TTTCAAAATCAAATTATC
11554733 TTT
1 TTT
11554736 AATTTTGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTCAAAATCAAATTATC
Found at i:11556946 original size:21 final size:21
Alignment explanation
Indices: 11556922--11556961 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11556912 ATATTTAATG
11556922 AAAAAGATA-CTAATTGTTAAC
1 AAAAAGATATC-AATTGTTAAC
*
11556943 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
11556962 CCAATTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:11557027 original size:19 final size:20
Alignment explanation
Indices: 11556999--11557044 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
11556989 TAAGCTCCCC
11556999 TTTTTCATTAAGAAATTG-A
1 TTTTTCATTAAGAAATTGAA
* *
11557018 TTTTTTATTAATAAATTGAA
1 TTTTTCATTAAGAAATTGAA
11557038 TTTTTCA
1 TTTTTCA
11557045 AACCAAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTTCATTAAGAAATTGAA
Found at i:11560169 original size:21 final size:21
Alignment explanation
Indices: 11560098--11560218 Score: 138
Period size: 21 Copynumber: 5.7 Consensus size: 21
11560088 CGGTGTTTGA
*
11560098 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
* * *
11560118 GTGCATCGATACACTAG-TGGCAG
1 GTGCATGGATGCACT-GCAGG--G
* *
11560141 GTACATGGATGCACTACAGGG
1 GTGCATGGATGCACTGCAGGG
*
11560162 GTGCATGGATGCACTGCAAGG
1 GTGCATGGATGCACTGCAGGG
11560183 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
11560204 GTGCATGGATGCACT
1 GTGCATGGATGCACT
11560219 TTGACACTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.16
21 55 0.66
23 15 0.18
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:11561472 original size:2 final size:2
Alignment explanation
Indices: 11561465--11561495 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11561455 ACAAAAATAA
11561465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11561496 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11561500 original size:2 final size:2
Alignment explanation
Indices: 11561495--11561522 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11561485 ATATATATAT
11561495 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11561523 GCCTTGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11562731 original size:16 final size:16
Alignment explanation
Indices: 11562704--11562755 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 16
11562694 AAAAGACAAC
11562704 ATTCCC-AGTAATCTT
1 ATTCCCTAGTAATCTT
11562719 ATTCCCTAGTAATCTT
1 ATTCCCTAGTAATCTT
11562735 ACATTCTCACTAGTAATCTT
1 --ATTC-C-CTAGTAATCTT
11562755 A
1 A
11562756 CATTCCGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.19
16 9 0.28
18 5 0.16
19 1 0.03
20 11 0.34
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTCCCTAGTAATCTT
Found at i:11573037 original size:225 final size:224
Alignment explanation
Indices: 11572647--11573092 Score: 640
Period size: 225 Copynumber: 2.0 Consensus size: 224
11572637 GATGAAGAAG
* *
11572647 AAGAAGAAGGGTTAACGAAGTTAACGTGCCACATCAGATAAAATTAACTGGAGGTAATGTCAGGG
1 AAGAAGAAGGGTTAACGAAGTTAACGTGCAACATCAAATAAAATTAACTGGAGGTAATGTCAGGG
* ** * *
11572712 ACTTTACTGAAAATGGACTAAAAGTTCAATGATTGTATTGTAAGTTTAAAAAGTTGGGTGACCAA
66 ACCTTACTGAAAAACGACTAAAAATTCAATGATTGTATTGTAAGTTTAAAAAGTTGGGTAACCAA
* * * *
11572777 AATGCAAGCTCTCTAAAAGTTTAGGGGCTATTTATATACTTTACCCTAAAAATTATATTAATTAA
131 AATGCAAGCGCCCTAAAAGTTTAAGGACTATTTATATACTTTACCCTAAAAATTATATTAATTAA
11572842 AATTAATAGTATAATGAAATTTTAGTGAA
196 AATTAATAGTATAATGAAATTTTAGTGAA
* * * * * *
11572871 AAGAAGAAGGGTTAATGGAGTTAACGTGCAACGTCAAATAAAATTAATTGGATGTAATGTTAGGG
1 AAGAAGAAGGGTTAACGAAGTTAACGTGCAACATCAAATAAAATTAACTGGAGGTAATGTCAGGG
* * * *
11572936 ACCTTAGTGAAAAACGACCTAAAAATTTAATGATTGTATTGTAAGTTTTAAAAGTTGGGTAACTA
66 ACCTTACTGAAAAACGA-CTAAAAATTCAATGATTGTATTGTAAGTTTAAAAAGTTGGGTAACCA
* * * * *
11573001 AAATGTAAGCGCCCTTAAAGTTTAATGACTATTTATATACTTTACCCTAAAATTTATTTTAATTA
130 AAATGCAAGCGCCCTAAAAGTTTAAGGACTATTTATATACTTTACCCTAAAAATTATATTAATTA
*
11573066 AAATTAATAGTATACTGAAATTTTAGT
195 AAATTAATAGTATAATGAAATTTTAGT
11573093 TACAATTAAA
Statistics
Matches: 194, Mismatches: 27, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
224 70 0.36
225 124 0.64
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (224 bp):
AAGAAGAAGGGTTAACGAAGTTAACGTGCAACATCAAATAAAATTAACTGGAGGTAATGTCAGGG
ACCTTACTGAAAAACGACTAAAAATTCAATGATTGTATTGTAAGTTTAAAAAGTTGGGTAACCAA
AATGCAAGCGCCCTAAAAGTTTAAGGACTATTTATATACTTTACCCTAAAAATTATATTAATTAA
AATTAATAGTATAATGAAATTTTAGTGAA
Found at i:11574421 original size:43 final size:43
Alignment explanation
Indices: 11574286--11574512 Score: 150
Period size: 43 Copynumber: 5.3 Consensus size: 43
11574276 TTGTCAACCA
* *
11574286 AAAAACGCCGCAATAGGT-ATTGATATTTAGCGGCGTTTAGCATT-
1 AAAAACGCCGCAATA-GTCGTTGATATTTAGCGGCGTTT-TC-TTC
* * **
11574330 -AAAACGCCGCAATAGGT-GTTGATATTTAACGGC-ATTT-GGC
1 AAAAACGCCGCAATA-GTCGTTGATATTTAGCGGCGTTTTCTTC
* *
11574370 AGACAAACGCCGTAATAGTCGTTGATGTTTAGCGGCGTTTTCTTC
1 A-A-AAACGCCGCAATAGTCGTTGATATTTAGCGGCGTTTTCTTC
* * * * *
11574415 AAAAACGCCGCAGTAGAT-GTTTATTTTTACCGGCGTTTTCCT-
1 AAAAACGCCGCAATAG-TCGTTGATATTTAGCGGCGTTTTCTTC
* *
11574457 ACAAACGCCGCAGAATATGTC-TTGATATTTTGCGGCGTTTT-TATC
1 AAAAACGCCGC--AATA-GTCGTTGATATTTAGCGGCGTTTTCT-TC
11574502 AAAAACGCCGC
1 AAAAACGCCGC
11574513 TAAATGTATG
Statistics
Matches: 143, Mismatches: 26, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
42 15 0.10
43 89 0.62
44 26 0.18
45 13 0.09
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
AAAAACGCCGCAATAGTCGTTGATATTTAGCGGCGTTTTCTTC
Found at i:11574855 original size:23 final size:21
Alignment explanation
Indices: 11574809--11574870 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
11574799 ATATATTACT
* *
11574809 TCTCTCTGTTCTGTCGTTGCC
1 TCTCTCTGTGCTGTCGCTGCC
*
11574830 TCTCTCTGTGCTGTCGCTGCT
1 TCTCTCTGTGCTGTCGCTGCC
*
11574851 TCTCTCTCTGCT-TCCGCTGC
1 TCTCTCTGTGCTGT-CGCTGC
11574871 TGCTCTAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.00, C:0.37, G:0.19, T:0.44
Consensus pattern (21 bp):
TCTCTCTGTGCTGTCGCTGCC
Found at i:11574871 original size:21 final size:21
Alignment explanation
Indices: 11574830--11574915 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
11574820 TGTCGTTGCC
*
11574830 TCTCTCTGTGCTGT-CGCTGCT
1 TCTCTCTCTGCT-TCCGCTGCT
11574851 TCTCTCTCTGCTTCCGCTGCT
1 TCTCTCTCTGCTTCCGCTGCT
* ** * *
11574872 GCTCTAGCTACTTCTGCTGCT
1 TCTCTCTCTGCTTCCGCTGCT
* *
11574893 GCTCTCTCTGTTTCC-CTTGCT
1 TCTCTCTCTGCTTCCGC-TGCT
11574914 TC
1 TC
11574916 ATTTTCCGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.04
21 49 0.96
ACGTcount: A:0.02, C:0.37, G:0.17, T:0.43
Consensus pattern (21 bp):
TCTCTCTCTGCTTCCGCTGCT
Found at i:11582193 original size:12 final size:12
Alignment explanation
Indices: 11582176--11582201 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11582166 TAAGTTTTAG
11582176 TGGGTGATGAAA
1 TGGGTGATGAAA
11582188 TGGGTGATGAAA
1 TGGGTGATGAAA
11582200 TG
1 TG
11582202 ATGAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.27
Consensus pattern (12 bp):
TGGGTGATGAAA
Found at i:11583385 original size:42 final size:39
Alignment explanation
Indices: 11583316--11583431 Score: 97
Period size: 42 Copynumber: 2.8 Consensus size: 39
11583306 TTAAAGGATA
**
11583316 ATTACGGCGTTTATATTAAAAACGCCACAAAGGAACTATTCT
1 ATTACGGCG-TT-TATTAAAAACGCCACAAAGGAAC-ACACT
* * *
11583358 ATTACGGCGTTTATTACGAAAATGCCACTAAGGGACACACT
1 ATTACGGCGTTTATTA--AAAACGCCACAAAGGAACACACT
* *
11583399 ATTGCGGCGTTTATGTCACAAACGCCACTAAAG
1 ATTACGGCGTTTAT-T-AAAAACGCCAC-AAAG
11583432 TACAACTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
40 5 0.08
41 26 0.43
42 28 0.47
43 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (39 bp):
ATTACGGCGTTTATTAAAAACGCCACAAAGGAACACACT
Found at i:11583426 original size:41 final size:40
Alignment explanation
Indices: 11583316--11583429 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 40
11583306 TTAAAGGATA
* * **
11583316 ATTACGGCGTTTATATTAAAAACGCCACAAAGGAACTATTCT
1 ATTACGGCG-TT-TATTACAAACGCCACTAAGGAACTACACT
* *
11583358 ATTACGGCGTTTATTACGAAAATGCCACTAAGGGAC-ACACT
1 ATTACGGCGTTTATTAC--AAACGCCACTAAGGAACTACACT
*
11583399 ATTGCGGCGTTTATGTCACAAACGCCACTAA
1 ATTACGGCGTTTAT-T-ACAAACGCCACTAA
11583430 AGTACAACTT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
40 5 0.08
41 29 0.48
42 24 0.40
43 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (40 bp):
ATTACGGCGTTTATTACAAACGCCACTAAGGAACTACACT
Found at i:11583485 original size:42 final size:41
Alignment explanation
Indices: 11583418--11583507 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
11583408 TTTATGTCAC
*
11583418 AAACGCCACTAAAGTACAACTTTTTAGGGGCGTTTT-TTAAA
1 AAACGCCACTAAAGTACAACTTTTTA-CGGCGTTTTCTTAAA
* *
11583459 AAACGCCACTAAA-TTCAAAGTATTTTACGGCGTTTTCTTAAA
1 AAACGCCACTAAAGTAC-AACT-TTTTACGGCGTTTTCTTAAA
*
11583501 ACACGCC
1 AAACGCC
