Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000713.1 Hibiscus syriacus cultivar Beakdansim tig00001383_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: 76107
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Found at i:4307 original size:55 final size:55
Alignment explanation
Indices: 4215--4595 Score: 523
Period size: 55 Copynumber: 6.9 Consensus size: 55
4205 TAACAAATGA
* * *
4215 CACTATGTTTGCAAAATTAAG-AATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
* * *
4269 CATTTTGTGTGCAAAACTAAGAAATTCAAAATAAGTTTATGAATTTTCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
* * * *
4324 CACTTTATGTGCAAAACTAAGAAATTCATAATAAGCTTT-TGAATTTCCGTTTGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAG-TTTATGAATTTTCGTATGGG
* * *
4379 CACTTTGTGTTCAAAACTAATAAATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
* *
4434 CACTGTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATAGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
* * *
4489 CACTGTGTGTACAAAACAAATAAATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
* * * * * *
4544 CACTGTATGTGCAATAGTAAGAAATTAATAATAAGTATATGAATTTTTGTAT
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
4596 TGGTCGTCGG
Statistics
Matches: 290, Mismatches: 34, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
54 20 0.07
55 267 0.92
56 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (55 bp):
CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
Found at i:9184 original size:25 final size:25
Alignment explanation
Indices: 9156--9210 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
9146 TTTGAAAACT
*
9156 TAAAGCAAACATTTAAATACATTAA
1 TAAAACAAACATTTAAATACATTAA
** * *
9181 TAAAACATTCATTTAAGTATATTAA
1 TAAAACAAACATTTAAATACATTAA
9206 TAAAA
1 TAAAA
9211 ATTATTACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAACAAACATTTAAATACATTAA
Found at i:9704 original size:81 final size:81
Alignment explanation
Indices: 9561--10052 Score: 657
Period size: 81 Copynumber: 6.1 Consensus size: 81
9551 ATGCATTATT
* * * * ** *
9561 TTTCATCTAAC-TGCATTAGTGGCACCTTTTTGCCAAAATGCACAATTAGGCCTTTAACCTTTCC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCC-AAATGCACAGTTAGGCATTTAGTCTTTCA
*
9625 TCTAAAAGCATTTAACC
65 TCTAAAGGCATTTAACC
* *
9642 TTTCATCTAACTTGCATTA-TGGAAACCTTTCTGCCAAATGCACAATTAGGCATTTAGTCTTTCA
1 TTTCATCTAACTTGCATTATTGG-CACCTTTCTGCCAAATGCACAGTTAGGCATTTAGTCTTTCA
*
9706 TCTTAAGGCATTTAACC
65 TCTAAAGGCATTTAACC
* * * *
9723 TTTCATATAACTTGCCTTATAT-GCACCTTTCTACCAAATGTACAGTTAGGCATTTAGTCTTTCA
1 TTTCATCTAACTTGCATTAT-TGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAGTCTTTCA
9787 TCTAAAGGCATTTAACC
65 TCTAAAGGCATTTAACC
* * * * * *
9804 TTTCATCTAACTTGCATTATTGGCACATTTATGCCAAATACGCAGTTAGACATTTAGTCTTTCGT
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAGTCTTTCAT
9869 CTAAAGGCATTTAACC
66 CTAAAGGCATTTAACC
* * * * * *
9885 TTTCATCCAACTTGCATTATTGGCACATTTTTTCCAAATGAACAGTTAGGCATTTATTCTTTCAT
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAGTCTTTCAT
9950 CTAAAGGCATTTAACC
66 CTAAAGGCATTTAACC
* * *
9966 TTTCATCTAACTTGCATTATTGACACCTTTCTTCCAAATGCACAGTTAGGCATTTAATCTTTCAT
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAGTCTTTCAT
*
10031 CTAAAGGCATTTAACA
66 CTAAAGGCATTTAACC
10047 TTTCAT
1 TTTCAT
10053 TTTAGAGCAG
Statistics
Matches: 365, Mismatches: 41, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.00
81 345 0.95
82 18 0.05
83 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.38
Consensus pattern (81 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAGTCTTTCAT
CTAAAGGCATTTAACC
Found at i:9798 original size:22 final size:22
Alignment explanation
Indices: 9770--9813 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9760 ATGTACAGTT
**
9770 AGGCATTTAGTCTTTCATCTAA
1 AGGCATTTAACCTTTCATCTAA
9792 AGGCATTTAACCTTTCATCTAA
1 AGGCATTTAACCTTTCATCTAA
9814 CTTGCATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (22 bp):
AGGCATTTAACCTTTCATCTAA
Found at i:9958 original size:22 final size:22
Alignment explanation
Indices: 9932--9975 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9922 ATGAACAGTT
**
9932 AGGCATTTATTCTTTCATCTAA
1 AGGCATTTAACCTTTCATCTAA
9954 AGGCATTTAACCTTTCATCTAA
1 AGGCATTTAACCTTTCATCTAA
