Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007824.1 Hibiscus syriacus cultivar Beakdansim tig00110162_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: 895964
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 4
Found at i:5242 original size:10 final size:10
Alignment explanation
Indices: 5227--5285 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
5217 CCGATTTTCA
5227 ACCGGTTCTG
1 ACCGGTTCTG
5237 ACCGGTTC-G
1 ACCGGTTCTG
*
5246 ACCGGTT-TCA
1 ACCGGTTCT-G
5256 ACCGGTTC-G
1 ACCGGTTCTG
5265 AACCGGTT-TG
1 -ACCGGTTCTG
5275 ACCGG-TCTG
1 ACCGGTTCTG
5284 AC
1 AC
5286 TCGACCCGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
8 1 0.02
9 17 0.41
10 23 0.56
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:5251 original size:19 final size:19
Alignment explanation
Indices: 5226--5280 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
5216 ACCGATTTTC
5226 AACCGGTTCTGACCGGTTCG
1 AACCGGTT-TGACCGGTTCG
*
5246 -ACCGGTTTCAACCGGTTCG
1 AACCGGTTT-GACCGGTTCG
5265 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
5281 CTGACTCGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.03
19 22 0.71
20 8 0.26
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.25
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:5257 original size:29 final size:29
Alignment explanation
Indices: 5222--5280 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
5212 TTTAACCGAT
5222 TTTCAACCGGTTCTG-ACCGGTTCGACCGG
1 TTTCAACCGGTTC-GAACCGGTTCGACCGG
*
5251 TTTCAACCGGTTCGAACCGGTTTGACCGG
1 TTTCAACCGGTTCGAACCGGTTCGACCGG
5280 T
1 T
5281 CTGACTCGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (29 bp):
TTTCAACCGGTTCGAACCGGTTCGACCGG
Found at i:5307 original size:17 final size:17
Alignment explanation
Indices: 5282--5320 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
5272 TTGACCGGTC
*
5282 TGACTCGACCCGACCGT
1 TGACCCGACCCGACCGT
5299 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
5316 TGACC
1 TGACC
5321 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:5320 original size:7 final size:7
Alignment explanation
Indices: 5310--5340 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5300 GACCCGACCC
5310 GACCGTT
1 GACCGTT
5317 GACCGTT
1 GACCGTT
5324 GACCGTT
1 GACCGTT
*
5331 AACCGTT
1 GACCGTT
5338 GAC
1 GAC
5341 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:11941 original size:9 final size:9
Alignment explanation
Indices: 11927--11991 Score: 53
Period size: 10 Copynumber: 7.0 Consensus size: 9
11917 TGGCTGCTGG
11927 AACCGGTTT
1 AACCGGTTT
11936 AACCGGTTTT
1 AACCGG-TTT
*
11946 CAACAGGTTT
1 -AACCGGTTT
*
11956 GA-CGGTTT
1 AACCGGTTT
*
11964 GA-CGGTTT
1 AACCGGTTT
11972 CAACCGGTTCT
1 -AACCGGTT-T
11983 AACCGGTTT
1 AACCGGTTT
11992 GACCCGGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 13 0.28
9 9 0.19
10 19 0.40
11 6 0.13
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (9 bp):
AACCGGTTT
Found at i:12058 original size:22 final size:23
Alignment explanation
Indices: 12017--12068 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
12007 TTGACGGTCT
12017 GACCCGA--CGACCGGTTGACCC
1 GACCCGACCCGACCGGTTGACCC
12038 GACCCGACCCGACC-GTTGACCC
1 GACCCGACCCGACCGGTTGACCC
*
12060 GATCCGACC
1 GACCCGACC
12069 GTTGACCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 7 0.25
22 16 0.57
23 5 0.18
ACGTcount: A:0.19, C:0.46, G:0.25, T:0.10
Consensus pattern (23 bp):
GACCCGACCCGACCGGTTGACCC
Found at i:12060 original size:17 final size:17
Alignment explanation
Indices: 12038--12075 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
12028 CGGTTGACCC
12038 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
*
12055 GACCCGATCCGACCGTT
1 GACCCGACCCGACCGTT
12072 GACC
1 GACC
12076 GTGACCGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:17138 original size:14 final size:14
Alignment explanation
Indices: 17114--17155 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
17104 ACCGGTTTCG
17114 GTTTGAAAAAAATCA
1 GTTT-AAAAAAATCA
17129 GTTTAAAAAAA-CA
1 GTTTAAAAAAATCA
*
17142 GATATAAAAAAATC
1 G-TTTAAAAAAATC
17156 GATTTGTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 16 0.67
15 5 0.21
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.24
Consensus pattern (14 bp):
GTTTAAAAAAATCA
Found at i:18098 original size:30 final size:30
Alignment explanation
Indices: 18061--18167 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 30
18051 GGCTGCTGGA
*
18061 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTC-G
18092 -ACCGGTTTGACCGG-TTTCAACCGGTTCG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCG
*
18120 AACCGGTTCTGACCGG-TTT-GACCGGTTTC-
1 AACCGGTT-TGACCGGTTTTCAACCGG-TTCG
*
18149 AACCGGTTCGAACCGGTTT
1 AACCGGTTTG-ACCGGTTT
18168 GACCGGTCTG
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
28 2 0.03
29 38 0.56
30 28 0.41
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.30
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCG
Found at i:18106 original size:19 final size:19
Alignment explanation
Indices: 18063--18212 Score: 114
Period size: 19 Copynumber: 7.7 Consensus size: 19
18053 CTGCTGGAAA
* * *
18063 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
18083 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
18102 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
18122 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
18141 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
18161 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
*
18179 GACGGTTTGACCGG-TCTGA
1 -CCGGTTTGACCGGTTCTGA
*
18198 GCCGGTTTGATCGGT
1 -CCGGTTTGACCGGT
18213 CTAACCCGAC
Statistics
Matches: 109, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
18 5 0.05
19 65 0.60
20 30 0.28
21 9 0.08
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:18124 original size:29 final size:29
Alignment explanation
Indices: 18062--18218 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 29
18052 GCTGCTGGAA
* *
18062 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTAACCGGTTCTGAACCGGTT-TG
* * *
18092 ACCGGTTTGACCGGTT-TCAACCGGTTCG
1 ACCGGTTTAACCGGTTCTGAACCGGTTTG
* *
18120 AACCGGTTCTGACCGGTT-TG-ACCGGTTTCA
1 -ACCGGTT-TAACCGGTTCTGAACCGGTTT-G
* *
18150 ACCGGTTCGAACCGGTT-TG-ACCGGTCTG
1 ACCGGTT-TAACCGGTTCTGAACCGGTTTG
* * *
18178 AGACGGTTTGACCGG-TCTGAGCCGGTTTG
1 A-CCGGTTTAACCGGTTCTGAACCGGTTTG
* *
18207 ATCGGTCTAACC
1 ACCGGTTTAACC
18219 CGACCCGACC
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 17 0.16
29 61 0.59
30 25 0.24
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (29 bp):
ACCGGTTTAACCGGTTCTGAACCGGTTTG
Found at i:18124 original size:39 final size:39
Alignment explanation
Indices: 18062--18174 Score: 187
Period size: 39 Copynumber: 2.9 Consensus size: 39
18052 GCTGCTGGAA
18062 ACCGGTTT-AACCGGTTTTC-AACCGGTTCTGACCGGTTTG
1 ACCGGTTTCAACCGG--TTCGAACCGGTTCTGACCGGTTTG
18101 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
1 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
18140 ACCGGTTTCAACCGGTTCGAACCGGTT-TGACCGGT
1 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGT
18175 CTGAGACGGT
Statistics
Matches: 72, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
38 11 0.15
39 55 0.76
40 6 0.08
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (39 bp):
ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
Found at i:18185 original size:39 final size:38
Alignment explanation
Indices: 18062--18214 Score: 170
Period size: 39 Copynumber: 4.0 Consensus size: 38
18052 GCTGCTGGAA
*
18062 ACCGGTTTAACCGGTTTTC-AACCGGTTCTGACCGGTTTG
1 ACCGGTTTAACCGG--TTCGAACCGGTTCTGACCGGTCTG
*
18101 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
1 ACCGGTTT-AACCGGTTCGAACCGGTTCTGACCGGTCTG
18140 ACCGGTTTCAACCGGTTCGAACCGGTT-TGACCGGTCTG
1 ACCGGTTT-AACCGGTTCGAACCGGTTCTGACCGGTCTG
* * * *
18178 AGACGGTTTGACCGG-TCTGAGCCGGTT-TGATCGGTCT
1 A-CCGGTTTAACCGGTTC-GAACCGGTTCTGACCGGTCT
18215 AACCCGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
37 2 0.02
38 36 0.34
39 61 0.58
40 6 0.06
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (38 bp):
ACCGGTTTAACCGGTTCGAACCGGTTCTGACCGGTCTG
Found at i:18226 original size:5 final size:5
Alignment explanation
Indices: 18216--18267 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
18206 GATCGGTCTA
* *
18216 ACCCG ACCCG ACCGTTG ACCCG ACCCG ACCCG ACCGTTG ACCCG ACCCG
1 ACCCG ACCCG ACC--CG ACCCG ACCCG ACCCG ACC--CG ACCCG ACCCG
18265 ACC
1 ACC
18268 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 31 0.79
7 8 0.21
ACGTcount: A:0.19, C:0.52, G:0.21, T:0.08
Consensus pattern (5 bp):
ACCCG
Found at i:18238 original size:17 final size:17
Alignment explanation
Indices: 18237--18274 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