11583508 GTTATAAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.05
41 24 0.57
42 16 0.38
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAACTTTTTACGGCGTTTTCTTAAA
Found at i:11583873 original size:41 final size:41
Alignment explanation
Indices: 11583827--11583916 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
11583817 TAACATTTTG
* *
11583827 CGGCGTTTATACAAAAAACGCCACTATTGA-TCACACTATTG
1 CGGCGTTTAT-CAAAAAACGCCACTATTGATTAACACTATTA
* * *
11583868 TGGCGTTTGTTAAAAAACGCCACTATTGATTAACACTATTA
1 CGGCGTTTATCAAAAAACGCCACTATTGATTAACACTATTA
11583909 CGGCGTTT
1 CGGCGTTT
11583917 GTGGTATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 18 0.43
41 24 0.57
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
CGGCGTTTATCAAAAAACGCCACTATTGATTAACACTATTA
Found at i:11583890 original size:40 final size:41
Alignment explanation
Indices: 11583839--11583918 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
11583829 GCGTTTATAC
* **
11583839 AAAAAACGCCACTATTGA-TCACACTATTGTGGCGTTTGTT
1 AAAAAACGCCACTATTGATTAACACTATTACGGCGTTTGTT
11583879 AAAAAACGCCACTATTGATTAACACTATTACGGCGTTTGT
1 AAAAAACGCCACTATTGATTAACACTATTACGGCGTTTGT
11583919 GGTATAAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 18 0.50
41 18 0.50
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (41 bp):
AAAAAACGCCACTATTGATTAACACTATTACGGCGTTTGTT
Found at i:11587693 original size:19 final size:19
Alignment explanation
Indices: 11587669--11587711 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11587659 TAATTTTGAA
*
11587669 AATTAAAAT-TTGATAAGAT
1 AATTAAAATATAGATAA-AT
*
11587688 AATTAATATATAGATAAAT
1 AATTAAAATATAGATAAAT
11587707 AATTA
1 AATTA
11587712 TTATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
AATTAAAATATAGATAAAT
Found at i:11602710 original size:24 final size:24
Alignment explanation
Indices: 11602683--11602732 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11602673 TGGTGGTTGA
* *
11602683 TTTAATGGT-TGTTTGAGCTTTATT
1 TTTAATGGTGTATTTAAG-TTTATT
11602707 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTTAAGTTTATT
11602731 TT
1 TT
11602733 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTTAAGTTTATT
Found at i:11603229 original size:16 final size:16
Alignment explanation
Indices: 11603208--11603238 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11603198 ACGTGAGGAT
11603208 TATTTTCTTTTCATTC
1 TATTTTCTTTTCATTC
11603224 TATTTTCTTTTCATT
1 TATTTTCTTTTCATT
11603239 TACTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTCTTTTCATTC
Found at i:11613943 original size:181 final size:182
Alignment explanation
Indices: 11613586--11614063 Score: 665
Period size: 182 Copynumber: 2.6 Consensus size: 182
11613576 GATATAAATA
** * * * ** *
11613586 AAAAATGTATCGAT-TCATAGTAATATAACAGGTAAAAATATGACAAAATCGGTTTTATTATGAT
1 AAAAATGTATCGATCT-ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGAC
* * * * * * *
11613650 AAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTAGATTGAA-ATAAGTATCGATAT
65 AAAACCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGA-TACATT-AATATAAATATCAAAAC
* *
11613714 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
128 TTTTAGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
11613769 AAAAATGTATCGATCTATAACAATATAACAAGTAAAAATAT-ATAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
11613833 AAACCGATAAAGCGCTATCGGATATGTTGAAAGTGTCGATACATTAATATAAATATCAAAACTTT
66 AAACCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACATTAATATAAATATCAAAACTTT
*
11613898 TAGAATTTAAAAGAGAAACAGTAATAGCGCTTATAAAGTGTCGATACTTTAT
131 TAGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
** * * *
11613950 AAAAATGTATTAATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAAATGACA
1 AAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
11614015 AAACCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACATTAATA
11614064 AGTACGCGTA
Statistics
Matches: 262, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
180 2 0.01
181 104 0.40
182 119 0.45
183 36 0.14
184 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
AAACCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACATTAATATAAATATCAAAACTTT
TAGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:11616371 original size:15 final size:15
Alignment explanation
Indices: 11616351--11616381 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11616341 GATGGTAGTA
11616351 GGGGATGACAGTGAG
1 GGGGATGACAGTGAG
*
11616366 GGGGATGACGGTGAG
1 GGGGATGACAGTGAG
11616381 G
1 G
11616382 AAAACAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.58, T:0.13
Consensus pattern (15 bp):
GGGGATGACAGTGAG
Found at i:11628679 original size:13 final size:13
Alignment explanation
Indices: 11628661--11628685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11628651 ACTATGTCAC
11628661 ATTGATTATGAAT
1 ATTGATTATGAAT
11628674 ATTGATTATGAA
1 ATTGATTATGAA
11628686 ACTAATAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:11630511 original size:198 final size:199
Alignment explanation
Indices: 11629954--11630772 Score: 1080
Period size: 199 Copynumber: 4.1 Consensus size: 199
11629944 TTAACTTAAC
* ** ** *
11629954 ATAGGTTTACATAATGTATCGACAC-TTTTTAAATTTGTGTCGATACTTTTTGTCCATAATGAAT
1 ATAGGTCTACATAATGTATCGACACAAATTTAAA-AAGTGTCGATACTTTTTGTCCAGAATGAAT
* * *
11630018 GACAAACTGGGTGCATACATAAAGTGTCGATACATTTATTAAA-AGTATC-AACCCTAAAAACAT
65 GACAAACTAGGTGCACACATAAAGTGTCGATACATTTA--AAATAGTATCGATCCC-AAAAACAT
* * * *
11630081 CAAAATCGATAATTACAATGTAGTAGGTAAATTTACAATGTAACCGGTAGAAATATATCGATTTT
127 CAAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTT
11630146 ATGAGAAA
192 ATGAGAAA
* * * * *
11630154 ATAGGTCCACATAAAGTATTGACACAAATTTAAAAAGTGTCGATACTTTTTGTACATAATGAATG
1 ATAGGTCTACATAATGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATG
* * * * *
11630219 AGAAACTAGGTGTACGCATAAAGTGTTGATACATTTAAAATTGTATCGATCCCAAAAACATCAAA
66 ACAAACTAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCAAA
* * * * *
11630284 ATCGATAATTATAATATAATAGATAAATTTACAATGTAATCGGTATAAATATACC-AGTTTTATG
131 ACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGA-TTTTATG
11630348 AGAAA
195 AGAAA
11630353 ATAGGTCTACATAATGTATCGACACAAATTT-AAAAGTGTCGATACTTTTTGTCCAGAATGAATG
1 ATAGGTCTACATAATGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATG
*
11630417 A-TAACTAGGTGCACACATAAAGTGTCGATACATTTATTAAA-AGTATCGA-CCCTAAAAACATC
66 ACAAACTAGGTGCACACATAAAGTGTCGATACATTTA--AAATAGTATCGATCCC-AAAAACATC
* ** * *
11630479 AAAACCGATAATTACAATGTAATAGGTAAATTTACAATATAATTGGTA-GAATATACCGGTTTTA
128 AAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTA
11630543 TGAGAAA
193 TGAGAAA
* *
11630550 ATATGTCTACATAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATG
1 ATAGGTCTACATAATGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATG
** * * *
11630615 ACAAACTAGGTGCATGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACTTCGAA
66 ACAAACTAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCAAA
* * ** *
11630680 ACTGATAATTACAATGTAATATGTAAATTTACAATGTAACCAATATAAATATACTGATTTTATGA
131 ACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGA
11630745 GAAA
196 GAAA
*
11630749 ATAGGTCTACATAATGTATTGACA
1 ATAGGTCTACATAATGTATCGACA
11630773 ATTTTTAAAT
Statistics
Matches: 543, Mismatches: 63, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
197 86 0.16
198 183 0.34
199 184 0.34
200 84 0.15
201 6 0.01
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (199 bp):
ATAGGTCTACATAATGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATG
ACAAACTAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCAAA
ACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGA
GAAA
Found at i:11630767 original size:396 final size:398
Alignment explanation
Indices: 11629954--11630799 Score: 1247
Period size: 396 Copynumber: 2.1 Consensus size: 398
11629944 TTAACTTAAC
* ** * *
11629954 ATAGGTTTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATG
1 ATAGGTCTACATAATGTATCGACACAATTTAAA-TAGTGTCGATACTTTTTGTCCAGAATGAATG
* *
11630019 ACAAACTGGGTGCATACATAAAGTGTCGATACATTTATTAAAAGTATCAACCCTAAAAACATCAA
65 ACAAACTAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCAACCCTAAAAACATCAA
* * * *
11630084 AATCGATAATTACAATGTAGTAGGTAAATTTACAATGTAACCGGTAGAAATATATCGATTTTATG
130 AACCGATAATTACAATGTAATAGGTAAATTTACAATATAACCGGTAGAAATATACCGATTTTATG
* *
11630149 AGAAAATAGGTCCACATAAAGTATTGACACAAATTTAAAAAGTGTCGATACTTTTTGTACATAAT
195 AGAAAATAGGTCCACATAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTACAGAAT
* * *
11630214 GAATGAGAAACTAGGTGTACGCATAAAGTGTTGATACATTTAAAATTGTATCGATCCCAAAAACA
260 GAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACA
* * **
11630279 TCAAAATCGATAATTATAATATAATAGATAAATTTACAATGTAATCGGTATAAATATACCAGTTT
325 TCAAAATCGATAATTACAATATAATAGATAAATTTACAATGTAACCAATATAAATATACCAGTTT
11630344 TATGAGAAA
390 TATGAGAAA