9976 CTTGCATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (22 bp):
AGGCATTTAACCTTTCATCTAA
Found at i:21532 original size:40 final size:40
Alignment explanation
Indices: 21488--21568 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
21478 ACAAAAGAGA
21488 AAGAATTAATTTCTCAAAACAATTCATCATGTTTAAAAAT
1 AAGAATTAATTTCTCAAAACAATTCATCATGTTTAAAAAT
21528 AAGAATTAATTTCTCAAAACAATTCATCATGTTTAAAAAT
1 AAGAATTAATTTCTCAAAACAATTCATCATGTTTAAAAAT
21568 A
1 A
21569 GAAAAATGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (40 bp):
AAGAATTAATTTCTCAAAACAATTCATCATGTTTAAAAAT
Found at i:22293 original size:15 final size:16
Alignment explanation
Indices: 22267--22296 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22257 TTCAATAGTA
22267 TTCAAGAGTCAAATTT
1 TTCAAGAGTCAAATTT
22283 TTCAA-AGTCAAATT
1 TTCAAGAGTCAAATT
22297 ATTTTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (16 bp):
TTCAAGAGTCAAATTT
Found at i:30077 original size:13 final size:13
Alignment explanation
Indices: 30059--30086 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30049 AAATGACCCT
30059 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
30072 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
30085 TT
1 TT
30087 CTAACCACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:37122 original size:9 final size:9
Alignment explanation
Indices: 37108--37206 Score: 99
Period size: 10 Copynumber: 10.3 Consensus size: 9
37098 GCTGCTGGAA
37108 ACCGGTTTG
1 ACCGGTTTG
*
37117 ACCGGTTTTCA
1 ACCGG-TTT-G
37128 ACCGGTTCTG
1 ACCGGTT-TG
37138 ACCGGTTTG
1 ACCGGTTTG
*
37147 ACCGGTTTCA
1 ACCGGTTT-G
37157 ACCGGTTTG
1 ACCGGTTTG
37166 AACCGGTTTG
1 -ACCGGTTTG
*
37176 ACCGGTCTG
1 ACCGGTTTG
*
37185 AATCGGTTTG
1 -ACCGGTTTG
*
37195 ACCGGTCTG
1 ACCGGTTTG
37204 ACC
1 ACC
37207 CGACCCGATC
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
9 33 0.44
10 36 0.48
11 6 0.08
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:37152 original size:19 final size:18
Alignment explanation
Indices: 37108--37206 Score: 99
Period size: 19 Copynumber: 5.2 Consensus size: 18
37098 GCTGCTGGAA
*
37108 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGG-TTT-G
37128 ACCGGTTCTGACCGGTTTG
1 ACCGGTT-TGACCGGTTTG
*
37147 ACCGGTTTCAACCGGTTTG
1 ACCGGTTT-GACCGGTTTG
*
37166 AACCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTTTG
* *
37185 AATCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTTTG
37204 ACC
1 ACC
37207 CGACCCGATC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.04
19 42 0.60
20 18 0.26
21 7 0.10
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (18 bp):
ACCGGTTTGACCGGTTTG
Found at i:37170 original size:29 final size:28
Alignment explanation
Indices: 37108--37206 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 28
37098 GCTGCTGGAA
37108 ACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTT-TG
37138 ACCGGTTTGACCGGTTTCAACCGGTTTG
1 ACCGGTTTGACCGGTTTCAACCGGTTTG
* * *
37166 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTTTCAACCGGTTTG
*
37195 ACCGGTCTGACC
1 ACCGGTTTGACC
37207 CGACCCGATC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
28 13 0.20
29 37 0.58
30 14 0.22
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTTG
Found at i:37224 original size:17 final size:17
Alignment explanation
Indices: 37202--37274 Score: 87
Period size: 17 Copynumber: 4.3 Consensus size: 17
37192 TTGACCGGTC
*
37202 TGACCCGACCCGATCGT
1 TGACCCGACCCGACCGT
*
37219 TGACCCGACCGTTGACC--
1 TGACCCGACC--CGACCGT
*
37236 CGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
37253 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
37270 TGACC
1 TGACC
37275 GTTGACCGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
15 4 0.09
17 40 0.85
19 3 0.06
ACGTcount: A:0.18, C:0.45, G:0.23, T:0.14
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:37245 original size:22 final size:22
Alignment explanation
Indices: 37220--37281 Score: 97
Period size: 22 Copynumber: 2.7 Consensus size: 22
37210 CCCGATCGTT
37220 GACCCGACCGTTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
37242 GACCCGACCGTTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
*
37264 GACCGTTGACCGTTGACC
1 GACC--CGACCGTTGACC
37282 GTTGACCGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 26 0.70