18227 CCGTTGACCC
18237 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
18254 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
18271 GACC
1 GACC
18275 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:18244 original size:22 final size:22
Alignment explanation
Indices: 18216--18281 Score: 105
Period size: 22 Copynumber: 2.9 Consensus size: 22
18206 GATCGGTCTA
18216 ACCCGACCCGACCGTTGACCCG
1 ACCCGACCCGACCGTTGACCCG
18238 ACCCGACCCGACCGTTGACCCG
1 ACCCGACCCGACCGTTGACCCG
*
18260 ACCCGACCGTTGACCGTTGACC
1 ACCCGACC--CGACCGTTGACC
18282 GTTAACCGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.12
Consensus pattern (22 bp):
ACCCGACCCGACCGTTGACCCG
Found at i:18274 original size:7 final size:7
Alignment explanation
Indices: 18264--18294 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
18254 GACCCGACCC
18264 GACCGTT
1 GACCGTT
18271 GACCGTT
1 GACCGTT
18278 GACCGTT
1 GACCGTT
*
18285 AACCGTT
1 GACCGTT
18292 GAC
1 GAC
18295 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:27032 original size:8 final size:8
Alignment explanation
Indices: 27019--27059 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
27009 CTCATTTTCA
27019 GAGAATTT
1 GAGAATTT
27027 GAGAATTT
1 GAGAATTT
*
27035 -AGAGTTT
1 GAGAATTT
*
27042 GGGAATTT
1 GAGAATTT
27050 GAGAATTT
1 GAGAATTT
27058 GA
1 GA
27060 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:27511 original size:128 final size:128
Alignment explanation
Indices: 27130--27757 Score: 1195
Period size: 128 Copynumber: 4.9 Consensus size: 128
27120 TAATCGGAGT
*
27130 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
27195 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
27258 ACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
27322 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
27385 ACTATTCACATGAAGGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
27450 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
27513 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
27578 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *
27641 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
27706 CATTGCCCTATTATGTCACTCATGTCCCTTGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
27758 AATCAGGTAA
Statistics
Matches: 492, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
127 125 0.25
128 367 0.75
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:28228 original size:40 final size:41
Alignment explanation
Indices: 28178--28260 Score: 116
Period size: 40 Copynumber: 2.0 Consensus size: 41
28168 AATACTATAA
* *
28178 TTTATATTTTAAATTTAAA-TTTGAATAATATTATTTTTATT
1 TTTATATTTT-AATTTAAATTTTGAATAATATAATTTGTATT
*
28219 TTTAT-TTTTATTTTAAATTTTGAATAATATAATTTGTATT
1 TTTATATTTTAATTTAAATTTTGAATAATATAATTTGTATT
28259 TT
1 TT
28261 AAAAACATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 7 0.18
40 26 0.68
41 5 0.13
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.63
Consensus pattern (41 bp):
TTTATATTTTAATTTAAATTTTGAATAATATAATTTGTATT
Found at i:28233 original size:5 final size:6
Alignment explanation
Indices: 28208--28232 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
28198 TTGAATAATA
28208 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
28233 AAATTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:28871 original size:21 final size:21
Alignment explanation
Indices: 28783--28876 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
28773 TATGGTATAA
* *
28783 AACCCTCCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
* *
28804 AA-CATGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
28825 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
28846 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
28867 AACCCTGCGG
1 AACCCTGCGG
28877 AGATGGCATA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.92
22 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:28906 original size:21 final size:21
Alignment explanation
Indices: 28880--28927 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
28870 CCTGCGGAGA
*
28880 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
28901 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
28922 GGGCAT
1 TGGCAT
28928 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:30691 original size:30 final size:31
Alignment explanation
Indices: 30652--30726 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
30642 TTAATAATTC
* * *
30652 TAAATAAATAATATATAAAT-ATTATTTTAA
1 TAAAAAAATAATATATAAATAAATATATTAA
* *
30682 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATATATAAATAAATATATTAA
30713 TATAAAAAATAATA
1 TA-AAAAAATAATA
30727 ACTATTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 17 0.45
31 10 0.26
32 11 0.29
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAAAAATAATATATAAATAAATATATTAA
Found at i:30691 original size:34 final size:33
Alignment explanation
Indices: 30653--30724 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
30643 TAATAATTCT
*
30653 AAATAAATA-ATATATAAATATTATTTTAATA-AAA
1 AAATAAATATATACATAAATA-TA--TTAATATAAA
*
30687 AAAT-AATATTTACATAAATATATTAATATAAA
1 AAATAAATATATACATAAATATATTAATATAAA
30719 AAATAA
1 AAATAA
30725 TAACTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
31 6 0.18
32 7 0.21
33 7 0.21
34 13 0.39
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAAATATATACATAAATATATTAATATAAA
Found at i:30753 original size:32 final size:34
Alignment explanation
Indices: 30681--30756 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
30671 TATTATTTTA
* *
30681 ATAAAAA-AATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAATATACTAAC
30714 ATAAAAAATAATAACTATTTA-A-AAA-ATACTAAC
1 AT-AAAAATAATAA-TATTTACATAAATATACTAAC
30747 ATAAAAATAA
1 ATAAAAATAA
30757 ATTTCTTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 8 0.21
33 10 0.26
34 8 0.21
35 6 0.16
36 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAATATACTAAC
Found at i:33788 original size:23 final size:24
Alignment explanation
Indices: 33759--33817 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
33749 CGAGTTCATT
* *
33759 AAAAAATATTTTTTTAAA-AAATA
1 AAAAAATATTTTATAAAACAAATA
*
33782 AAAAAATAAATTTATAAAATCAAATA
1 AAAAAAT-ATTTTATAAAA-CAAATA
33808 AAAAAATATT
1 AAAAAATATT
33818 CGATGGAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 7 0.24
24 8 0.28
25 2 0.07
26 12 0.41
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAAATATTTTATAAAACAAATA
Found at i:34935 original size:17 final size:20
Alignment explanation
Indices: 34900--34939 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
34890 AATTTATTAA
34900 TTTTTATTTGTTTATAATAT
1 TTTTTATTTGTTTATAATAT
34920 TTTTTA-TT-TTTA-AATAT
1 TTTTTATTTGTTTATAATAT
34937 TTT
1 TTT
34940 AGATGGCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 2 0.10
20 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTTGTTTATAATAT
Found at i:37021 original size:12 final size:12
Alignment explanation
Indices: 37004--37034 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36994 GAACATTTCA
37004 AAATTTATGGAC
1 AAATTTATGGAC
37016 AAATTTATGGAC
1 AAATTTATGGAC
*
37028 CAATTTA
1 AAATTTA
37035 AAATAAGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (12 bp):
AAATTTATGGAC
Found at i:39121 original size:19 final size:18
Alignment explanation
Indices: 39081--39123 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
39071 TAAATAAATA
**
39081 AAAATTATCAGCTTTGGG
1 AAAATTATCAAATTTGGG
*
39099 AAAATTATCAAATTTAGGT
1 AAAATTATCAAATTT-GGG
39118 AAAATT
1 AAAATT
39124 GTGACAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (18 bp):
AAAATTATCAAATTTGGG
Found at i:42190 original size:13 final size:13
Alignment explanation
Indices: 42172--42203 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
42162 TTCAATGATC
42172 ATAAATAATTTTA
1 ATAAATAATTTTA
42185 ATAAATAATTTTA
1 ATAAATAATTTTA
42198 ATAAAT
1 ATAAAT
42204 CAAGCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAATAATTTTA
Found at i:42424 original size:15 final size:15
Alignment explanation
Indices: 42404--42443 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
42394 GTGCATCATT
42404 AATTTAATTTTTAAA
1 AATTTAATTTTTAAA
*
42419 AATTTAAAATTTTAAA
1 AATTT-AATTTTTAAA
42435 AGATTTAAT
1 A-ATTTAAT
42444 GTATAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AATTTAATTTTTAAA
Found at i:45660 original size:20 final size:20
Alignment explanation
Indices: 45635--45672 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45625 CACATGTTAA
*
45635 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATCCACTGT
45655 AGAATGCATCGATCCACT
1 AGAATGCATCGATCCACT
45673 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATCCACTGT
Found at i:49744 original size:75 final size:75
Alignment explanation
Indices: 49660--50097 Score: 255
Period size: 73 Copynumber: 5.9 Consensus size: 75
49650 TTCTGAAAAT
*
49660 AAAATATTTTAAAAAAAATTTTATATTATATGTTTTCAAAAAACATTTTCAAAAATTATATTATA
1 AAAATATTTTAAAAAAAATATTATATTATATGTTTTCAAAAAACATTTTCAAAAATTATATTATA
49725 TATGTTTTCA
66 TATGTTTTCA
*** ** *
49735 AAAATATTTT-AAAACTGTA-TAT-TATATATGTTTTC-AAAAATGTTTTCAAAACTCTATATTA
1 AAAATATTTTAAAAAAAATATTATAT-TATATGTTTTCAAAAAACATTTTCAAAAAT-TATATTA
*
49796 TATAAGTTTTC-
64 TATATGTTTTCA
*** * * **
49807 AAAATATTTTCAAAACGTATATTATATATATATATATTC--AAAATGTTTTCAAAACTATATATA
1 AAAATATTTT-AAAAAAAATATTATAT-TATATGTTTTCAAAAAACATTTTCAAAA--AT-TATA
*
49870 TTATATATTTTTTCA
61 TTATATATGTTTTCA
* * * * * * *
49885 AAAATATTTTCAAAACTATATATTATA-TATATATTTTCAAAAATCATTTGC--AAACTATATAA
1 AAAATATTTT-AAAA-AAAATATTATATTATATGTTTTCAAAAAACATTTTCAAAAATTATATTA
* *
49947 TATTTTTTTTCA
64 TATATGTTTTCA
* ** * * * * *
49959 AAAATCATTTTCAAAACTATATAATA-TATA-GATTTTTAGAAACCGATTTTTAAACAA-TATA-
1 AAAAT-ATTTTAAAAAAAATATTATATTATATG-TTTTCAAAAAAC-ATTTTCAAA-AATTATAT
50020 T-TATATGTTTTCA
62 TATATATGTTTTCA
*** ** * * * *
50033 AAACCGTTTTCTAAAAATTA-TATATTATAT-TTTT-TAAAAATATTTTCAAAAATTATACTATA
1 AAAATATTTTAAAAAAAATATTATATTATATGTTTTCAAAAAACATTTTCAAAAATTATATTATA
50095 TAT
66 TAT
50098 ATATATATAT
Statistics
Matches: 287, Mismatches: 53, Indels: 49
0.74 0.14 0.13
Matches are distributed among these distances:
69 2 0.01
70 12 0.04
71 4 0.01
72 38 0.13
73 66 0.23
74 53 0.18
75 34 0.12
76 16 0.06
77 31 0.11
78 15 0.05
79 16 0.06
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (75 bp):
AAAATATTTTAAAAAAAATATTATATTATATGTTTTCAAAAAACATTTTCAAAAATTATATTATA
TATGTTTTCA
Found at i:49779 original size:12 final size:12
Alignment explanation
Indices: 49726--49785 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
49716 TATATTATAT
49726 ATGTTTTCAAAA
1 ATGTTTTCAAAA
*
49738 ATATTTT-AAAA
1 ATGTTTTCAAAA
* * *
49749 CTGTATATT-ATAT
1 ATGT-T-TTCAAAA
49762 ATGTTTTCAAAA
1 ATGTTTTCAAAA
49774 ATGTTTTCAAAA
1 ATGTTTTCAAAA
49786 CTCTATATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
11 8 0.22
12 22 0.59
13 7 0.19
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:49847 original size:39 final size:38
Alignment explanation
Indices: 49681--50103 Score: 357
Period size: 36 Copynumber: 11.3 Consensus size: 38
49671 AAAAAAATTT
* * *
49681 TATAT-TATATGTTTTCAAAAAACATTTTCAAAAAT-TA
1 TATATATATATATTTTC-AAAAATATTTTCAAAACTATA
* *
49718 TAT-TATATATGTTTTCAAAAATATTTT-AAAACTGTA
1 TATATATATATATTTTCAAAAATATTTTCAAAACTATA
* * *
49754 TAT-TATATATGTTTTCAAAAATGTTTTCAAAACTCTA
1 TATATATATATATTTTCAAAAATATTTTCAAAACTATA
49791 TAT-TATATA-AGTTTTC-AAAATATTTTCAAAACGTATA
1 TATATATATATA-TTTTCAAAAATATTTTCAAAAC-TATA
* *
49828 TTATATATATATATATTC-AAAATGTTTTCAAAACTATA
1 -TATATATATATATTTTCAAAAATATTTTCAAAACTATA
*
49866 TATATTATATATTTTTTCAAAAATATTTTCAAAACTATA
1 TATA-TATATATATTTTCAAAAATATTTTCAAAACTATA
*
49905 TATTATATATATATTTTCAAAAATCATTTGC-AAACTATA
1 TA-TATATATATATTTTCAAAAAT-ATTTTCAAAACTATA
*
49944 TA-ATAT-T-TTTTTTCAAAAATCATTTTCAAAACTATA
1 TATATATATATATTTTCAAAAAT-ATTTTCAAAACTATA
* * ** *
49980 TA-ATATATAGATTTTTAGAAACCGATTTT-TAAAC-A-A
1 TATATATATATATTTTCA-AAA-ATATTTTCAAAACTATA
* *** *
50016 TATAT-TATATGTTTTCAAAACCGTTTTCTAAAAAT-TA
1 TATATATATATATTTTCAAAAATATTTTC-AAAACTATA
* *
50053 TATAT-TATAT-TTTTTAAAAATATTTTCAAAAATTATA
1 TATATATATATATTTTCAAAAATATTTTC-AAAACTATA
50090 CTATATATATATAT
1 -TATATATATATAT
50104 ATATATATAT
Statistics
Matches: 325, Mismatches: 35, Indels: 49
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.02
35 26 0.08
36 102 0.31
37 64 0.20
38 32 0.10
39 87 0.27
40 9 0.03
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (38 bp):
TATATATATATATTTTCAAAAATATTTTCAAAACTATA
Found at i:50098 original size:2 final size:2
Alignment explanation
Indices: 50086--50122 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
50076 TTTCAAAAAT
50086 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50123 AATAAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:58331 original size:175 final size:175
Alignment explanation
Indices: 58040--58392 Score: 706
Period size: 175 Copynumber: 2.0 Consensus size: 175
58030 ATGAGTGGGC
58040 TTCGTTGTGCCAGTTCAGACAGTGAATCGGTTTGACTAACCCGATCTTGAACTTCTGATTGAACT
1 TTCGTTGTGCCAGTTCAGACAGTGAATCGGTTTGACTAACCCGATCTTGAACTTCTGATTGAACT
58105 TATTAACCCGTTGACTTTGACCGACTCGTAGACCGTTGATAGTTGACTTTGTCTGTTGACTTTGA
66 TATTAACCCGTTGACTTTGACCGACTCGTAGACCGTTGATAGTTGACTTTGTCTGTTGACTTTGA
58170 CCTTTTACTTTTTTCGGAGACCCTTACCTTTTATGTTTTTTGACG
131 CCTTTTACTTTTTTCGGAGACCCTTACCTTTTATGTTTTTTGACG
58215 TTCGTTGTGCCAGTTCAGACAGTGAATCGGTTTGACTAACCCGATCTTGAACTTCTGATTGAACT
1 TTCGTTGTGCCAGTTCAGACAGTGAATCGGTTTGACTAACCCGATCTTGAACTTCTGATTGAACT
58280 TATTAACCCGTTGACTTTGACCGACTCGTAGACCGTTGATAGTTGACTTTGTCTGTTGACTTTGA
66 TATTAACCCGTTGACTTTGACCGACTCGTAGACCGTTGATAGTTGACTTTGTCTGTTGACTTTGA
58345 CCTTTTACTTTTTTCGGAGACCCTTACCTTTTATGTTTTTTGACG
131 CCTTTTACTTTTTTCGGAGACCCTTACCTTTTATGTTTTTTGACG
58390 TTC
1 TTC
58393 TGAGTTCGTC
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 178 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (175 bp):
TTCGTTGTGCCAGTTCAGACAGTGAATCGGTTTGACTAACCCGATCTTGAACTTCTGATTGAACT
TATTAACCCGTTGACTTTGACCGACTCGTAGACCGTTGATAGTTGACTTTGTCTGTTGACTTTGA
CCTTTTACTTTTTTCGGAGACCCTTACCTTTTATGTTTTTTGACG
Found at i:62645 original size:21 final size:21
Alignment explanation
Indices: 62577--62637 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
62567 AGACGAACTA
62577 CCTGCTGTAGAGGCAGCAGGT
1 CCTGCTGTAGAGGCAGCAGGT
62598 CCTGCTGTAGAGGCAGCAGGT
1 CCTGCTGTAGAGGCAGCAGGT
62619 CCTGCTGTAGAGGCAGCAG
1 CCTGCTGTAGAGGCAGCAG
62638 ATTCTGCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.18
Consensus pattern (21 bp):
CCTGCTGTAGAGGCAGCAGGT
Found at i:67531 original size:15 final size:16
Alignment explanation
Indices: 67493--67533 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
67483 ACAGAGCATC
*
67493 TGAATCATTCAACATT
1 TGAATCATTCAACACT
*
67509 TGAATCATTCAACGCT
1 TGAATCATTCAACACT
67525 T-AATCATTC
1 TGAATCATTC
67534 TGAACTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:68442 original size:16 final size:16
Alignment explanation
Indices: 68406--68443 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
68396 CCACTACCTA
*
68406 ACTAAAAACGTACCCT
1 ACTAGAAACGTACCCT
68422 ACTAGAAACGTACCCT
1 ACTAGAAACGTACCCT
68438 ACTAGA
1 ACTAGA
68444 CCCGCATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (16 bp):
ACTAGAAACGTACCCT
Found at i:73510 original size:84 final size:85
Alignment explanation
Indices: 73382--73536 Score: 240
Period size: 84 Copynumber: 1.8 Consensus size: 85
73372 GGAAAGTCTC
** *
73382 TTTTGCCTTTAATGGCATTTAGAAAAATTGTTTCTTTCTTTAGTTTCATCGCTGCATTTGACTTC
1 TTTTGCCTTTAATGGCATTTAGAAAAATTGTTTCCATCTTTAGTTTCATCGCTGCATTTGACCTC
73447 ACTCTAATGGAATGATTCCA
66 ACTCTAATGGAATGATTCCA
* * *
73467 TTTTGCCTTTAATGGTATTTA-CAAAATTGTTTCCATCTTTAGTTTCATTGCTGCATTTGACCTC
1 TTTTGCCTTTAATGGCATTTAGAAAAATTGTTTCCATCTTTAGTTTCATCGCTGCATTTGACCTC
*
73531 ATTCTA
66 ACTCTA
73537 TCTGTATTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 43 0.68
85 20 0.32
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (85 bp):
TTTTGCCTTTAATGGCATTTAGAAAAATTGTTTCCATCTTTAGTTTCATCGCTGCATTTGACCTC
ACTCTAATGGAATGATTCCA
Found at i:92664 original size:17 final size:16
Alignment explanation
Indices: 92642--92673 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
92632 TTAAAGCTCG
92642 AAAAAAAAACTCTAAAT
1 AAAAAAAAA-TCTAAAT
92659 AAAAAAAAATCTAAA
1 AAAAAAAAATCTAAA
92674 ACTACACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAAAAATCTAAAT
Found at i:92986 original size:12 final size:12
Alignment explanation
Indices: 92971--92996 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92961 TAACCGTGAA
92971 TATCTGTTGACT
1 TATCTGTTGACT
92983 TATCTGTTGACT
1 TATCTGTTGACT
92995 TA
1 TA
92997 AGGCTTAAGT
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:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (12 bp):
TATCTGTTGACT
Found at i:107829 original size:21 final size:21
Alignment explanation
Indices: 107803--107843 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
107793 GACTATCACA
107803 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTTCCAAATTCGCG
*
107824 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTTCCAAATTCGC
107844 AATGCGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCG
Found at i:107849 original size:21 final size:21
Alignment explanation
Indices: 107804--107850 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
107794 ACTATCACAT
**
107804 TGCGATTTTCCAAATTCGCGT
1 TGCGATTTTCCAAATTCGCAA