11630353 ATAGGTCTACATAATGTATCGACACAAATTTAAA-AGTGTCGATACTTTTTGTCCAGAATGAATG
1 ATAGGTCTACATAATGTATCGACAC-AATTTAAATAGTGTCGATACTTTTTGTCCAGAATGAATG
* *
11630417 A-TAACTAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGACCCTAAAAACATCAA
65 ACAAACTAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCAACCCTAAAAACATCAA
** *
11630481 AACCGATAATTACAATGTAATAGGTAAATTTACAATATAATTGGTAG-AATATACCGGTTTTATG
130 AACCGATAATTACAATGTAATAGGTAAATTTACAATATAACCGGTAGAAATATACCGATTTTATG
* * *
11630545 AGAAAATATGTCTACATAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAAT
195 AGAAAATAGGTCCACATAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTACAGAAT
* *
11630610 GAATGACAAACTAGGTGCATGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACT
260 GAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACA
* * *
11630675 TCGAAA-CTGATAATTACAATGTAATATG-TAAATTTACAATGTAACCAATATAAATATA-CTGA
325 TCAAAATC-GATAATTACAATATAATA-GATAAATTTACAATGTAACCAATATAAATATACCAG-
11630737 TTTTATGAGAAA
387 TTTTATGAGAAA
* * * *
11630749 ATAGGTCTACATAATGTATTGACA-ATTTTTAAATTTGTGTTGATACTTTTT
1 ATAGGTCTACATAATGTATCGACACA-ATTTAAA-TAGTGTCGATACTTTTT
11630800 TTAATTATGT
Statistics
Matches: 403, Mismatches: 37, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
394 1 0.00
395 9 0.02
396 218 0.54
397 116 0.29
398 29 0.07
399 24 0.06
400 6 0.01
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (398 bp):
ATAGGTCTACATAATGTATCGACACAATTTAAATAGTGTCGATACTTTTTGTCCAGAATGAATGA
CAAACTAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCAACCCTAAAAACATCAAA
ACCGATAATTACAATGTAATAGGTAAATTTACAATATAACCGGTAGAAATATACCGATTTTATGA
GAAAATAGGTCCACATAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTACAGAATG
AATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACAT
CAAAATCGATAATTACAATATAATAGATAAATTTACAATGTAACCAATATAAATATACCAGTTTT
ATGAGAAA
Found at i:11633745 original size:18 final size:18
Alignment explanation
Indices: 11633724--11633760 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11633714 ATAATTGGAG
11633724 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
11633742 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
11633760 T
1 T
11633761 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:11633767 original size:24 final size:24
Alignment explanation
Indices: 11633705--11633768 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
11633695 TTTCATGTCC
*
11633705 ATTTC-ATATATAATTGGAGTTTGA
1 ATTTCAATATA-AATTTGAGTTTGA
* * *
11633729 ATTTAAATTTCAATTTGAGTTTGA
1 ATTTCAATATAAATTTGAGTTTGA
11633753 ATTTCAATATAAATTT
1 ATTTCAATATAAATTT
11633769 CGGCTTCACT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (24 bp):
ATTTCAATATAAATTTGAGTTTGA
Found at i:11635102 original size:19 final size:20
Alignment explanation
Indices: 11635054--11635103 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
11635044 TAGAATTTCT
11635054 AAATCGATTAAAATTTGAGA
1 AAATCGATTAAAATTTGAGA
*
11635074 AAA-CGGTTAAAATTT-A-A
1 AAATCGATTAAAATTTGAGA
11635091 ACAATCGATTAAA
1 A-AATCGATTAAA
11635104 TATAACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 3 0.12
19 18 0.69
20 3 0.12
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (20 bp):
AAATCGATTAAAATTTGAGA
Found at i:11635204 original size:15 final size:15
Alignment explanation
Indices: 11635184--11635213 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11635174 ATGTATCAAC
*
11635184 ACATAAATTTTCCAA
1 ACATAAAGTTTCCAA
11635199 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
11635214 CAAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (15 bp):
ACATAAAGTTTCCAA
Found at i:11635672 original size:200 final size:199
Alignment explanation
Indices: 11635324--11636280 Score: 1400
Period size: 200 Copynumber: 4.8 Consensus size: 199
11635314 GTAAACAAAT
* * *
11635324 GTGTTGATACATTTATTAAA-AGTATCGATCTCAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTA--AAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAAT
* * ** * *
11635388 AGGTAAATTTACAATGTAACCGGCAGATATATACTAGTTTAATTAGAAAATAGGTCAACATAATG
64 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATG
* *
11635453 TATCCACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAACGAGGTGCACG
129 TATCAACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACG
*
11635518 CTTAAA
194 CATAAA
* * * *
11635524 GTGTCGATACATTTATGAAA-AGTATCGATCCCAAAAACTTTGAAACCTATAATCACAATGTAAT
1 GTGTCGATACATTTA--AAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAAT
11635588 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGT-ATACATAAT
64 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCA-ACATAAT
* * *
11635652 GTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAGGAGGTGCAC
128 GTATCAACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAC
*
11635717 TCATAAA
193 GCATAAA
* *
11635724 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAAGCTATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAG
* * *
11635789 ATAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAAAAAAATAAGTCAACATAATGT
66 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATG-AGAAAATAGGTCAACATAATGT
* *
11635854 ATCAACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACAC
130 ATCAACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGC
11635919 ATAAA
195 ATAAA
**
11635924 GTGTCGATACATTTAAAATTA-TATCGATCCCAAAAACATCGAAATGTATAATTATAATGTAATA
1 GTGTCGATACATTTAAAA-TAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
* **
11635988 GGTAAATTTACAATGTAACTGGTAGAAATATACCGGTTTTTATGAGAAAATAGGTCTGCATAATG
65 GGTAAATTTACAATGTAACCGGTAGAAATATACCGG-TTTTATGAGAAAATAGGTCAACATAATG
* *
11636053 TATTAACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAACGAGGTGCACG
129 TATCAACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACG
11636118 CATAAA
194 CATAAA
* * *
11636124 GTGTCAATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAG
* * * * * *
11636189 GTAATTTTACAATGTAACCGATAGAAATATACTGGTATAATTAGAAAATAGGTCAACATAATGTA
66 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATGTA
* * *
11636254 TCGACATTTTTTAAATTTGTATCGATA
131 TCAACACTTTTTAAATTTGTGTCGATA
11636281 TTTGTTTTAA
Statistics
Matches: 687, Mismatches: 63, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
198 3 0.00
199 131 0.19
200 544 0.79
201 9 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATGTA
TCAACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCA
TAAA
Found at i:11636276 original size:21 final size:23
Alignment explanation
Indices: 11636250--11636293 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
11636240 GTCAACATAA
11636250 TGTATCGACA-TT-TTTTAAATT
1 TGTATCGACATTTGTTTTAAATT
*
11636271 TGTATCGATATTTGTTTTAAATT
1 TGTATCGACATTTGTTTTAAATT
11636294 ACACATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (23 bp):
TGTATCGACATTTGTTTTAAATT
Found at i:11638600 original size:23 final size:23
Alignment explanation
Indices: 11638574--11638624 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11638564 TAAGTAATTA
**
11638574 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
11638597 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
11638620 ACCTA
1 ACCTA
11638625 GTATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:11638632 original size:23 final size:23
Alignment explanation
Indices: 11638584--11638633 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
11638574 ACCTATTTTA
*
11638584 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAGTACG
*
11638607 TTATATAAGCGCTACCTAGTATG
1 TTATATAAGCGCTACCTAGTACG
11638630 TTAT
1 TTAT
11638634 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAGTACG
Found at i:11638650 original size:158 final size:158
Alignment explanation
Indices: 11638429--11638821 Score: 651
Period size: 158 Copynumber: 2.5 Consensus size: 158
11638419 ATTAGCTTTA
* * * * * *
11638429 ATAATGCGCAACCTATTACGTTACATAAGCTCTGCCCAATATGTTATTATGCTTGATAATGTTTC
1 ATAA-GCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTC
*
11638494 CAGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
65 CAGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCATTTACCTAATATGTTGTAATAA
11638559 CAAATTAAGTAATTAACCTATTTTATTAT
130 CAAATTAAGTAATTAACCTATTTTATTAT
*
11638588 ATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAGTATGTTATTGTGCTTGATAATGTTTCC
1 ATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCC
* * *
11638653 AGTAAATAACTGGTTATGTTATCCTTGGTAACATTTTAGGCATTTACCTAATATGTTGTAATAAC
66 AGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCATTTACCTAATATGTTGTAATAAC
11638718 AAATTAAGTAATTAACCTATTTTATTAT
131 AAATTAAGTAATTAACCTATTTTATTAT
* *
11638746 ATAAGCTCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTCC
1 ATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCC
*
11638811 AATAATTAACC
66 AGTAATTAACC
11638822 TATTTAATTA
Statistics
Matches: 217, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