24 11 0.30
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (22 bp):
GACCCGACCGTTGACCCGACCC
Found at i:37274 original size:7 final size:7
Alignment explanation
Indices: 37264--37294 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
37254 GACCCGACCC
37264 GACCGTT
1 GACCGTT
37271 GACCGTT
1 GACCGTT
37278 GACCGTT
1 GACCGTT
37285 GACCGTT
1 GACCGTT
37292 GAC
1 GAC
37295 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:37274 original size:12 final size:12
Alignment explanation
Indices: 37208--37262 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
37198 GGTCTGACCC
*
37208 GACCCGATCGTT
1 GACCCGACCGTT
37220 GACCCGACCGTT
1 GACCCGACCGTT
*
37232 GACCCGACC--C
1 GACCCGACCGTT
37242 GACCCGACCGTT
1 GACCCGACCGTT
37254 GACCCGACC
1 GACCCGACC
37263 CGACCGTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 9 0.24
12 29 0.76
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:38247 original size:32 final size:31
Alignment explanation
Indices: 38163--38239 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
38153 CTAATGTGAC
* *
38163 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
38194 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
38226 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
38240 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:38265 original size:63 final size:63
Alignment explanation
Indices: 38163--38286 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
38153 CTAATGTGAC
* ** * *
38163 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
38226 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
38287 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:44566 original size:7 final size:7
Alignment explanation
Indices: 44554--44591 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
44544 GACCCGACCC
44554 GACCGTT
1 GACCGTT
44561 GACCGTT
1 GACCGTT
44568 GACCGTT
1 GACCGTT
44575 GACCGTT
1 GACCGTT
44582 GACCGTT
1 GACCGTT
44589 GAC
1 GAC
44592 TTTCTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:45528 original size:32 final size:30
Alignment explanation
Indices: 45457--45532 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
45447 CTAATGTGAC
* *
45457 TCTTAGGTAGGCTCTGCGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGCCCTAAGATTAT
** *
45487 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGC-GCCCTAAGAT-TAT
45519 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
45533 CACGGCCCCG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 14 0.38
31 9 0.24
32 14 0.38
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.29
Consensus pattern (30 bp):
TCTTAGGTAGGCCCTGCGCCCTAAGATTAT
Found at i:48300 original size:53 final size:52
Alignment explanation
Indices: 48213--48314 Score: 120
Period size: 55 Copynumber: 1.9 Consensus size: 52
48203 TTTGTAAAAA
* *
48213 AATTATATAAATTATATAAATTTAAAATT-TTTAAAGA-AAATATATAAATT
1 AATTATATAAATTATATAAATTTAAAATTGTTAAAAAACAAATATATAAATT
*
48263 AATTATAGTAATATTATATTAGAA-TTAAACTTGTTAAAAAACAAATATATAA
1 AATTATA-TAA-ATTATA-TA-AATTTAAAATTGTTAAAAAACAAATATATAA
48315 TAAGGATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
50 7 0.16
51 3 0.07
52 6 0.14
53 9 0.21
54 8 0.19
55 10 0.23
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (52 bp):
AATTATATAAATTATATAAATTTAAAATTGTTAAAAAACAAATATATAAATT
Found at i:49831 original size:24 final size:25
Alignment explanation
Indices: 49780--49837 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
49770 TTTTTCACTT
* ***
49780 CATTTCAATCAATTTTTTTGTTTAA
1 CATTTCAATCAATTTTTATACATAA
49805 CATTTCAATCAATTTTTATACAT-A
1 CATTTCAATCAATTTTTATACATAA
*
49829 CATGTCAAT
1 CATTTCAAT
49838 GAATCAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (25 bp):
CATTTCAATCAATTTTTATACATAA
Found at i:52293 original size:26 final size:26
Alignment explanation
Indices: 52264--52315 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
52254 GAAACCTTGC
52264 TTCTGAAATGGCTTATTTTGTAAGCA
1 TTCTGAAATGGCTTATTTTGTAAGCA
52290 TTCTGAAATGGCTTATTTTGTAAGCA
1 TTCTGAAATGGCTTATTTTGTAAGCA
52316 GATGTCTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
TTCTGAAATGGCTTATTTTGTAAGCA
Found at i:57082 original size:2 final size:2
Alignment explanation