*
107825 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTTCCAAATTCGCAA
107846 TGCGA
1 TGCGA
107851 ATACGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TGCGATTTTCCAAATTCGCAA
Found at i:107865 original size:20 final size:20
Alignment explanation
Indices: 107840--107933 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
107830 TTTTCCTAAT
107840 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** ** *
107860 TCGCAACACGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
107881 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
107901 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
107921 TCGCAACGCGAAT
1 TCGCAATGCGAAT
107934 CTGACTATCG
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:108154 original size:22 final size:21
Alignment explanation
Indices: 108129--108194 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
108119 GGCGACATCC
108129 GTCCCTATCTCCGACGAAATCA
1 GTCCC-ATCTCCGACGAAATCA
* *
108151 GTCCCCATCTCCGACGATATTA
1 GT-CCCATCTCCGACGAAATCA
*
108173 GTCTCCATCTCCGGCGAAATCA
1 GTC-CCATCTCCGACGAAATCA
108195 TTCACAGTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.89
23 3 0.08
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.24
Consensus pattern (21 bp):
GTCCCATCTCCGACGAAATCA
Found at i:108570 original size:20 final size:20
Alignment explanation
Indices: 108527--108571 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
108517 AATGTGATTC
* * *
108527 TTTCGTGTTGCGATTTTCAT
1 TTTCATGTTGCGATTTTAAG
108547 TTTCATGTTGCGATTTTAAG
1 TTTCATGTTGCGATTTTAAG
108567 TTTCA
1 TTTCA
108572 GAAACTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTCATGTTGCGATTTTAAG
Found at i:110304 original size:22 final size:21
Alignment explanation
Indices: 110274--110314 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
110264 AAATTTACTT
*
110274 GTAATTTCACTTAGATTGCTTA
1 GTAAATTCA-TTAGATTGCTTA
*
110296 GTAAATTCATTCGATTGCT
1 GTAAATTCATTAGATTGCT
110315 GCCAATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTCATTAGATTGCTTA
Found at i:110459 original size:20 final size:20
Alignment explanation
Indices: 110434--110566 Score: 96
Period size: 20 Copynumber: 7.3 Consensus size: 20
110424 AGAATAGTTT
110434 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
110454 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
110474 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
110490 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
110507 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
110523 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
110541 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
110561 ACTATC
1 ACTATC
110567 ACAACGAAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
14 14 0.15
16 10 0.11
17 8 0.09
18 5 0.05
19 7 0.08
20 49 0.53
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:110514 original size:33 final size:33
Alignment explanation
Indices: 110457--110537 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
110447 GAAAATGACT
** * * *
110457 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
*
110491 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
110524 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
110538 ATGACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:110587 original size:87 final size:87
Alignment explanation
Indices: 110437--110602 Score: 269
Period size: 87 Copynumber: 1.9 Consensus size: 87
110427 ATAGTTTACT
* * *
110437 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCACAACGAAAGAATCGCAATGCG
110502 AAATGAAAATCGCAACAACAAA
66 AAATGAAAATCGCAACAACAAA
* ** *
110524 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCACAACGAAAGAATCGTAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCACAACGAAAGAATCGCAATGCG
110589 AAATGAAAATCGCA
66 AAATGAAAATCGCA
110603 TTGCGATTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.16
Consensus pattern (87 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCACAACGAAAGAATCGCAATGCG
AAATGAAAATCGCAACAACAAA
Found at i:110713 original size:20 final size:20
Alignment explanation
Indices: 110615--110703 Score: 151
Period size: 20 Copynumber: 4.5 Consensus size: 20
110605 GCGATTCTCT
**
110615 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
110635 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
110655 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
110675 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
110695 CGTTGCGAT
1 CGTTGCGAT
110704 TTTAAGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:111278 original size:21 final size:21
Alignment explanation
Indices: 111183--111290 Score: 85
Period size: 21 Copynumber: 5.1 Consensus size: 21
111173 GCCCGACTCA
111183 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
**
111204 TCCCCT-ATCGTTCAAGAGGCC
1 -CCTGTCATCGTTCAAGAGGCC
* ** *
111225 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
* *
111246 CCT-CCTACCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* * *
111267 ACTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
111288 CCT
1 CCT
111291 CCCAATATTC
Statistics
Matches: 65, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
20 4 0.06
21 57 0.88
22 4 0.06
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:111291 original size:42 final size:42
Alignment explanation
Indices: 111184--111292 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
111174 CCCGACTCAC
* * *
111184 CTGTCATCGTTCAAGAGG-CCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCC-CTCCTACCGTTCAAGAGGCCA
* **
111226 CTATCATCCCTCAAGA-GTCCCCTCCTACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCCTACCGTTCAAGAGGCCA
*
111268 CTGTCATCGTTGAAGAGGTCCCTCC
1 CTGTCATCGTTCAAGAGGTCCCTCC
111293 CAATATTCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 49 0.91
43 4 0.07
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGTCCCTCCTACCGTTCAAGAGGCCA
Found at i:112692 original size:14 final size:14
Alignment explanation
Indices: 112673--112708 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
112663 ATTGTTTAAT
112673 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
112687 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
112701 TGATTTGT
1 TGATTTGT
112709 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:112835 original size:20 final size:20
Alignment explanation
Indices: 112810--112862 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
112800 ATGCAAAACA
112810 GACTATCGCAACGCGGAAAT
1 GACTATCGCAACGCGGAAAT
*
112830 GACTATCGCAATGCGGAAAT
1 GACTATCGCAACGCGGAAAT
112850 GACTATCGCAACG
1 GACTATCGCAACG
112863 AGAGAATCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.17
Consensus pattern (20 bp):
GACTATCGCAACGCGGAAAT
Found at i:112934 original size:34 final size:34
Alignment explanation
Indices: 112891--112986 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
112881 ACTAAATTCG
112891 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
112925 CGTTGCGATTTTCA-TTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** *
112958 CGTTGCGATAGTCATTTCCGCATTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
112987 AGTCAATTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:112985 original size:20 final size:20
Alignment explanation
Indices: 112958--113051 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
112948 GCGATTCTCT
112958 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
112978 CATTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
112998 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
113018 TGTTGTGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
113038 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
113052 AATGAATGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:116382 original size:20 final size:20
Alignment explanation
Indices: 116321--116387 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
116311 AAATTCAGTA
*
116321 TTGCGATAGTCAGAATCTCA
1 TTGCGATAGTCAGAATCTCG
116341 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
116361 TTGCGATAGTCAGATTCACG
1 TTGCGATAGTCAGAATCTCG
116381 TTGCGAT
1 TTGCGAT
116388 TTACAGATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:116394 original size:20 final size:20
Alignment explanation
Indices: 116381--116527 Score: 206
Period size: 20 Copynumber: 7.3 Consensus size: 20
116371 CAGATTCACG
116381 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
116401 TTGCGATTTACGTATTCTCA
1 TTGCGATTTACGTATTCGCA
116421 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
116441 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
116461 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** * *
116481 TTGCGATTTTCCAAATTCACG
1 TTGCGA-TTTACGTATTCGCA