158 213 0.98
159 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (158 bp):
ATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCC
AGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCATTTACCTAATATGTTGTAATAAC
AAATTAAGTAATTAACCTATTTTATTAT
Found at i:11638758 original size:23 final size:23
Alignment explanation
Indices: 11638732--11638782 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11638722 TAAGTAATTA
** *
11638732 ACCTATTTTATTATATAAGCTCT
1 ACCTATTACATTATATAAGCGCT
*
11638755 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
11638778 ACCTA
1 ACCTA
11638783 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:11638790 original size:23 final size:23
Alignment explanation
Indices: 11638742--11638791 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
11638732 ACCTATTTTA
* *
11638742 TTATATAAGCTCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
11638765 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
11638788 TTAT
1 TTAT
11638792 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:11638845 original size:23 final size:23
Alignment explanation
Indices: 11638819--11638869 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
11638809 CCAATAATTA
11638819 ACCTATTTA-ATTATATAAGCGCT
1 ACCTA-TTACATTATATAAGCGCT
11638842 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
11638865 ACCTA
1 ACCTA
11638870 ATATGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:11638872 original size:87 final size:86
Alignment explanation
Indices: 11638726--11638890 Score: 285
Period size: 87 Copynumber: 1.9 Consensus size: 86
11638716 ACAAATTAAG
* * *
11638726 TAATTAACCTATTTTATTATATAAGCTCTACCTATTACGTTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTAATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
*
11638791 TTGTGTTTGATAATGTTTCCAA
66 TTGT-CTTGATAATGTTTCCAA
11638813 TAATTAACCTATTTAATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTAATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
11638878 TTGTCTTGATAAT
66 TTGTCTTGATAAT
11638891 ATTTTTGGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 8 0.11
87 66 0.89
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (86 bp):
TAATTAACCTATTTAATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
TTGTCTTGATAATGTTTCCAA
Found at i:11639997 original size:10 final size:10
Alignment explanation
Indices: 11639982--11640030 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
11639972 CATTTAATAA
11639982 ATAAACGAAC
1 ATAAACGAAC
11639992 ATAAACGAAC
1 ATAAACGAAC
* *
11640002 ACGAACATGAAC
1 A-TAA-ACGAAC
*
11640014 ATAAACAAAC
1 ATAAACGAAC
11640024 ATAAACG
1 ATAAACG
11640031 TTGGAGACCC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 21 0.68
11 4 0.13
12 6 0.19
ACGTcount: A:0.59, C:0.20, G:0.10, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:11640796 original size:14 final size:14
Alignment explanation
Indices: 11640779--11640810 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11640769 AATAAACATA
*
11640779 AACGAACATAATCG
1 AACGAACATAACCG
11640793 AACGAACATAACCG
1 AACGAACATAACCG
11640807 AACG
1 AACG
11640811 TCCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:11641473 original size:60 final size:60
Alignment explanation
Indices: 11641367--11641498 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
11641357 TTGAGTAACC
* ** *
11641367 ATTTTGTAAC-TTTAATAGTCGAGAAACTCAACAAAGCAATGTCTTATAATAAGAGGATT
1 ATTTTGTAACTTTTAATAGTCGAGAAACTCAACAAAACAATACCTTATAATAAGAGGACT
* * * * *
11641426 ATTTTGTAACTTTTAATAGTCGATAGACTCAGCAAAACAATACCTTATAGTCAGAGGACT
1 ATTTTGTAACTTTTAATAGTCGAGAAACTCAACAAAACAATACCTTATAATAAGAGGACT
11641486 ATTTT-TATACTTT
1 ATTTTGTA-ACTTT
11641499 ACTCTTAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 12 0.19
60 50 0.81
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCGAGAAACTCAACAAAACAATACCTTATAATAAGAGGACT
Found at i:11641852 original size:19 final size:19
Alignment explanation
Indices: 11641811--11641849 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
11641801 TTTATTAAAA
11641811 TAAAAATTTTATTTTTATT
1 TAAAAATTTTATTTTTATT
11641830 TAAAATATTTT-TTTATTATT
1 TAAAA-ATTTTATTT-TTATT
11641850 AAATTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TAAAAATTTTATTTTTATT
Found at i:11642492 original size:25 final size:25
Alignment explanation
Indices: 11642416--11642480 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
11642406 CACCCAAATC
11642416 ATGGTGACATTATTGGACACTAATA
1 ATGGTGACATTATTGGACACTAATA
*
11642441 ATGGTGCCATTATTGGACACTAATA
1 ATGGTGACATTATTGGACACTAATA
*
11642466 ATGGTGTCATTATTG
1 ATGGTGACATTATTG
11642481 TTCACCAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (25 bp):
ATGGTGACATTATTGGACACTAATA
Found at i:11642854 original size:114 final size:114
Alignment explanation
Indices: 11642675--11642882 Score: 271
Period size: 114 Copynumber: 1.8 Consensus size: 114
11642665 TTATTGTTTC
*
11642675 ATTTTTTTATTTTAAATATAAATTAATTAGATAATTTATAATGAATTTGCATATTGAACTATATT
1 ATTTTTTTATTTTAAATATAAATTAATTAGATAATTTATAATGAATTTACATATTGAACTATATT
* *
11642740 TGTGTTGTTTGGTAAGTTTAATTTAAATTTTTGTGTAGTTGTTAGTGTA
66 TGAGTAGTTTGGTAAGTTTAATTTAAATTTTTGTGTAGTTGTTAGTGTA
** * * *
11642789 ATTTTTTTATTTTTAAATA-ATAATT-ATTAGACT-ATTTATTTTGATTTTACATATT-AAGTTG
1 ATTTTTTTA-TTTTAAATATA-AATTAATTAGA-TAATTTATAATGAATTTACATATTGAA-CTA
*
11642850 TATTTGAGTAGTTTGGTAAGTTTAGTTTAAATT
62 TATTTGAGTAGTTTGGTAAGTTTAATTTAAATT
11642883 ATTTTTTTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
113 2 0.02
114 65 0.80
115 14 0.17
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (114 bp):
ATTTTTTTATTTTAAATATAAATTAATTAGATAATTTATAATGAATTTACATATTGAACTATATT
TGAGTAGTTTGGTAAGTTTAATTTAAATTTTTGTGTAGTTGTTAGTGTA
Found at i:11643197 original size:100 final size:102
Alignment explanation
Indices: 11643092--11643511 Score: 311
Period size: 100 Copynumber: 4.0 Consensus size: 102
11643082 TAATTTTGGT
* *
11643092 TTTTTAATTTG-AATTAT-AATTATTAGACTATTTATTTCGATTTTACATATTAAGTTGTATTTG
1 TTTTT-ATTTGTAATTATAAATTATTAGACTATTTATTTTGATTTTACATATTAAATTGTATTTG
* *
11643155 TGTAGTTTTGTAAGTTAAGTTTAAATTATATTTTTTA-
65 AGTAGTTTGGTAAGTTAAGTTTAAATTATATTTTTTAG
* * * ***
11643192 TTTTTATTGTGTAA-TATAAATTA-GAGACTAATTATTTTTATTTTAGGGATTAAATTGTATTTG
1 TTTTTATT-TGTAATTATAAATTATTAGACTATTTATTTTGATTTTACATATTAAATTGTATTTG
* * * * *
11643255 AGTGGTTTGGTAAGTTTAGTGTAAAATATATTGTTTAGGG
65 AGTAGTTTGGTAAGTTAAGTTTAAATTATATTTTTTA--G
* * * *
11643295 TTTTTA-TTGTAAATATAAAGTAACTAGACTATTTATTTTGATTTTATATATTAAATTGTATTCT
1 TTTTTATTTGTAATTATAAA-TTATTAGACTATTTATTTTGATTTTACATATTAAATTGTATT-T
* *
11643359 -AAT-GATTTGGTAAGTTTAA-TTTATATTTTCATGAATTTTTTAG
64 GAGTAG-TTTGGTAAG-TTAAGTTTA-A-ATT-AT--ATTTTTTAG
* * * *
11643402 TATAATTTTGGTTTTTAATTTAAATTATAAATATTAGACTATTTATTTTGATTTTACATATTAAG
1 --T--TTTT-ATTTGTAA-TT--A-TA-AATTATTAGACTATTTATTTTGATTTTACATATTAAA
* * *
11643467 TTTTATTTGAGTAGTTTTGTAAGTTTAGTTTAAATTAT-TTTTTTA
56 TTGTATTTGAGTAGTTTGGTAAGTTAAGTTTAAATTATATTTTTTA
11643512 TTAAGTAATA
Statistics
Matches: 248, Mismatches: 41, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
99 3 0.01
100 72 0.29
101 12 0.05
102 7 0.03
103 9 0.04
104 46 0.19
105 5 0.02
106 1 0.00
107 3 0.01
109 8 0.03
111 11 0.04
113 5 0.02
114 3 0.01
115 2 0.01
116 6 0.02
117 52 0.21
118 3 0.01
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (102 bp):
TTTTTATTTGTAATTATAAATTATTAGACTATTTATTTTGATTTTACATATTAAATTGTATTTGA
GTAGTTTGGTAAGTTAAGTTTAAATTATATTTTTTAG
Found at i:11643622 original size:321 final size:317
Alignment explanation
Indices: 11642964--11643550 Score: 812
Period size: 321 Copynumber: 1.8 Consensus size: 317
11642954 TTGTTTAAGG
* *
11642964 TTTAGGATTTTTATTGTAAATATAAAGTAATTAGACTATTTATTTTGATTTTACATATTAAATTG
1 TTTAGGGTTTTTATTGTAAATATAAAGTAACTAGACTATTTATTTTGATTTTACATATTAAATTG
* * *
11643029 TATTCGAGTGGAAACATGTAAGTTTAATTTATATTTTCGTGTTATTTTTAGTATAATTTTGGTTT
66 TATTCGAATGG-AACATGTAAGTTTAATTTATATTTTCATGATATTTTTAGTATAATTTTGGTTT
* * *
11643094 TTTAATTTGAATTATAATTATTAGACTATTTATTTCGATTTTACATATTAAGTTGTATTTGTGTA
130 TTTAATTTAAATTATAAATATTAGACTATTTATTTCGATTTTACATATTAAGTTGTATTTGAGTA
*
11643159 GTTTTGTAAGTTAAGTTTAAATTATATTTTTTATTTTTATTGTGTAATATAAATTAGAGACTAAT
195 GTTTTGTAAGTTAAGTTTAAATTATATTTTTTA--TTTA-T-AGTAATATAAATTAGAGACTAAT
* * * * * *
11643224 TATTTTTATTTTAGGGATTAAATTGTATTTGAGTGGTTTGGTAAGTTTAGTGTAAAATATATTG
256 TATTTTTATTTTA-GGATT-AATTGTATTTAAGTGATTTAGTAAGATTAATGTAAAATATATTA
*
11643288 TTTAGGGTTTTTATTGTAAATATAAAGTAACTAGACTATTTATTTTGATTTTATATATTAAATTG
1 TTTAGGGTTTTTATTGTAAATATAAAGTAACTAGACTATTTATTTTGATTTTACATATTAAATTG
* **
11643353 TATTCTAAT-G-ATTTGGTAAGTTTAATTTATATTTTCATGA-ATTTTTTAGTATAATTTTGG-T
66 TATTCGAATGGAACAT-GTAAGTTTAATTTATATTTTCATGATA-TTTTTAGTATAATTTTGGTT
* *
11643414 TTTTAATTTAAATTATAAATATTAGACTATTTATTTTGATTTTACATATTAAGTTTTATTTGAGT