Indices: 57075--57130 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
57065 AGCATGCATG
57075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57117 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
57131 GCATGTATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57750 original size:8 final size:8
Alignment explanation
Indices: 57737--57771 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
57727 GCATAGAGGC
57737 TATACATA
1 TATACATA
57745 TATACATA
1 TATACATA
*
57753 CATACATA
1 TATACATA
*
57761 TATATATA
1 TATACATA
57769 TAT
1 TAT
57772 GGGGAAGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (8 bp):
TATACATA
Found at i:63041 original size:13 final size:14
Alignment explanation
Indices: 63017--63046 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
63007 GATGAAGCTG
63017 TCTTTCTTTCTTCT
1 TCTTTCTTTCTTCT
63031 TCTTT-TTTCTTCT
1 TCTTTCTTTCTTCT
63044 TCT
1 TCT
63047 ATGCTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TCTTTCTTTCTTCT
Found at i:63689 original size:25 final size:25
Alignment explanation
Indices: 63642--63689 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
63632 TAAAGTAGTT
*
63642 AAAAATTACAACTTTAATTTTTATA
1 AAAAATTACAACTTTAATATTTATA
63667 AAAAAGTTACAACTTTAA-ATTTA
1 AAAAA-TTACAACTTTAATATTTA
63690 AATTCAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAAATTACAACTTTAATATTTATA
Found at i:64311 original size:42 final size:42
Alignment explanation
Indices: 64264--64379 Score: 187
Period size: 42 Copynumber: 2.8 Consensus size: 42
64254 TCCGAATTCT
* * *
64264 CGTGTTTGTTTCACGTAATTCGTTTTTTGGAAAATATTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACATTTTCC
*
64306 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACATTTTCC
*
64348 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAA
64380 TATAATTCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.17, C:0.16, G:0.19, T:0.47
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACATTTTCC
Found at i:64589 original size:30 final size:31
Alignment explanation
Indices: 64555--64657 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 31
64545 TTCATCAAAA
*
64555 TATTAATTATTAAAAT-ATTTAA-AATATATT
1 TATTAA-TATTAAAATAATATAATAATATATT
*
64585 TATTAATATTTATAATAATATAATAATATATT
1 TATTAATA-TTAAAATAATATAATAATATATT
* *
64617 T-TTAATATT-ATATAAAATAATCAATTATATT
1 TATTAATATTAAAATAATATAAT-AA-TATATT
*
64648 ATAATAATAT
1 -TATTAATAT
64658 AAGATATTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
29 11 0.18
30 16 0.27
31 17 0.28
32 10 0.17
33 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TATTAATATTAAAATAATATAATAATATATT
Found at i:64615 original size:22 final size:22
Alignment explanation
Indices: 64590--64658 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
64580 ATATTTATTA
64590 ATATTTATAATAATATAATAAT
1 ATATTTATAATAATATAATAAT
*
64612 ATATTTTTAATATTATATAA-AAT
1 ATATTTATAATA--ATATAATAAT
** * *
64635 A-ATCAATTATATTATAATAAT
1 ATATTTATAATAATATAATAAT
64656 ATA
1 ATA
64659 AGATATTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 5 0.14
21 4 0.11
22 18 0.49
23 4 0.11
24 6 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTTATAATAATATAATAAT
Found at i:64646 original size:31 final size:32
Alignment explanation
Indices: 64577--64657 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 32
64567 AAATATTTAA
*
64577 AATATATTTATTAATATTTATAATAATATAAT
1 AATATATTTATTAATATTTATAATAAAATAAT
64609 AATATATTT-TTAATA-TTAT-ATAAAATAAT
1 AATATATTTATTAATATTTATAATAAAATAAT
*
64638 CAATTATATTATAATAATAT
1 -AA-TATATT-TATTAATAT
64658 AAGATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 9 0.21
30 6 0.14
31 12 0.29
32 10 0.24
33 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (32 bp):
AATATATTTATTAATATTTATAATAAAATAAT
Found at i:64689 original size:52 final size:52
Alignment explanation
Indices: 64594--64694 Score: 127
Period size: 52 Copynumber: 1.9 Consensus size: 52
64584 TTATTAATAT
* *
64594 TTATAATAATATAATAATATATTTTTAATATTATATAAAATAATCAATTATA
1 TTATAATAATATAAGAATATATTTTTAATATTATATAAAATAATAAATTATA
*
64646 TTATAATAATATAAG-ATATTATTTTT-ATTTTA-ATAATATATAATAAATT
1 TTATAATAATATAAGAATA-TATTTTTAATATTATATAA-A-ATAATAAATT
64695 TTTTTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 4 0.09
51 9 0.21
52 30 0.70