116502 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
116522 TTGCGA
1 TTGCGA
116528 ATTAGGAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
19 1 0.01
20 96 0.86
21 14 0.13
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:116405 original size:40 final size:38
Alignment explanation
Indices: 116361--116527 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 38
116351 CAGAATCTCG
*
116361 TTGCGATAGTCAGATTCACGTTGCGATTTACAG-ATTCGCA
1 TTGCGAT--TCAGATTCACATTGCGATTTAC-GTATTCGCA
* *
116401 TTGCGATTTACGTATTCTCATTGCGATTTACGTATTCGCA
1 TTGCGATTCA-G-ATTCACATTGCGATTTACGTATTCGCA
* * *
116441 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTCA-G-ATTCACATTGCGATTTACGTATTCGCA
* *
116481 TTGCGATTTTCCAAATTCACGTTGCGATTTACGTATTCGCA
1 TTGCGA--TT-CAGATTCACATTGCGATTTACGTATTCGCA
116522 TTGCGA
1 TTGCGA
116528 ATTAGGAAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 74 0.67
41 30 0.27
42 2 0.02
43 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (38 bp):
TTGCGATTCAGATTCACATTGCGATTTACGTATTCGCA
Found at i:116425 original size:60 final size:58
Alignment explanation
Indices: 116354--116527 Score: 206
Period size: 60 Copynumber: 2.9 Consensus size: 58
116344 CGATAGTCAG
*
116354 AATCTCGTTGCGATAGTCAGATTCACGTTGCGATTTACAG-ATTCGCATTGCGATTTACGT
1 AATCTCATTGCGAT--TCAGATTCACGTTGCGATTTAC-GTATTCGCATTGCGATTTACGT
* * * *
116414 ATTCTCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 AATCTCATTGCGATTCA-G-ATTCACGTTGCGATTTACGTATTCGCATTGCGATTTACGT
* *
116474 AATCGCATTGCGATTTTCCAAATTCACGTTGCGATTTACGTATTCGCATTGCGA
1 AATCTCATTGCGA--TT-CAGATTCACGTTGCGATTTACGTATTCGCATTGCGA
116528 ATTAGGAAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
58 2 0.02
59 2 0.02
60 59 0.61
61 31 0.32
62 2 0.02
63 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (58 bp):
AATCTCATTGCGATTCAGATTCACGTTGCGATTTACGTATTCGCATTGCGATTTACGT
Found at i:116548 original size:21 final size:21
Alignment explanation
Indices: 116524--116564 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
116514 TATTCGCATT
116524 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
116545 GCGAATTTGGAAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
116565 TTCGATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:118609 original size:6 final size:6
Alignment explanation
Indices: 118598--118627 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
118588 GCAACTGTTG
118598 AGCCTC AGCCTC AGCCTC AGCCTC AGCCTC
1 AGCCTC AGCCTC AGCCTC AGCCTC AGCCTC
118628 GTCTCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
AGCCTC
Found at i:120494 original size:2 final size:2
Alignment explanation
Indices: 120487--120512 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
120477 AACTAGATCA
120487 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
120513 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120831 original size:32 final size:31
Alignment explanation
Indices: 120793--120894 Score: 98
Period size: 32 Copynumber: 3.2 Consensus size: 31
120783 CTGGGTAAAT
120793 TTAATGAATATTTTGTAATAATTTAACAAAAA
1 TTAATGAATATTTTGTAATAATTTAA-AAAAA
* * * *
120825 TTAATGACTATTTTATAATAATTTGATAACAA
1 TTAATGAATATTTTGTAATAATTT-AAAAAAA
* * * *
120857 TTAATG-ATCAATTTGTAACAATTCAAAAAAT
1 TTAATGAAT-ATTTTGTAATAATTTAAAAAAA
120888 TTAATGA
1 TTAATGA
120895 CCGTTTTATA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
31 11 0.20
32 43 0.78
33 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (31 bp):
TTAATGAATATTTTGTAATAATTTAAAAAAA
Found at i:126366 original size:2 final size:2
Alignment explanation
Indices: 126359--126385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
126349 CTTTTAAAAC
126359 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
126386 CCCCCATCCG
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:126581 original size:24 final size:24
Alignment explanation
Indices: 126554--126653 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
126544 GATATCAAAA
*
126554 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
126578 ATCAGAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
126602 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
126626 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
126650 ATCA
1 ATCA
126654 GATAAAATAT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:126653 original size:48 final size:48
Alignment explanation
Indices: 126547--126655 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
126537 AAACGGAGAT
* * * * *
126547 ATCAAAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
126595 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
126643 ATCAGAAATCAGA
1 ATCAGAAATCAGA
126656 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:129152 original size:18 final size:18
Alignment explanation
Indices: 129129--129205 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
129119 CAACGGTCAA
129129 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
129147 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
129160 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
129178 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
129196 CGGGTCGGGT
1 CGGGTCGGGT
129206 TGTGACCGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.12, C:0.21, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:129160 original size:31 final size:31
Alignment explanation
Indices: 129123--129201 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
129113 TCCGGTCAAC
129123 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
129154 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
129185 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
129202 GGGTTGTGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.14, C:0.22, G:0.48, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:129201 original size:13 final size:13
Alignment explanation
Indices: 129123--129183 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
129113 TCCGGTCAAC
129123 GGTCAACGGGTCG
1 GGTCAACGGGTCG
129136 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
129154 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
129167 GGTAAACGGGTCG
1 GGTCAACGGGTCG
129180 GGTC
1 GGTC
129184 GGGTCAACGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 28 0.68
18 13 0.32
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:133993 original size:23 final size:23
Alignment explanation
Indices: 133967--134026 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
133957 ATCAAGTACA
*
133967 ATAATATATTAGGTAAAACTTAT
1 ATAATATAATAGGTAAAACTTAT
* ***
133990 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAAAACTTAT
*
134013 ATAATAAAATAGGT
1 ATAATATAATAGGT
134027 TAATTACTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAAAACTTAT
Found at i:134010 original size:87 final size:87
Alignment explanation
Indices: 133861--134120 Score: 403
Period size: 87 Copynumber: 3.0 Consensus size: 87
133851 TCATTTAATC
* * * *
133861 GGAAATATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGATATCGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
133926 ATAATAAAATATGTTAATTACT
66 ATAATAAAATATGTTAATTACT
* * **
133948 GGAAACATTATCAAGTACAATAATATATTAGGTAAAACTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
*
134013 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATATGTTAATTACT
* * *
134035 GGAAACATTATCAAGCACAAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGTGCTTA
1 GGAAACATTATCAAGCAC-AATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTA
134100 TATAATAAAATATGTTAATTA
65 TATAATAAAATATGTTAATTA
134121 TTTAATTTGT
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
87 95 0.61
88 60 0.39
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (87 bp):
GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATATGTTAATTACT
Found at i:134081 original size:23 final size:23
Alignment explanation
Indices: 134055--134104 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
134045 TCAAGCACAA
*
134055 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
134078 ATAACGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
134101 ATAA
1 ATAA
134105 TAAAATATGT
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:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:134111 original size:23 final size:23
Alignment explanation
Indices: 134055--134111 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
134045 TCAAGCACAA
* *
134055 ATAACATATTAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
** *
134078 ATAACGTAATAGGTAGTGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
*
134101 ATAATAAAATA
1 ATAACAAAATA
134112 TGTTAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCGCTTAT
Found at i:134524 original size:23 final size:23