129 TTTTAATTTAAATTATAAATATTAGACTATTTATTTCGATTTTACATATTAAGTTGTATTTGAGT
*
11643479 AGTTTTGTAAGTTTAGTTTAAATTAT-TTTTTTA-TTA-AGTAATATAAATTATGAGACT-ATCT
194 AGTTTTGTAAGTTAAGTTTAAATTATATTTTTTATTTATAGTAATATAAATTA-GAGACTAAT-T
11643540 ATTTTTGATTT
257 ATTTTT-ATTT
11643551 ATCAGATTTT
Statistics
Matches: 242, Mismatches: 16, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
314 15 0.06
315 13 0.05
316 4 0.02
317 3 0.01
320 7 0.03
321 89 0.37
322 41 0.17
323 1 0.00
324 69 0.29
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (317 bp):
TTTAGGGTTTTTATTGTAAATATAAAGTAACTAGACTATTTATTTTGATTTTACATATTAAATTG
TATTCGAATGGAACATGTAAGTTTAATTTATATTTTCATGATATTTTTAGTATAATTTTGGTTTT
TTAATTTAAATTATAAATATTAGACTATTTATTTCGATTTTACATATTAAGTTGTATTTGAGTAG
TTTTGTAAGTTAAGTTTAAATTATATTTTTTATTTATAGTAATATAAATTAGAGACTAATTATTT
TTATTTTAGGATTAATTGTATTTAAGTGATTTAGTAAGATTAATGTAAAATATATTA
Found at i:11645079 original size:32 final size:27
Alignment explanation
Indices: 11645048--11645104 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
11645038 GAAAATAATT
*
11645048 TTTTTACAAAATAATAATAAATATTATTAA
1 TTTTTA-AAAAAAAT-ATAAATA-TATTAA
11645078 TTTTTAAAAAAAATATAAATATATTAA
1 TTTTTAAAAAAAATATAAATATATTAA
11645105 CAATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 6 0.23
28 7 0.27
29 7 0.27
30 6 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTTAAAAAAAATATAAATATATTAA
Found at i:11645344 original size:45 final size:45
Alignment explanation
Indices: 11645280--11645365 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
11645270 TCGTTCAACT
* * *
11645280 ACCAACCACCAACCTACCCGGGTTATTAATAGATAATTAATAACC
1 ACCAACCAACAACATACCCGAGTTATTAATAGATAATTAATAACC
* *
11645325 ACCAACTAACAACATACCCGAGTTATTAATGGATAATTAAT
1 ACCAACCAACAACATACCCGAGTTATTAATAGATAATTAAT
11645366 GGTGTCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (45 bp):
ACCAACCAACAACATACCCGAGTTATTAATAGATAATTAATAACC
Found at i:11645400 original size:25 final size:25
Alignment explanation
Indices: 11645372--11645430 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
11645362 TAATGGTGTC
11645372 ATTATTTTTTGCCATTATAATAAAT
1 ATTATTTTTTGCCATTATAATAAAT
*
11645397 ATTATTTTTTGTCATTATAATAAAT
1 ATTATTTTTTGCCATTATAATAAAT
11645422 ATTATTTTT
1 ATTATTTTT
11645431 CTACTACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (25 bp):
ATTATTTTTTGCCATTATAATAAAT
Found at i:11652501 original size:21 final size:21
Alignment explanation
Indices: 11652475--11652515 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11652465 GACTATCGTA
11652475 TTGCGATTTCCCAAATTCGCG
1 TTGCGATTTCCCAAATTCGCG
* *
11652496 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTCCCAAATTCGC
11652516 AACGCGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGCG
Found at i:11653430 original size:24 final size:24
Alignment explanation
Indices: 11653398--11653451 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11653388 GTATTCGAAT
11653398 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
11653422 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
11653446 TTTGAT
1 TTTGAT
11653452 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:11655853 original size:2 final size:2
Alignment explanation
Indices: 11655846--11655872 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11655836 CATGAGTTAG
11655846 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11655873 GGAATTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11656407 original size:31 final size:31
Alignment explanation
Indices: 11656369--11656446 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
11656359 AGAGTCGAGG
*
11656369 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
11656400 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
* *
11656431 GTTTACCGAGGATCTT
1 GTTTACCTAGGTTCTT
11656447 TATGACCTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 39 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:11656521 original size:29 final size:30
Alignment explanation
Indices: 11656419--11656518 Score: 148
Period size: 30 Copynumber: 3.3 Consensus size: 30
11656409 GGTTCTTCGG
*
11656419 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
11656450 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
11656480 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
11656509 GACCTCTGGA
1 GACCTCTGGA
11656519 TAGGTCCTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.28
30 35 0.54
31 12 0.18
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:11658699 original size:19 final size:19
Alignment explanation
Indices: 11658675--11658793 Score: 104
Period size: 19 Copynumber: 6.4 Consensus size: 19
11658665 GCAACGAGAG
11658675 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
11658694 AATCGCAACGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
* * *
11658714 TATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
* *
11658734 TATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
11658753 AATCGCAAT----AA-GAG
1 AATCGCAATGCGAAATGAA
*
11658767 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
*
11658786 AATTGCAA
1 AATCGCAA
11658794 CGAGGGAATC
Statistics
Matches: 82, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.12
15 2 0.02
18 2 0.02
19 36 0.44
20 29 0.35
21 3 0.04
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:11658718 original size:20 final size:19
Alignment explanation
Indices: 11658675--11658760 Score: 100
Period size: 20 Copynumber: 4.4 Consensus size: 19
11658665 GCAACGAGAG
*
11658675 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
11658694 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAA-ATGAA
* *
11658714 TATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATGAA
* * *
11658734 TATCGCAATGCGAAATAAA
1 AATCGCAACGCGAAATGAA
11658753 AATCGCAA
1 AATCGCAA
11658761 TAAGAGAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 26 0.45
20 29 0.50
21 3 0.05
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:11658781 original size:33 final size:33
Alignment explanation
Indices: 11658735--11658827 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
11658725 GGAAATGACT
* * *
11658735 ATCGCAATGCGAAATAAAAATCGCAATAAGAGA
1 ATCGCAATACGAAATGAAAATCGCAACAAGAGA
* * *
11658768 ATCGCAATACGAAATGAAAATTGCAACGAGGGA
1 ATCGCAATACGAAATGAAAATCGCAACAAGAGA
*
11658801 ATCACAA-AGCGAAATGAAAATCGCAAC
1 ATCGCAATA-CGAAATGAAAATCGCAAC
11658828 GCGAATTTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
32 1 0.02
33 50 0.98
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATACGAAATGAAAATCGCAACAAGAGA
Found at i:11663671 original size:2 final size:2
Alignment explanation
Indices: 11663664--11663707 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
11663654 ATTTATAGAC
* *
11663664 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GAG GT 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
11663706 AT
1 AT
11663708 TTTTACAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 34 0.94
3 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11665892 original size:21 final size:21
Alignment explanation
Indices: 11665867--11665908 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11665857 TGAAATTACT
*
11665867 AAATTACTCCACCTTACTTTA
1 AAATTAATCCACCTTACTTTA
*
11665888 AAATTAATCCCCCTTACTTTA
1 AAATTAATCCACCTTACTTTA
11665909 TCACTTCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTAATCCACCTTACTTTA
Found at i:11668180 original size:22 final size:23
Alignment explanation
Indices: 11668133--11668193 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
11668123 GATTCCCTCC
11668133 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
11668156 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGGTTCCCCTTCAA
* *
11668178 AGGGGGTATCGATTCC
1 AGGGGGAATCGGTTCC
11668194 TCGTGCACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:11676942 original size:140 final size:139
Alignment explanation
Indices: 11676752--11677406 Score: 837
Period size: 140 Copynumber: 4.7 Consensus size: 139
11676742 GATTCTGTGT
* * * *
11676752 TGAATTGAGAAAATGTTGAACAAGTTATTATCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
1 TGAATAGAGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
* ** *
11676817 TCTTCTCATTATAAACTCTCCATTAAAAATGTTAATCCCTCAAGTAAGGCATCGTTGATTCAACT
65 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAACT
11676882 CCAAATGCGA
130 CCAAATGCGA
* * * *
11676892 TGAATAGAGAAAAGATTGAACAAGTTCTTCTCATTATAAACCTCTTCTCCCTCTATCGGTTCAGT
1 TGAATAGAGAAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
** *
11676957 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGGTGTCACTGATTCAACT
65 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAACT
* *
11677022 CCATATGTGA
130 CCAAATGCGA
* *
11677032 TGAATCA-AGCAAAGTTTGAACAATTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAG
1 TGAAT-AGAGAAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAG
* * *
11677096 TTCTTCTCATTATGAACTCTCTATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAAC
64 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAAC
* *
11677161 TCCATATGAGA
129 TCCAAATGCGA
* * * **
11677172 TGAATCGAGCAAATGTTGAACAAGTTCTTCTCATTATGAACATT-TTCTCTCTCTATCATATGAG
1 TGAATAGAG-AAAAGTTGAACAAGTTCTTCTCATTATGAAC-TTCTTCTCCCTCTATCGGATGAG
* * * *
11677236 TTCTTCTTATTATGAACACTTCATTGGAAACGTTAATCCCTCAAGTAAGGCATCGCTGATTCAAC
64 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAAC
*
11677301 TCCAAATACGA
129 TCCAAATGCGA
* * * * * * * * * *
11677312 TGAATCGAGCAAAGGTTGAACAAGTTCTTATCATTATAAACTTATTTTCCTTTTATTGGATGACT
1 TGAATAGAG-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
11677377 TCTTCTCATTATGAACTCTCCATTGGAAAT
65 TCTTCTCATTATGAACTCTCCATTGGAAAT
11677407 TTTGATTGGT
Statistics
Matches: 448, Mismatches: 61, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
139 3 0.01
140 439 0.98
141 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (139 bp):
TGAATAGAGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTT
CTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAACTC
CAAATGCGA
Found at i:11686441 original size:14 final size:14
Alignment explanation
Indices: 11686422--11686452 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11686412 CTAATCTAAG
11686422 GACAAAATCTAAAA
1 GACAAAATCTAAAA
*
11686436 GACAAAATTTAAAA
1 GACAAAATCTAAAA
11686450 GAC
1 GAC
11686453 CAATTAACCA
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:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (14 bp):
GACAAAATCTAAAA
Found at i:11687936 original size:11 final size:12
Alignment explanation
Indices: 11687909--11687938 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11687899 AGGCTTCGGG
11687909 TTGGGTTCTGTT
1 TTGGGTTCTGTT
11687921 TTGGGTTCTG-T
1 TTGGGTTCTGTT
11687932 TTGGGTT
1 TTGGGTT
11687939 TAAATTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.00, C:0.07, G:0.37, T:0.57
Consensus pattern (12 bp):
TTGGGTTCTGTT
Found at i:11688144 original size:26 final size:26
Alignment explanation
Indices: 11688113--11688177 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
11688103 ATTTGACCCT
11688113 AAATTTT-TTTG-TTAATCTTGTTTGAC
1 AAATTTTATTTGATTAAT-TT-TTTGAC
*
11688139 AAATTTTATTTGATTAATTTTTTGTC
1 AAATTTTATTTGATTAATTTTTTGAC
11688165 AAATTTTATTTGA
1 AAATTTTATTTGA
11688178 GAAACTTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 25 0.69
27 6 0.17
28 5 0.14
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (26 bp):
AAATTTTATTTGATTAATTTTTTGAC
Found at i:11690735 original size:258 final size:258
Alignment explanation
Indices: 11690278--11690793 Score: 1032
Period size: 258 Copynumber: 2.0 Consensus size: 258
11690268 ATCTGGATTT
11690278 TGGGGTCTGTTCTTCAGAAATGAAGAACAGGCGAGAGCATTTTTAAACAAAGGGGGAGGGAGAGG
1 TGGGGTCTGTTCTTCAGAAATGAAGAACAGGCGAGAGCATTTTTAAACAAAGGGGGAGGGAGAGG
11690343 AAGGAAAATGAGAAATAAAAAAATAAAGTGGCTTAAATATTAAGTCCATCGGTTTCAATGACCCG
66 AAGGAAAATGAGAAATAAAAAAATAAAGTGGCTTAAATATTAAGTCCATCGGTTTCAATGACCCG
11690408 ACCCGGCCACTCTCAAACCCACGTGTTTTTGGAAATTAAAGGCGTAATCCCATTTTTGGTCCCTC
131 ACCCGGCCACTCTCAAACCCACGTGTTTTTGGAAATTAAAGGCGTAATCCCATTTTTGGTCCCTC
11690473 GTCGTTTCAATCATCTTATTTTGATCTTAATTTCTAATTGCAACCCAAATTCTCTTTAATTAG
196 GTCGTTTCAATCATCTTATTTTGATCTTAATTTCTAATTGCAACCCAAATTCTCTTTAATTAG
11690536 TGGGGTCTGTTCTTCAGAAATGAAGAACAGGCGAGAGCATTTTTAAACAAAGGGGGAGGGAGAGG
1 TGGGGTCTGTTCTTCAGAAATGAAGAACAGGCGAGAGCATTTTTAAACAAAGGGGGAGGGAGAGG
11690601 AAGGAAAATGAGAAATAAAAAAATAAAGTGGCTTAAATATTAAGTCCATCGGTTTCAATGACCCG
66 AAGGAAAATGAGAAATAAAAAAATAAAGTGGCTTAAATATTAAGTCCATCGGTTTCAATGACCCG
11690666 ACCCGGCCACTCTCAAACCCACGTGTTTTTGGAAATTAAAGGCGTAATCCCATTTTTGGTCCCTC
131 ACCCGGCCACTCTCAAACCCACGTGTTTTTGGAAATTAAAGGCGTAATCCCATTTTTGGTCCCTC
11690731 GTCGTTTCAATCATCTTATTTTGATCTTAATTTCTAATTGCAACCCAAATTCTCTTTAATTAG
196 GTCGTTTCAATCATCTTATTTTGATCTTAATTTCTAATTGCAACCCAAATTCTCTTTAATTAG
11690794 CCACCAAACT
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
258 258 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (258 bp):
TGGGGTCTGTTCTTCAGAAATGAAGAACAGGCGAGAGCATTTTTAAACAAAGGGGGAGGGAGAGG
AAGGAAAATGAGAAATAAAAAAATAAAGTGGCTTAAATATTAAGTCCATCGGTTTCAATGACCCG
ACCCGGCCACTCTCAAACCCACGTGTTTTTGGAAATTAAAGGCGTAATCCCATTTTTGGTCCCTC
GTCGTTTCAATCATCTTATTTTGATCTTAATTTCTAATTGCAACCCAAATTCTCTTTAATTAG
Found at i:11690917 original size:35 final size:35
Alignment explanation
Indices: 11690852--11690918 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
11690842 TTATATTCAT
* * *
11690852 TTTATTTAATTATTTATTTTATACATTTTTTTCTG
1 TTTACTTAATTATTTATATTATACAATTTTTTCTG
*
11690887 TTTACTTATTTATTTATATTACTA-AATTTTTT
1 TTTACTTAATTATTTATATTA-TACAATTTTTT
11690919 ATTATTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 25 0.93
36 2 0.07
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.67
Consensus pattern (35 bp):
TTTACTTAATTATTTATATTATACAATTTTTTCTG
Found at i:11691136 original size:14 final size:14
Alignment explanation
Indices: 11691114--11691163 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
11691104 TTTTTTATTC
*
11691114 TTTTCATTTTGCTTA
1 TTTT-ATTTTACTTA
*
11691129 TTTTATTTTATTTA
1 TTTTATTTTACTTA
11691143 TTTTA-TTTACTT-
1 TTTTATTTTACTTA
*
11691155 TTTTCTTTT
1 TTTTATTTT
11691164 TTTTCTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 4 0.13
13 9 0.30
14 13 0.43
15 4 0.13
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTTATTTTACTTA
Found at i:11693173 original size:17 final size:17
Alignment explanation
Indices: 11693153--11693193 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11693143 ACAATCGATT
*
11693153 GTTGACCGTTGACATGC
1 GTTGACCGTTGACAGGC
* *
11693170 GTTGATCGTTGACCGGC
1 GTTGACCGTTGACAGGC
11693187 GTTGACC
1 GTTGACC
11693194 ACTATTGACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (17 bp):
GTTGACCGTTGACAGGC
Found at i:11695551 original size:12 final size:12
Alignment explanation
Indices: 11695536--11695632 Score: 70
Period size: 12 Copynumber: 8.1 Consensus size: 12
11695526 TGAATTCTAT
11695536 TCTGATTTCTGA
1 TCTGATTTCTGA
* *
11695548 TCTGAATTCTGT
1 TCTGATTTCTGA
*
11695560 TCTAATTTCTGA
1 TCTGATTTCTGA
* *
11695572 TCTGAATTCTGT
1 TCTGATTTCTGA
* *
11695584 TCTGATTTTTTA
1 TCTGATTTCTGA
* *
11695596 TATGGATTT-TGT
1 TCT-GATTTCTGA
* *
11695608 TCTGAATTCTGT
1 TCTGATTTCTGA
*
11695620 TTTGATTTCTGA
1 TCTGATTTCTGA
11695632 T
1 T
11695633 ATCTCCGTTT
Statistics
Matches: 63, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
11 4 0.06
12 54 0.86
13 5 0.08
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.55
Consensus pattern (12 bp):
TCTGATTTCTGA
Found at i:11695553 original size:24 final size:24
Alignment explanation
Indices: 11695512--11695618 Score: 115
Period size: 24 Copynumber: 4.5 Consensus size: 24
11695502 AAATGGTTTA
* * * *
11695512 TCTGATCTCCGATTTGAATTCTAT
1 TCTGATTTCTGATCTGAATTCTGT
11695536 TCTGATTTCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
11695560 TCTAATTTCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* * * * *
11695584 TCTGATTTTTTATATGGATTTTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
11695608 TCTGAATTCTG
1 TCTGATTTCTG
11695619 TTTTGATTTC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:11697167 original size:18 final size:19
Alignment explanation
Indices: 11697146--11697181 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11697136 ATACGCTCTT
11697146 AAATTATTA-AAAATATAA
1 AAATTATTATAAAATATAA
11697164 AAATTATTATAAAATATA
1 AAATTATTATAAAATATA
11697182 TTATTTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTATTATAAAATATAA
Found at i:11701432 original size:71 final size:71
Alignment explanation
Indices: 11701234--11701446 Score: 293
Period size: 71 Copynumber: 3.0 Consensus size: 71
11701224 ATCCGTCAGC
** * * *
11701234 ATGCTCCACAATAAAAGAAACAAATAGTAAATCAGCTAGCAGTCAAGTTCAATTGAAGCTAGACA
1 ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGCTAACAGTCAAGTCCAATTGAAGTTAGACA
11701299 TAGTTA
66 TAGTTA
* * *
11701305 ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGATAGA-AATCAAGTGCAATTGAAGTTAGAC
1 ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGCTA-ACAGTCAAGTCCAATTGAAGTTAGAC
*
11701369 ATATTTA
65 ATAGTTA
* * *
11701376 ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGCTAACAGTCAAATCCAGTTGAAGTTGGACA
1 ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGCTAACAGTCAAGTCCAATTGAAGTTAGACA
*
11701441 CAGTTA
66 TAGTTA
11701447 TATTTAATTC
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
70 1 0.01
71 123 0.99
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (71 bp):
ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGCTAACAGTCAAGTCCAATTGAAGTTAGACA
TAGTTA
Found at i:11703854 original size:18 final size:21
Alignment explanation