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (52 bp):
TTATAATAATATAAGAATATATTTTTAATATTATATAAAATAATAAATTATA
Found at i:64710 original size:28 final size:28
Alignment explanation
Indices: 64661--64742 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 28
64651 ATAATATAAG
*
64661 ATATTATTTTTAT-TTTAATAAT-ATATA
1 ATATTATTTATATATTTAATAATGA-ATA
*
64688 ATAAATTTTTTTATATATTTAATAATGAATA
1 AT--A-TTATTTATATATTTAATAATGAATA
64719 ATATTATTTATATATTTCAATAAT
1 ATATTATTTATATATTT-AATAAT
64743 ATTTTAGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 2 0.04
28 13 0.28
29 8 0.17
30 8 0.17
31 14 0.30
32 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
ATATTATTTATATATTTAATAATGAATA
Found at i:64783 original size:16 final size:18
Alignment explanation
Indices: 64761--64798 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
64751 AAAGATATTA
64761 AAATA-TACTATTACTTT
1 AAATAGTACTATTACTTT
64778 AATATAGTACTATTACTTT
1 AA-ATAGTACTATTACTTT
64797 AA
1 AA
64799 TAAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 3 0.16
19 14 0.74
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (18 bp):
AAATAGTACTATTACTTT
Found at i:64975 original size:20 final size:20
Alignment explanation
Indices: 64897--64966 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
64887 TTTTCAGATG
64897 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
64917 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
64937 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
64957 TTTTCCAGAA
1 TTTTCCAGAA
64967 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:64975 original size:40 final size:40
Alignment explanation
Indices: 64897--64975 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
64887 TTTTCAGATG
* **
64897 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
64937 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
64976 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:64985 original size:15 final size:15
Alignment explanation
Indices: 64949--65030 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
64939 TTACAGAAAT
**
64949 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
64964 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
** *
64978 GTAATTCATTTTTCA
1 GTAATTCAAATTCCA
64993 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
65008 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
65023 GTAATTCA
1 GTAATTCA
65031 TTTTCTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:64999 original size:30 final size:30
Alignment explanation
Indices: 64949--65030 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
64939 TTACAGAAAT
64949 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
64978 GTAATTCATTTTTCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
65008 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
65031 TTTTCTGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 15 0.31
30 33 0.69
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:65023 original size:45 final size:44
Alignment explanation
Indices: 64949--65034 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 44
64939 TTACAGAAAT
**
64949 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTTCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTTCA
64993 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTT
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTT
65035 CTGAAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTTCA
Found at i:66027 original size:21 final size:21
Alignment explanation
Indices: 66002--66044 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
65992 ATACATTCAT
66002 TTTAAAATAAAGGGTAAATTA
1 TTTAAAATAAAGGGTAAATTA
66023 TTTAAAATAAAGGGTAAATTA
1 TTTAAAATAAAGGGTAAATTA
66044 T
1 T
66045 AACAATGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (21 bp):
TTTAAAATAAAGGGTAAATTA
Found at i:67240 original size:9 final size:9
Alignment explanation
Indices: 67226--67275 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
67216 GCTGCTGGAA
67226 ACCGGTTTG
1 ACCGGTTTG
67235 ACCGGTTCTG
1 ACCGGTT-TG
*
67245 ACCGGTCTG
1 ACCGGTTTG
*
67254 AATCGGTTTG
1 -ACCGGTTTG
*
67264 ACCGGTCTG
1 ACCGGTTTG
67273 ACC
1 ACC
67276 CGACCCGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:67250 original size:19 final size:18