Alignment explanation
Indices: 134498--134708 Score: 116
Period size: 23 Copynumber: 9.4 Consensus size: 23
134488 AACCTATTTT
134498 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATATTAC
* *
134521 ATTATATAAGTGTTACATATTAC
1 ATTATATAAGCGCTACATATTAC
* * *
134544 ATTATATAAGCGCTACCTAATAT
1 ATTATATAAGCGCTACATATTAC
* ** * * *
134567 GTTAT-TGTGCTTGATA-ATGTTTCC
1 ATTATATAAGC--GCTACAT-ATTAC
* *
134591 AATA-ATTAA-C-CT--AT-TT-T
1 ATTATA-TAAGCGCTACATATTAC
* **
134608 ATTATATAAGCGCTACCTATTTT
1 ATTATATAAGCGCTACATATTAC
**
134631 ATTATATAAGCGCTACATATTTT
1 ATTATATAAGCGCTACATATTAC
* * *
134654 ATTATATAAACGTTACCTATTAC
1 ATTATATAAGCGCTACATATTAC
*
134677 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACATATTAC
*
134700 ATCATATAA
1 ATTATATAA
134709 AATGATCGAT
Statistics
Matches: 143, Mismatches: 33, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
17 6 0.04
18 4 0.03
19 2 0.01
20 2 0.01
21 2 0.01
22 5 0.03
23 114 0.80
24 7 0.05
25 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.41
Consensus pattern (23 bp):
ATTATATAAGCGCTACATATTAC
Found at i:134648 original size:110 final size:110
Alignment explanation
Indices: 134464--134672 Score: 319
Period size: 110 Copynumber: 1.9 Consensus size: 110
134454 TATGTTGAAC
* *
134464 TGCTTGATAATGTTTCTAGTAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATATA
1 TGCTTGATAATGTTTCCAATAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATATA
* * *
134529 AGTGTTACATATTACATTATATAAGCGCTACCTAATATGTTATTG
66 AGCGCTACATATTACATTATATAAACGCTACCTAATATGTTATTG
* **
134574 TGCTTGATAATGTTTCCAATAATTAACCTATTTTATTATATAAGCGCTACCTATTTTATTATATA
1 TGCTTGATAATGTTTCCAATAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATATA
** *
134639 AGCGCTACATATTTTATTATATAAACGTTACCTA
66 AGCGCTACATATTACATTATATAAACGCTACCTA
134673 TTACATTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (110 bp):
TGCTTGATAATGTTTCCAATAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATATA
AGCGCTACATATTACATTATATAAACGCTACCTAATATGTTATTG
Found at i:134671 original size:46 final size:46
Alignment explanation
Indices: 134602--134697 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
134592 ATAATTAACC
* **
134602 TATTTTATTATATAAGCGCTACCTATTTTATTATATAAGCGCTACA
1 TATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACA
* *
134648 TATTTTATTATATAAACGTTACCTATTACATTATATAAGCGCTACC
1 TATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACA
134694 TATT
1 TATT
134698 ACATCATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (46 bp):
TATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACA
Found at i:135625 original size:24 final size:22
Alignment explanation
Indices: 135581--135625 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
135571 TTTCACCAAA
*
135581 CCCTCTTCTCCTCCCTTTTGCT
1 CCCTCTTCTCCTCCCTCTTGCT
*
135603 CCCTCTCTCTCGCTCTCTCTTGC
1 CCCTCT-TCTC-CTCCCTCTTGC
135626 ATTTTTGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.00, C:0.51, G:0.07, T:0.42
Consensus pattern (22 bp):
CCCTCTTCTCCTCCCTCTTGCT
Found at i:147138 original size:22 final size:22
Alignment explanation
Indices: 147110--147211 Score: 131
Period size: 22 Copynumber: 4.8 Consensus size: 22
147100 GTCGAGGGTT
*
147110 TCCAGTGGTCCTTCGGGACATA
1 TCCAGTGGTCATTCGGGACATA
* *
147132 TCCAGTGGTCTTTCGGGAC--G
1 TCCAGTGGTCATTCGGGACATA
147152 T--AGTGGTCATTCGGGACATA
1 TCCAGTGGTCATTCGGGACATA
*
147172 TCTAGTGGTCATTCGGGACATA
1 TCCAGTGGTCATTCGGGACATA
*
147194 TCCAGTGGTCCTTCGGGA
1 TCCAGTGGTCATTCGGGA
147212 TAAATATTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.21
20 2 0.03
22 53 0.76
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (22 bp):
TCCAGTGGTCATTCGGGACATA
Found at i:147168 original size:40 final size:40
Alignment explanation
Indices: 147113--147190 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
147103 GAGGGTTTCC
* *
147113 AGTGGTCCTTCGGGACATATCCAGTGGTCTTTCGGGACGT
1 AGTGGTCATTCGGGACATATCCAGTGGTCATTCGGGACGT
*
147153 AGTGGTCATTCGGGACATATCTAGTGGTCATTCGGGAC
1 AGTGGTCATTCGGGACATATCCAGTGGTCATTCGGGAC
147191 ATATCCAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
AGTGGTCATTCGGGACATATCCAGTGGTCATTCGGGACGT
Found at i:148366 original size:21 final size:21
Alignment explanation
Indices: 148342--148381 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
148332 AAGACTTTAT
148342 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
148363 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
148382 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:152244 original size:22 final size:23
Alignment explanation
Indices: 152209--152265 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
152199 TAGCGCATGA
*
152209 GGTATCGA-ACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
152231 GGTACCGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
152254 GGTACCGATACC
1 GGTACCGATACC
152266 TTCCCCTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (23 bp):
GGTACCGATACCCCCTTTGAATG
Found at i:154580 original size:23 final size:23
Alignment explanation
Indices: 154536--154594 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
154526 ATTTAACAAA
*
154536 AAGGGGGAG-AA-GTATTAAAGT
1 AAGGGGGAGTAATTTATTAAAGT
*
154557 AAGGGGGAGTAATTTATTAGAGT
1 AAGGGGGAGTAATTTATTAAAGT
154580 AAGGGGGAGTAATTT
1 AAGGGGGAGTAATTT
154595 CAAAACTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 9 0.26
22 2 0.06
23 23 0.68
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.25
Consensus pattern (23 bp):
AAGGGGGAGTAATTTATTAAAGT
Found at i:155126 original size:21 final size:21
Alignment explanation
Indices: 155100--155174 Score: 141
Period size: 21 Copynumber: 3.6 Consensus size: 21
155090 TACACTGCAT
*
155100 GTACCGATACTCTATGAAGGG
1 GTACCGATACCCTATGAAGGG
155121 GTACCGATACCCTATGAAGGG
1 GTACCGATACCCTATGAAGGG
155142 GTACCGATACCCTATGAAGGG
1 GTACCGATACCCTATGAAGGG
155163 GTACCGATACCC
1 GTACCGATACCC
155175 CCACGCTCCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (21 bp):
GTACCGATACCCTATGAAGGG
Found at i:164140 original size:2 final size:2
Alignment explanation
Indices: 164133--164166 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
164123 ACGCCAACTT
164133 AG AG AG 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 AG AG AG
164167 GATGTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:164456 original size:20 final size:20
Alignment explanation
Indices: 164431--164472 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
164421 TTTTTTATTG
*
164431 TATGTCTAAGTAATATAGTT
1 TATGTCTAAGTAACATAGTT
164451 TATGTCTAAGTAACATAGTT
1 TATGTCTAAGTAACATAGTT
164471 TA
1 TA
164473 ATTATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (20 bp):
TATGTCTAAGTAACATAGTT
Found at i:173107 original size:28 final size:28
Alignment explanation
Indices: 173067--173122 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
173057 GTGGCACCTG
173067 GCCTTTATTACAAGCTCTTCTCTTTTGT
1 GCCTTTATTACAAGCTCTTCTCTTTTGT
173095 GCCTTTATTACAAGCTCTTCTCTTTTGT
1 GCCTTTATTACAAGCTCTTCTCTTTTGT
173123 TTCTGCCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.50
Consensus pattern (28 bp):
GCCTTTATTACAAGCTCTTCTCTTTTGT
Found at i:177073 original size:15 final size:16
Alignment explanation
Indices: 177035--177075 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
177025 AAGCTGAGAG
*
177035 GAGTTGAAGAGATCGA
1 GAGTTGAAGAGATCCA
*
177051 GCGTTGAAGAGATCCA
1 GAGTTGAAGAGATCCA
177067 -AGTTGAAGA
1 GAGTTGAAGA
177076 AGGTTGACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (16 bp):
GAGTTGAAGAGATCCA
Found at i:179941 original size:21 final size:21
Alignment explanation
Indices: 179917--179960 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
179907 CATGACATCT
* *
179917 ATAACAACAAACTTTAATTCC
1 ATAACAACAAACTTCAAATCC
*
179938 ATAACAACCAACTTCAAATCC
1 ATAACAACAAACTTCAAATCC
179959 AT
1 AT
179961 TATAGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAACAACAAACTTCAAATCC
Found at i:185682 original size:42 final size:42
Alignment explanation
Indices: 185635--185780 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
185625 TGCCATTAAG
*
185635 GTACATGACTATTGCGACGTTTATTACAAAAAA-ACCACTAAA
1 GTACATGACTATTGCGGCGTTTATTA-AAAAAACACCACTAAA
* * * *
185677 TTACATGATTATTGTGGCGTTTATTAAAAAAACGCCACTAAA
1 GTACATGACTATTGCGGCGTTTATTAAAAAAACACCACTAAA
* ***
185719 GTACATGACTATTGCGGCG-TT-TGAAAAAAATGTCACTAAA
1 GTACATGACTATTGCGGCGTTTATTAAAAAAACACCACTAAA
* * *
185759 GTACAAGTCTATAGCGGCGTTT
1 GTACATGACTATTGCGGCGTTT
185781 GTTTAGAAAC
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
40 32 0.36
41 10 0.11
42 46 0.52
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (42 bp):
GTACATGACTATTGCGGCGTTTATTAAAAAAACACCACTAAA