Indices: 11703833--11703871 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
11703823 TTATAAGGTA
11703833 ATTT-TTTTA-ATAT-ATTAT
1 ATTTATTTTATATATGATTAT
11703851 ATTTATTTTATATATGATTAT
1 ATTTATTTTATATATGATTAT
11703872 TTGAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 4 0.22
21 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
ATTTATTTTATATATGATTAT
Found at i:11707179 original size:47 final size:46
Alignment explanation
Indices: 11707110--11707206 Score: 140
Period size: 47 Copynumber: 2.1 Consensus size: 46
11707100 ACCGATTAAT
11707110 TAAACAAGAAAACGATACAAGAAAAGGGATTAAAAATAACTAAATAA
1 TAAACAAGAAAACGATACAAGAAAAGGGATTAAAAA-AACTAAATAA
* * * * *
11707157 TAAACAAGAAAATGATATAAGAAAATGGATTAAAAACATTAAATAA
1 TAAACAAGAAAACGATACAAGAAAAGGGATTAAAAAAACTAAATAA
11707203 TAAA
1 TAAA
11707207 AGCATTCGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 12 0.27
47 33 0.73
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (46 bp):
TAAACAAGAAAACGATACAAGAAAAGGGATTAAAAAAACTAAATAA
Found at i:11708795 original size:21 final size:21
Alignment explanation
Indices: 11708769--11708843 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
11708759 ATCAGATTGT
11708769 CCAGGGGGTACAGATTCCTCC
1 CCAGGGGGTACAGATTCCTCC
11708790 CCAGGGGGTATC-GATT--T-C
1 CCAGGGGGTA-CAGATTCCTCC
* *
11708808 CC---GGGAACAGATTCCCCC
1 CCAGGGGGTACAGATTCCTCC
11708826 CCAGGGGGTACAGATTCC
1 CCAGGGGGTACAGATTCC
11708844 CCCTGCATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
14 1 0.02
15 8 0.19
18 6 0.14
19 1 0.02
21 26 0.60
22 1 0.02
ACGTcount: A:0.20, C:0.32, G:0.29, T:0.19
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCTCC
Found at i:11708984 original size:21 final size:21
Alignment explanation
Indices: 11708958--11708999 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11708948 ATTTGAATAT
*
11708958 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
11708979 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
11709000 CCCATTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:11709136 original size:12 final size:12
Alignment explanation
Indices: 11709119--11709143 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11709109 AAGGACACTC
11709119 GAACAAGTAAGA
1 GAACAAGTAAGA
11709131 GAACAAGTAAGA
1 GAACAAGTAAGA
11709143 G
1 G
11709144 GAAAGGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.28, T:0.08
Consensus pattern (12 bp):
GAACAAGTAAGA
Found at i:11709186 original size:34 final size:32
Alignment explanation
Indices: 11709143--11709211 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 32
11709133 ACAAGTAAGA
*
11709143 GGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTAG
1 GGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTAG
*
11709177 GGAAAGGTTCTAGTTTAGCCCGGAAAAACTAG
1 GGAAAGGTTCTAGCTTAGCCCGGAAAAACTAG
11709209 GGA
1 GGA
11709212 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (32 bp):
GGAAAGGTTCTAGCTTAGCCCGGAAAAACTAG
Found at i:11711731 original size:21 final size:21
Alignment explanation
Indices: 11711705--11711744 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11711695 ATTTGAATAT
*
11711705 TATGAAGGGGTATCGATTCTC
1 TATGAAGGGGTACCGATTCTC
11711726 TATGAAGGGGTACCGATTC
1 TATGAAGGGGTACCGATTC
11711745 CCCTATTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCTC
Found at i:11712096 original size:32 final size:33
Alignment explanation
Indices: 11712030--11712098 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
11712020 TTTGTAAAGA
*
11712030 GGAAAGGTTCTAGCTTAGCACGTATAAAAACTAG
1 GGAAAGGTTCTAGCTTAGCACG-AGAAAAACTAG
* *
11712064 GGAAAGGTTCTAGTTTAGCCCG-GAAAAACTAG
1 GGAAAGGTTCTAGCTTAGCACGAGAAAAACTAG
11712096 GGA
1 GGA
11712099 GTTTGTAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 12 0.38
34 20 0.62
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (33 bp):
GGAAAGGTTCTAGCTTAGCACGAGAAAAACTAG
Found at i:11713249 original size:17 final size:16
Alignment explanation
Indices: 11713200--11713254 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
11713190 CTAATACTGA
*
11713200 AAAATTTAAATAAATT
1 AAAATTAAAATAAATT
11713216 AAATATTAACAAT-AATT
1 AAA-ATTAA-AATAAATT
11713233 AAAATTAAAATAGAATTT
1 AAAATTAAAATA-AA-TT
11713251 AAAA
1 AAAA
11713255 ATGTTATCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 3 0.09
16 8 0.24
17 13 0.39
18 9 0.27
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAATTAAAATAAATT
Found at i:11713464 original size:17 final size:18
Alignment explanation
Indices: 11713439--11713475 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11713429 TTTGACCGAG
*
11713439 TTTGAGCTTTAATAGGGT
1 TTTGAGCTTTAAGAGGGT
11713457 TTTG-GCTTTAAGAGGGT
1 TTTGAGCTTTAAGAGGGT
11713474 TT
1 TT
11713476 GAGAGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.19, C:0.05, G:0.30, T:0.46
Consensus pattern (18 bp):
TTTGAGCTTTAAGAGGGT
Found at i:11717764 original size:681 final size:683
Alignment explanation
Indices: 11716481--11717811 Score: 2270
Period size: 681 Copynumber: 1.9 Consensus size: 683
11716471 CATTACTACA
*
11716481 AACTACCATAGAAGGTACAAGAAGAATGATGAGCGTCAATTAATTGTGCGTATGAGTAAGTGAAA
1 AACTACCATAGAAGGTACAAGAAGAATGATGAGCGTCAATTAATTGTGCGCATGAGTAAGTGAAA
* * * *
11716546 CTGATGTAGTTTGTTTTCTTTCGATCATTTTAATTTTGCAAATAAAGCAAGTTAGTAAGTTATAT
66 CTGATGTAGTTTGTTTTATTTCGATCATTTTAATTTTGC--A-AAAGAAAGTAAGTAAGTTATAC
* * *
11716611 TTTTTTTATCAGGTTACGAACTACTTCCTTAAACTTTTGAATCAATACTTCAAGATTTGCAGGCG
128 TTTTTTGATCAGGTTACGAACTACTTCCTTAAACATTTGAATCAATACTTCAAGATTTGCAGGAG
*
11716676 AAAAACGAGGAAGGATACGATTACATCAGCCTCATTGATAAAGAAATGTGGACGAACGAATATGA
193 AAAAACGAGGAAGGATACGATTACATCAGCCTCATCGATAAAGAAATGTGGACGAACGAATATGA
* *
11716741 TGGTGGATATCGATATGGACACATGACGACCAACTTGGTTGAGGCAATCAATTCAACCTTAAAGG
258 TGGTGGATATCGATATGGACACATGACGACCAACTTGGCTAAGGCAATCAATTCAACCTTAAAGG
* * * **
11716806 GTGCACGTCACTTACCTGTAGCGGCTTTGGTAAAAACTATATATTTTTATTTGGGGGTTCATTTT
323 GTGCACGTCACTTACATGTAGCGACTTTGGTAAAAACTACATATTTTTATTTGGGGGCGCATTTT
* *
11716871 GCGAAGCTCGAGGGACAAGGTCAAACCTGGATGCAAGGCGGTCATGTCTATCACCCTAGATTAGT
388 GCAAAGCTCGAGGGACAAGCTCAAACCTGGATGCAAGGCGGTCATGTCTATCACCCTAGATTAGT
* *
11716936 TGCAGATCTACAAAAAAAATTGTTGCATCAAATGGAATGTCTGTAACAAGCTTTTCTAGAAGACA
453 TGCAGATCTACAAAAAAAATTGTTGCATCAAATGGAATGTATGTAACAAGCTTCTCTAGAAGACA
* *
11717001 TGAAATGTTTCGTATCACAGAGTTGTCGCGACCTCTTCAAGGGATTGAAGTTGTGTCGTTAAGAG
518 TGAAATGTTTCGTATCACAGAGTTGTCGCGACCTCTTCAAGGGATTAAAGATGTGTCGTTAAGAG
11717066 TAAATCTACGGGACAGAACGTGCGACTGCGAGTTTTTTCAAGCTCTGAAGTATCCATACTCTCAT
583 TAAATCTACGGGACAGAACGTGCGACTGCGAGTTTTTTCAAGCTCTGAAGTATCCATACTCTCAT
11717131 GTCCAACATAGGTATTGTCTCCGACACATTGATGTG
648 GTCCAACATAGGTATTGTCTCCGACACATTGATGTG
* * *
11717167 AACTACCATGGAAGGTACAAGAAGAATTATGAGCGTCAATTAATTGTGCGCATGGGTAAGTGAAA
1 AACTACCATAGAAGGTACAAGAAGAATGATGAGCGTCAATTAATTGTGCGCATGAGTAAGTGAAA
*
11717232 CTGATGTAGTTTGTTTTATTTCGATCTTTTTAATTTTGC-AAAGAAAGTAAGTAAGTTATACTTT
66 CTGATGTAGTTTGTTTTATTTCGATCATTTTAATTTTGCAAAAGAAAGTAAGTAAGTTATACTTT
* *
11717296 TTTGATCATGTTACGAACTACTTCCTTAAACATTTGAATCAATACTTCAAGATTTGCGGGAGAAA
131 TTTGATCAGGTTACGAACTACTTCCTTAAACATTTGAATCAATACTTCAAGATTTGCAGGAGAAA
*
11717361 AACGAGGAAGGATACGATTACATCAGCCTCATCGATAAAGAAATGTGGACGAACGCATATGATGG
196 AACGAGGAAGGATACGATTACATCAGCCTCATCGATAAAGAAATGTGGACGAACGAATATGATGG
*
11717426 TGGATATCGATATGGACATATGACGACCAACTTGGCTAAGGCAATCAATTCAACCTTAAAGGGTG
261 TGGATATCGATATGGACACATGACGACCAACTTGGCTAAGGCAATCAATTCAACCTTAAAGGGTG
* *
11717491 CACGTCACTTACATGTAGCGACTTTGG-AAAAACTACATATTTTTGTTTGGGGGCGCTTTTTGCA
326 CACGTCACTTACATGTAGCGACTTTGGTAAAAACTACATATTTTTATTTGGGGGCGCATTTTGCA
* *
11717555 AAGCTCGGGGGACAAGCTCAAACCTGGATGCAAGGCGGTCATGTCTATCACCCTAGGTTAGTTGC
391 AAGCTCGAGGGACAAGCTCAAACCTGGATGCAAGGCGGTCATGTCTATCACCCTAGATTAGTTGC
**
11717620 AGATCTACAAAAAAAATTGTTGCATCAAATGGAATGTATGTAGTAAGCTTCTCTAGAAGACATGA
456 AGATCTACAAAAAAAATTGTTGCATCAAATGGAATGTATGTAACAAGCTTCTCTAGAAGACATGA
11717685 AATGTTTCGTATCACAGAGTTGTCGCGACCTCTTCAAGGGATTAAAGATGTGTCGTTAAGAGTAA
521 AATGTTTCGTATCACAGAGTTGTCGCGACCTCTTCAAGGGATTAAAGATGTGTCGTTAAGAGTAA
* * *
11717750 ATCTACGGGACAGAACGTGCGGCTGCGGGTTTTTTCAAGCTCTGAAGTATTCATACTCTCAT
586 ATCTACGGGACAGAACGTGCGACTGCGAGTTTTTTCAAGCTCTGAAGTATCCATACTCTCAT
11717812 ATAATAGCAG
Statistics
Matches: 606, Mismatches: 39, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
681 276 0.46
682 232 0.38
686 98 0.16
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (683 bp):
AACTACCATAGAAGGTACAAGAAGAATGATGAGCGTCAATTAATTGTGCGCATGAGTAAGTGAAA
CTGATGTAGTTTGTTTTATTTCGATCATTTTAATTTTGCAAAAGAAAGTAAGTAAGTTATACTTT
TTTGATCAGGTTACGAACTACTTCCTTAAACATTTGAATCAATACTTCAAGATTTGCAGGAGAAA
AACGAGGAAGGATACGATTACATCAGCCTCATCGATAAAGAAATGTGGACGAACGAATATGATGG
TGGATATCGATATGGACACATGACGACCAACTTGGCTAAGGCAATCAATTCAACCTTAAAGGGTG
CACGTCACTTACATGTAGCGACTTTGGTAAAAACTACATATTTTTATTTGGGGGCGCATTTTGCA