Found at i:186080 original size:41 final size:41
Alignment explanation
Indices: 186035--186206 Score: 145
Period size: 41 Copynumber: 4.2 Consensus size: 41
186025 CCTTATTATG
* *
186035 GCGTTTGTATACAAATACCGCTAAAGTGA-TTCTCTATTGCA
1 GCGTTTGTATAAAAATACCGCTAAAGT-ACTACTCTATTGCA
* * *
186076 GCGTTTCTATAAAAATGCCGCTAACGTACTACTCTATTGCA
1 GCGTTTGTATAAAAATACCGCTAAAGTACTACTCTATTGCA
* * * * * *
186117 TCGTTTGT-TGCAGAAATGCCACAAAAGTACTACTCTATTGCG
1 GCGTTTGTAT--AAAAATACCGCTAAAGTACTACTCTATTGCA
* * * *
186159 GTGTTTGTATAAAAACACCGCCAAAGTACT-CT-TAGTTGCG
1 GCGTTTGTATAAAAATACCGCTAAAGTACTACTCTA-TTGCA
186199 GCGTTTGT
1 GCGTTTGT
186207 TGAAAAAATG
Statistics
Matches: 106, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
39 2 0.02
40 16 0.15
41 55 0.52
42 32 0.30
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (41 bp):
GCGTTTGTATAAAAATACCGCTAAAGTACTACTCTATTGCA
Found at i:192821 original size:13 final size:13
Alignment explanation
Indices: 192803--192828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192793 GACACCTTTT
192803 GTATTTGCATTTG
1 GTATTTGCATTTG
192816 GTATTTGCATTTG
1 GTATTTGCATTTG
192829 CATTACATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
GTATTTGCATTTG
Found at i:197114 original size:42 final size:41
Alignment explanation
Indices: 197067--197162 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
197057 TAATTTAAGC
* * *
197067 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAAT
1 CCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGAT-AAAT
* * *
197109 CCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGT
1 CCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAAT
197150 CCTTCGGGCCATC
1 CCTTCGGGCCATC
197163 CATAAGACCT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 15 0.32
42 32 0.68
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (41 bp):
CCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAAT
Found at i:197459 original size:80 final size:80
Alignment explanation
Indices: 197291--197665 Score: 348
Period size: 80 Copynumber: 4.7 Consensus size: 80
197281 GTCCTTCGGG
* * * * * * *
197291 CCATCAATAAGTCTTTCGAGCATGATGATTAAGTTCTTCAGGCCATCT-TAAGCCTTCACGGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGCCTTCACCGAAG
* *
197355 AGTAGTGAAGTAAAC
66 AGTAGTGAAGCAAAT
* * *
197370 CCATCAGTAAGTCTTTTGAGCATGATGATTAAACCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGCCTTCACCGAAG
197435 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* * * * * * ** * *
197450 TCATTAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTC-AGCCATCAGTAAGTCTTTCGAGC-A
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAG-CCTTC-ACCGA
* **
197513 TGA-T-GATGAAGTC-CTT
64 AGAGTAG-TGAAG-CAAAT
* * * *
197529 CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTTTAAGCCTTTATC
1 ----CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGCCTTCACC
*
197594 GAAGAGTAGAGAAGCAAAT
62 GAAGAGTAGTGAAGCAAAT
* *
197613 CCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGTCATTTGTAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAG
197666 TCTTTCGAGC
Statistics
Matches: 233, Mismatches: 49, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
78 1 0.00
79 54 0.23
80 118 0.51
81 2 0.01
82 2 0.01
83 42 0.18
84 13 0.06
85 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (80 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGCCTTCACCGAAG
AGTAGTGAAGCAAAT
Found at i:197549 original size:42 final size:42
Alignment explanation
Indices: 197455--197574 Score: 206
Period size: 42 Copynumber: 2.9 Consensus size: 42
197445 CAAATTCATT
*
197455 AGTAAGTCTTTCGAGCATGATGATGAAGTCCTTC-AGCCATC
1 AGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATC
197496 AGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATC
1 AGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATC
* *
197538 AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 AGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGG
197575 TAATTTTTAA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 34 0.45
42 41 0.55
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
AGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATC
Found at i:197550 original size:20 final size:20
Alignment explanation
Indices: 197455--197553 Score: 78
Period size: 22 Copynumber: 4.8 Consensus size: 20
197445 CAAATTCATT
*
197455 AGTAAGTCTTTCGAG-CATG
1 AGTAAGTCTTTCGAGCCATC
*
197474 ATGATGAAGTCCTTC-AGCCATC
1 A-G-T-AAGTCTTTCGAGCCATC
*
197496 AGTAAGTCTTTCGAG-CATG
1 AGTAAGTCTTTCGAGCCATC
* *
197515 ATGATGAAGTCCTTCGGGCCATC
1 A-G-T-AAGTCTTTCGAGCCATC
197538 AGTAAGTCTTTCGAGC
1 AGTAAGTCTTTCGAGC
197554 ATGATGATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
19 13 0.21
20 16 0.26
21 6 0.10
22 23 0.37
23 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
AGTAAGTCTTTCGAGCCATC
Found at i:197573 original size:163 final size:163
Alignment explanation
Indices: 197370--197699 Score: 491
Period size: 163 Copynumber: 2.0 Consensus size: 163
197360 TGAAGTAAAC
*
197370 CCATCAGTAAGTCTTTTGAGCATGATGATTAAACCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAACCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
* * * * * *
197435 AGTAGTGAAGCAAATTCATTAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTC-AGCCATCAGT
66 AGTAGAGAAGCAAATCCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGAGCCATCAGT
*
197499 AAGTCTTTCGAGCATGATGATGAAGTCCTTCGGG
131 AAGTCTTTCGAGCAAGATGAT-AAGTCCTTCGGG
* * * *
197533 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTTTAAGCCTTTATCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAACCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
* * **
197598 AGTAGAGAAGCAAATCCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGTCATTTGT
66 AGTAGAGAAGCAAATCCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGAGCCATCAGT
*
197663 AAGTCTTTCGAGCAAGTTGATAAGTCCTTCGGG
131 AAGTCTTTCGAGCAAGATGATAAGTCCTTCGGG
197696 CCAT
1 CCAT
197700 TTTAAGCCTT
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 124 0.83
164 25 0.17
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (163 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAACCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
AGTAGAGAAGCAAATCCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGAGCCATCAGT
AAGTCTTTCGAGCAAGATGATAAGTCCTTCGGG
Found at i:197638 original size:122 final size:120
Alignment explanation
Indices: 197491--197709 Score: 321
Period size: 122 Copynumber: 1.8 Consensus size: 120
197481 AGTCCTTCAG
* * * *
197491 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 CCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAA
*
197556 GATGATTAAATCCTTCGGGTAATTTTTAAGCCTTTATCGAAGAGTAGAGAAGCAAAT
66 GATGA-TAAATCCTTCGGGCAA-TTTTAAGCCTTTATCGAAGAGTAGAGAAGCAAAT
* **
197613 CCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGCAA
1 CCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAA
* * *
197678 GTTGATAAGTCCTTCGGGCCATTTTAAGCCTT
66 GATGATAAATCCTTCGGGCAATTTTAAGCCTT
197710 CTCGGAATAG
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 11 0.13
121 13 0.15
122 62 0.72
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (120 bp):
CCATCAATAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAA
GATGATAAATCCTTCGGGCAATTTTAAGCCTTTATCGAAGAGTAGAGAAGCAAAT
Found at i:197684 original size:42 final size:40
Alignment explanation
Indices: 197620--197705 Score: 118
Period size: 42 Copynumber: 2.1 Consensus size: 40
197610 AATCCATCAA
* *
197620 TAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGTCATTT
1 TAAGTCTTTCGAGCAAGATGAT-AAATCCTTCGGGCCATTT
* *
197661 GTAAGTCTTTCGAGCAAGTTGATAAGTCCTTCGGGCCATTT
1 -TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATTT
197702 TAAG
1 TAAG
197706 CCTTCTCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 4 0.10
41 16 0.40
42 20 0.50
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (40 bp):
TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATTT
Found at i:197686 original size:21 final size:21
Alignment explanation
Indices: 197619--197693 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 21
197609 AAATCCATCA
* * *
197619 ATAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGAGCAAGTTG
* * *
197640 ATAAAATCCTTCGGGTC-ATTTG
1 AT-AAGTCCTTCGAG-CAAGTTG
*
197662 -TAAGTCTTTCGAGCAAGTTG
1 ATAAGTCCTTCGAGCAAGTTG
197682 ATAAGTCCTTCG
1 ATAAGTCCTTCG
197694 GGCCATTTTA
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
19 1 0.03
20 13 0.33
21 13 0.33
22 11 0.28
23 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (21 bp):
ATAAGTCCTTCGAGCAAGTTG
Found at i:198159 original size:53 final size:53
Alignment explanation
Indices: 198077--198436 Score: 409
Period size: 53 Copynumber: 6.8 Consensus size: 53
198067 AGAATCAAAC
* * * **
198077 CAGAAGATTATTCGAGTTCTATTCTCTGAAGCAAGAGGGAGCGAACCTATAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
*
198130 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * *
198183 TAGAAGATTATTCGAGTTATACTCCCTGAAGCAAGAGGGAGTGAACTCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* ** * * *
198236 CAGAAGATTGTTCGAGTTTTACTCTTTGAAGCAAGTGAGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
198289 CAGAAGATCGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGCT-GG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGG
** * * * ***
198342 TTGAAGATTGTTCGAGTTCTACTCCTTGAAGCAATAGGGAGCGAACCCATTTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCC-GTAGG
* *
198396 TAGAAGATTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGGGA
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGA
198437 ACAAACCTGT
Statistics
Matches: 259, Mismatches: 43, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
53 223 0.86
54 18 0.07
55 9 0.03
56 9 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:206666 original size:15 final size:17
Alignment explanation
Indices: 206642--206673 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
206632 AAGTTTAAAA
206642 TTTTATAAAT-TTATTT
1 TTTTATAAATGTTATTT
206658 TTTTA-AAATGTTATTT
1 TTTTATAAATGTTATTT
206674 CATAATACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTATAAATGTTATTT
Found at i:211015 original size:22 final size:22
Alignment explanation
Indices: 210990--211035 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
210980 AAAGGAAAAT
*
210990 AATTTGAA-TTTATAAATATAAA
1 AATTT-AATTTTAAAAATATAAA
211012 AATTTAATTTTAAAAATATAAA
1 AATTTAATTTTAAAAATATAAA
211034 AA
1 AA
211036 ATGAGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AATTTAATTTTAAAAATATAAA
Found at i:212696 original size:44 final size:43
Alignment explanation
Indices: 212652--212735 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
212642 GAAATCTTTA
212652 ATTTAA-AATTT-TAATAATA-T-TTAATAATGATTTGATAAT
1 ATTTAATAATTTATAATAATATTATTAATAATGATTTGATAAT
*
212691 ATTTAATGATTTGATAATAATATTATTAATAATGATTTGATAAT
1 ATTTAATAATTT-ATAATAATATTATTAATAATGATTTGATAAT
212735 A
1 A
212736 ATATTATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
39 6 0.15
40 4 0.10
42 8 0.21
43 1 0.03
44 20 0.51
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (43 bp):
ATTTAATAATTTATAATAATATTATTAATAATGATTTGATAAT
Found at i:212736 original size:14 final size:14
Alignment explanation
Indices: 212673--212774 Score: 99
Period size: 14 Copynumber: 7.3 Consensus size: 14
212663 TAATAATATT
212673 TAATAATGATTTGA
1 TAATAATGATTTGA
212687 TAATATTTAATGATTTGA
1 T-A-A--TAATGATTTGA
212705 TAATAAT-A-TT-A
1 TAATAATGATTTGA
212716 TTAATAATGATTTGA
1 -TAATAATGATTTGA
212731 TAATAAT-A-TT-A
1 TAATAATGATTTGA
212742 TTAATAATGATTTGA
1 -TAATAATGATTTGA
*
212757 TAATAATGATTTAA
1 TAATAATGATTTGA
212771 TAAT
1 TAAT
212775 GTGATAATGA
Statistics
Matches: 75, Mismatches: 1, Indels: 24
0.75 0.01 0.24
Matches are distributed among these distances:
11 2 0.03
12 18 0.24
13 4 0.05
14 33 0.44
15 3 0.04
16 2 0.03
17 1 0.01
18 12 0.16
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (14 bp):
TAATAATGATTTGA
Found at i:212736 original size:29 final size:26
Alignment explanation
Indices: 212694--212775 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
212684 TGATAATATT
212694 TAATGATTTGATAATAATATTATTAA
1 TAATGATTTGATAATAATATTATTAA
212720 TAATGATTTGATAATAATATTATTAA
1 TAATGATTTGATAATAATATTATTAA
212746 TAATGATTTGATAATAATGA-T-TTAA
1 TAATGATTTGATAATAAT-ATTATTAA
212771 TAATG
1 TAATG
212776 TGATAATGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.16
26 45 0.82
27 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (26 bp):
TAATGATTTGATAATAATATTATTAA
Found at i:212775 original size:11 final size:10
Alignment explanation
Indices: 212652--212735 Score: 66
Period size: 11 Copynumber: 8.1 Consensus size: 10
212642 GAAATCTTTA
212652 ATTTAA-AAT
1 ATTTAATAAT
212661 -TTTAATAAT
1 ATTTAATAAT
212670 ATTTAATAAT
1 ATTTAATAAT
*
212680 GATTTGATAAT
1 -ATTTAATAAT
*
212691 ATTTAATGAT
1 ATTTAATAAT
212701 -TTGATAATAAT
1 ATT--TAATAAT
212712 ATTATTAATAAT
1 A-T-TTAATAAT
*
212724 GATTTGATAAT
1 -ATTTAATAAT
212735 A
1 A
212736 ATATTATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
8 5 0.08
9 5 0.08
10 18 0.30
11 22 0.36
12 8 0.13
13 2 0.03
14 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (10 bp):
ATTTAATAAT
Found at i:214258 original size:15 final size:15
Alignment explanation
Indices: 214225--214255 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
214215 TTCTTTAATT
214225 AATTTAAGATAAAAA
1 AATTTAAGATAAAAA
214240 AATTTAA-ATAAAAA
1 AATTTAAGATAAAAA
214254 AA
1 AA
214256 ATTACCTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AATTTAAGATAAAAA
Found at i:214611 original size:24 final size:24
Alignment explanation
Indices: 214579--214684 Score: 90
Period size: 24 Copynumber: 4.3 Consensus size: 24
214569 GGCCACAACA
*
214579 AAATCATTATTAGTAATCATTACT
1 AAATCATTATTAGTAATCATTATT
*
214603 AAATCATTAGTA-TCAAATCATT-TT
1 AAATCATTATTAGT--AATCATTATT
** ** * *
214627 TTATTTTTAAATTAATAATAATTATT
1 AAATCATT--ATTAGTAATCATTATT
214653 AAATCATTATTAGTAATCATTATT
1 AAATCATTATTAGTAATCATTATT
214677 AAATCATT
1 AAATCATT
214685 GTATCAAATC
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.02
24 38 0.61
25 13 0.21
26 9 0.15
27 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (24 bp):
AAATCATTATTAGTAATCATTATT
Found at i:214670 original size:13 final size:12
Alignment explanation
Indices: 214641--214684 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
214631 TTTTAAATTA
*
214641 ATAATAATTATT
1 ATAATCATTATT
214653 A-AATCATTATT
1 ATAATCATTATT
214664 AGTAATCATTATT
1 A-TAATCATTATT
214677 A-AATCATT
1 ATAATCATT
214685 GTATCAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 17 0.59
12 1 0.03
13 11 0.38
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (12 bp):
ATAATCATTATT
Found at i:214944 original size:14 final size:14
Alignment explanation
Indices: 214941--215036 Score: 106
Period size: 14 Copynumber: 6.7 Consensus size: 14
214931 AATCATTATT
*
214941 ATCATTATTAT-TA
1 ATCATTATTATCAA
214954 ATCATTATTATCAA
1 ATCATTATTATCAA
*
214968 ATCATTATTAT-TA
1 ATCATTATTATCAA
*
214981 ACCATTATTATCAA
1 ATCATTATTATCAA
214995 ATCATTAAATATTATCAA
1 ATCA-T---TATTATCAA
215013 ATCATTATTATCAA
1 ATCATTATTATCAA
*
215027 ATCATCATTA
1 ATCATTATTA
215037 AATATTATTA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
13 22 0.31
14 34 0.48
15 1 0.01
17 1 0.01
18 13 0.18
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.44
Consensus pattern (14 bp):
ATCATTATTATCAA
Found at i:214959 original size:13 final size:13
Alignment explanation
Indices: 214935--215001 Score: 82
Period size: 13 Copynumber: 5.1 Consensus size: 13
214925 TTATCAAATC
214935 ATTATT-ATCATT
1 ATTATTAATCATT
214947 ATTATTAATCATT
1 ATTATTAATCATT
*
214960 ATTATCAAATCATT
1 ATTAT-TAATCATT
*
214974 ATTATTAACCATT
1 ATTATTAATCATT
*
214987 ATTATCAAATCATT
1 ATTAT-TAATCATT
215001 A
1 A
215002 AATATTATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
12 6 0.13
13 22 0.47
14 19 0.40
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTATTAATCATT
Found at i:214971 original size:27 final size:27
Alignment explanation
Indices: 214941--215036 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 27
214931 AATCATTATT
214941 ATCATTATTATTAATCATTATTATCAA
1 ATCATTATTATTAATCATTATTATCAA
*
214968 ATCATTATTATTAACCATTATTATCAA
1 ATCATTATTATTAATCATTATTATCAA
*
214995 ATCATTAAATATTATCAAATCATTATTATCAA
1 ATCA-T---TATTAT-TAATCATTATTATCAA
*
215027 ATCATCATTA
1 ATCATTATTA
215037 AATATTATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
27 30 0.50
28 5 0.08
31 7 0.12
32 18 0.30
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.44
Consensus pattern (27 bp):
ATCATTATTATTAATCATTATTATCAA
Found at i:222300 original size:25 final size:25
Alignment explanation
Indices: 222272--222321 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
222262 AGAATTTTCC
222272 AAAAAAAAAAT-TAAATTTTCGAAAT
1 AAAAAAAAAATGTAAATTTTC-AAAT
*
222297 AAAAAAAAAATGTTAATTTTCAAAT
1 AAAAAAAAAATGTAAATTTTCAAAT
222322 TATTGTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAAAAAAATGTAAATTTTCAAAT
Found at i:222307 original size:20 final size:20
Alignment explanation
Indices: 222264--222307 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
222254 AAAACACAAG
222264 AATTTTCCAAAAAAAAAATTA
1 AATTTTCCAAAAAAAAAA-TA
*
222285 AATTTTCGAAATAAAAAAA-A
1 AATTTTCCAAA-AAAAAAATA
222305 AAT
1 AAT
222308 GTTAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
AATTTTCCAAAAAAAAAATA
Done.