AAGCTCGAGGGACAAGCTCAAACCTGGATGCAAGGCGGTCATGTCTATCACCCTAGATTAGTTGC
AGATCTACAAAAAAAATTGTTGCATCAAATGGAATGTATGTAACAAGCTTCTCTAGAAGACATGA
AATGTTTCGTATCACAGAGTTGTCGCGACCTCTTCAAGGGATTAAAGATGTGTCGTTAAGAGTAA
ATCTACGGGACAGAACGTGCGACTGCGAGTTTTTTCAAGCTCTGAAGTATCCATACTCTCATGTC
CAACATAGGTATTGTCTCCGACACATTGATGTG
Found at i:11718456 original size:33 final size:35
Alignment explanation
Indices: 11718381--11718458 Score: 101
Period size: 33 Copynumber: 2.3 Consensus size: 35
11718371 TATGGTAATA
*
11718381 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAAATTAACCAAAATAAATTAACAAAAAGTCC
*
11718416 AAC-AAATTTA-CAAAATAAATTAA-AATAAA-TCC
1 AACAAAATTAACCAAAATAAATTAACAA-AAAGTCC
11718448 AACAAAATTAA
1 AACAAAATTAA
11718459 TGAAATAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 8 0.21
33 21 0.55
34 6 0.16
35 3 0.08
ACGTcount: A:0.63, C:0.15, G:0.01, T:0.21
Consensus pattern (35 bp):
AACAAAATTAACCAAAATAAATTAACAAAAAGTCC
Found at i:11718465 original size:33 final size:32
Alignment explanation
Indices: 11718394--11718467 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 32
11718384 AAAATTAACC
* *
11718394 AAAATACATTAACAAAAAGTCCAACAAATTTA
1 AAAATAAATTAACAAAAAGTCCAACAAAATTA
11718426 CAAAATAAATTAA-AATAAA-TCCAACAAAATTA
1 -AAAATAAATTAACAA-AAAGTCCAACAAAATTA
11718458 ATGAAATAAA
1 A--AAATAAA
11718468 GTAAGTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 1 0.03
32 14 0.39
33 21 0.58
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.22
Consensus pattern (32 bp):
AAAATAAATTAACAAAAAGTCCAACAAAATTA
Found at i:11718505 original size:14 final size:14
Alignment explanation
Indices: 11718488--11718520 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11718478 AATGATAAAT
11718488 AATAAAAAAATTAC
1 AATAAAAAAATTAC
*
11718502 AAT-AAAAAATTCC
1 AATAAAAAAATTAC
11718515 AATAAA
1 AATAAA
11718521 CAACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAAAATTAC
Found at i:11721537 original size:15 final size:15
Alignment explanation
Indices: 11721519--11721564 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
11721509 ACCGGTTTCG
11721519 GTTTTAAAAAAACCA
1 GTTTTAAAAAAACCA
*
11721534 GTTTTTTAAAAAAACCG
1 G--TTTTAAAAAAACCA
*
11721551 GTTATAAAAAAACC
1 GTTTTAAAAAAACC
11721565 GATTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 13 0.48
17 14 0.52
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (15 bp):
GTTTTAAAAAAACCA
Found at i:11721565 original size:15 final size:15
Alignment explanation
Indices: 11721517--11721572 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
11721507 TAACCGGTTT
11721517 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
11721532 CAGTTTTTTAAAAAAAC
1 C-G-GTTTTAAAAAAAC
*
11721549 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
11721564 CGATTTTAA
1 CGGTTTTAA
11721573 TATTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 19 0.56
16 2 0.06
17 13 0.38
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.30
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:11722723 original size:33 final size:32
Alignment explanation
Indices: 11722676--11722768 Score: 143
Period size: 33 Copynumber: 2.9 Consensus size: 32
11722666 AACTCAACAT
* *
11722676 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAA-ACTTCCAAGTTCGATA
11722709 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTT-AAAACTTCCAAGTTCGATA
11722742 AATTCAAATACTTAAAACTT-CAAGTTC
1 AATTCAAATACTTAAAACTTCCAAGTTC
11722769 TTCAAGTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 7 0.12
32 7 0.12
33 40 0.70
34 3 0.05
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (32 bp):
AATTCAAATACTTAAAACTTCCAAGTTCGATA
Found at i:11731741 original size:19 final size:19
Alignment explanation
Indices: 11731717--11731765 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
11731707 GACTTAGCTA
11731717 ATAAAATATGAAATCATCG
1 ATAAAATATGAAATCATCG
11731736 ATAAAATATGAAATCATCG
1 ATAAAATATGAAATCATCG
*
11731755 ATAGAATATGA
1 ATAAAATATGA
11731766 TAATGTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (19 bp):
ATAAAATATGAAATCATCG
Found at i:11739675 original size:60 final size:60
Alignment explanation
Indices: 11739593--11739755 Score: 211
Period size: 60 Copynumber: 2.7 Consensus size: 60
11739583 CTCTCGTTTC
*
11739593 AAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACTCTCATTCT
1 AAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACCCTCATTCT
* * * * ** * *
11739653 AAATTAGTCCTTAAACTTTTGAACACTCTAATTTCATTCGTAAACTATGGCCCTCTTTCT
1 AAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACCCTCATTCT
* * *
11739713 AAATTGGTCC-CAAACTTTTGAATCTTCCAATTTCATCCCCAAA
1 AAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAA
11739756 TTTATCCAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 25 0.29
60 60 0.71
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (60 bp):
AAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACCCTCATTCT
Found at i:11740977 original size:47 final size:46
Alignment explanation
Indices: 11740908--11741066 Score: 219
Period size: 47 Copynumber: 3.4 Consensus size: 46
11740898 AAAATCTATT
* *
11740908 TTCATTTATGTTCGTTTACGTTCATTTATTGTGTTCGTTTACGTTTG
1 TTCATTTGTGTTCGTTTACGTTCGTTTATTGTGTTCGTTTA-GTTTG
* *
11740955 TTCATTTGTATTCGTTTACGTTCGTTTATTGTGTTCGTTTATTTTCG
1 TTCATTTGTGTTCGTTTACGTTCGTTTATTGTGTTCGTTTAGTTT-G
* * * *
11741002 TTCATTTGTGTTCGTTTACGTTCGTTTATTATATTCTTTTATGTTCG
1 TTCATTTGTGTTCGTTTACGTTCGTTTATTGTGTTCGTTTA-GTTTG
11741049 TTCATTTGTGTTCGTTTA
1 TTCATTTGTGTTCGTTTA
11741067 TCATTTAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
46 3 0.03
47 95 0.95
48 2 0.02
ACGTcount: A:0.12, C:0.13, G:0.16, T:0.59
Consensus pattern (46 bp):
TTCATTTGTGTTCGTTTACGTTCGTTTATTGTGTTCGTTTAGTTTG
Found at i:11746463 original size:41 final size:41
Alignment explanation
Indices: 11746415--11746497 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
11746405 CCGGAGACAA
11746415 AGCCGTTCATTGAGCTTAACGCCAAAAATGGAGGAGAAGTG
1 AGCCGTTCATTGAGCTTAACGCCAAAAATGGAGGAGAAGTG
11746456 AGCCGTTCATTGAGCTTAACGCCAAAAATGGAGGAGAAGTG
1 AGCCGTTCATTGAGCTTAACGCCAAAAATGGAGGAGAAGTG
11746497 A
1 A
11746498 CTTTTGGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (41 bp):
AGCCGTTCATTGAGCTTAACGCCAAAAATGGAGGAGAAGTG
Found at i:11751819 original size:18 final size:19
Alignment explanation
Indices: 11751796--11751834 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
11751786 GTGTTTTAAG
11751796 TGTGTTTTAAAATG-TAAA
1 TGTGTTTTAAAATGATAAA
11751814 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
11751833 TG
1 TG
11751835 GGAGAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (19 bp):
TGTGTTTTAAAATGATAAA
Found at i:11758846 original size:22 final size:23
Alignment explanation
Indices: 11758809--11758854 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
11758799 CACTGAGTGG
11758809 CATGTGAAATATGTCCCGAAGGA
1 CATGTGAAATATGTCCCGAAGGA
*
11758832 CATGTG-AGTATGTCCCGAAGGA
1 CATGTGAAATATGTCCCGAAGGA
11758854 C
1 C
11758855 CTATGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (23 bp):
CATGTGAAATATGTCCCGAAGGA
Found at i:11758867 original size:22 final size:23
Alignment explanation
Indices: 11758809--11758877 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
11758799 CACTGAGTGG
*
11758809 CATGTGAAATATGTCCCGAAGGA-
1 CATGTG-AGTATGTCCCGAAGGAC
11758832 CATGTGAGTATGTCCCGAAGGAC
1 CATGTGAGTATGTCCCGAAGGAC
* *
11758855 CTATGT-A-TTTGTCCTGAAGGAC
1 C-ATGTGAGTATGTCCCGAAGGAC
11758877 C
1 C
11758878 GCGTAGACCC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 29 0.71
23 8 0.20
24 4 0.10
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (23 bp):
CATGTGAGTATGTCCCGAAGGAC
Found at i:11764702 original size:20 final size:18
Alignment explanation
Indices: 11764658--11764736 Score: 97
Period size: 19 Copynumber: 4.2 Consensus size: 18
11764648 AAACACATTG
*
11764658 AATATTAAAAAATATTTA
1 AATATTAAACAATATTTA
11764676 AATATGTAAACAATATTTA
1 AATAT-TAAACAATATTTA
11764695 ATATATGTAAACAATATTTA
1 A-ATAT-TAAACAATATTTA
*
11764715 AATATTAAAGTAATA-TTA
1 AATATTAAA-CAATATTTA
11764733 AATA
1 AATA
11764737 AAAATATTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
18 16 0.29
19 21 0.38
20 19 0.34
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (18 bp):
AATATTAAACAATATTTA
Found at i:11764730 original size:39 final size:38
Alignment explanation
Indices: 11764659--11764736 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 38
11764649 AACACATTGA
*
11764659 ATATTAAAAAATATTTAAATATGTAAACAATATTTAAT
1 ATATTAAAAAATATTTAAATATGTAAACAATATTAAAT
* *
11764697 ATATGTAAACAATATTTAAATAT-TAAAGTAATATTAAAT
1 ATAT-TAAAAAATATTTAAATATGTAAA-CAATATTAAAT
11764736 A
1 A
11764737 AAAATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 8 0.23
39 27 0.77
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (38 bp):
ATATTAAAAAATATTTAAATATGTAAACAATATTAAAT
Done.