Alignment explanation
Indices: 67226--67275 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
67216 GCTGCTGGAA
*
67226 ACCGGTTTGACCGGTTCTG
1 ACCGGTCTGACCGGTT-TG
*
67245 ACCGGTCTGAATCGGTTTG
1 ACCGGTCTG-ACCGGTTTG
67264 ACCGGTCTGACC
1 ACCGGTCTGACC
67276 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 19 0.70
20 6 0.22
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:67282 original size:5 final size:5
Alignment explanation
Indices: 67272--67329 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
67262 TGACCGGTCT
* *
67272 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
67321 GACCC GACC
1 GACCC GACC
67330 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:67298 original size:22 final size:22
Alignment explanation
Indices: 67272--67336 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
67262 TGACCGGTCT
67272 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
67294 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
67316 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
67337 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:68266 original size:31 final size:32
Alignment explanation
Indices: 68222--68294 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
68212 TGTGACTCTT
* *
68222 AGGTAGGCTCTGCGGCCCTGAGAT-CATTCTC
1 AGGTAGGCCCTGCGGCCCTAAGATGCATTCTC
* * *
68253 GGGTAGGCCCTGCGGCCCTAAGATGTATTCTT
1 AGGTAGGCCCTGCGGCCCTAAGATGCATTCTC
68285 AGGTAGGCCC
1 AGGTAGGCCC
68295 CACGGCCCCG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (32 bp):
AGGTAGGCCCTGCGGCCCTAAGATGCATTCTC
Found at i:68291 original size:63 final size:63
Alignment explanation
Indices: 68218--68341 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
68208 CTAATGTGAC
* ** * *
68218 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTAT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTAT
* *
68281 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
68342 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTAT
Found at i:74520 original size:9 final size:9
Alignment explanation
Indices: 74506--74624 Score: 85
Period size: 9 Copynumber: 12.4 Consensus size: 9
74496 GCTGCTGGAA
74506 ACCGGTTTG
1 ACCGGTTTG
*
74515 ACCGGTTTTCA
1 ACCGG-TTT-G
74526 ACCGGTTCTG
1 ACCGGTT-TG
74536 ACCGGTTTG
1 ACCGGTTTG
*
74545 ACCGGTTTCA
1 ACCGGTTT-G
*
74555 ACCGGTTCG
1 ACCGGTTTG
*
74564 AAACGGTTTG
1 -ACCGGTTTG
*
74574 ACCGGTCTG
1 ACCGGTTTG
*
74583 AATCGGTTTG
1 -ACCGGTTTG
* *
74593 ATCGGTCTG
1 ACCGGTTTG
*
74602 AATCGGTTTG
1 -ACCGGTTTG
*
74612 ACCGGTCTG
1 ACCGGTTTG
74621 ACCG
1 ACCG
74625 ACCCGACCGT
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
9 41 0.47
10 41 0.47
11 6 0.07
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:74530 original size:20 final size:21
Alignment explanation
Indices: 74505--74543 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
74495 GGCTGCTGGA
74505 AACCGGTT-TGACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
74525 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
74544 GACCGGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTC
Found at i:74550 original size:19 final size:19
Alignment explanation
Indices: 74505--74621 Score: 112
Period size: 19 Copynumber: 6.1 Consensus size: 19
74495 GGCTGCTGGA
* *
74505 AACCGGTTTGACCGGTTTTC
1 AACCGGTTTGACCGG-TCTG
*
74525 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
74545 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
*
74564 AAACGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
74583 AATCGGTTTGATCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
74602 AATCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
74621 A
1 A
74622 CCGACCCGAC
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
18 2 0.02
19 57 0.67
20 19 0.22
21 7 0.08
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.31
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:74590 original size:29 final size:30
Alignment explanation
Indices: 74503--74579 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
74493 GTGGCTGCTG
74503 GAAACCGGTTTGACCGGTTTTCAACCGGTTCT
1 GAAA-CGGTTTGACCGG-TTTCAACCGGTTCT
*
74535 G-ACCGGTTTGACCGGTTTCAACCGGTTC-
1 GAAACGGTTTGACCGGTTTCAACCGGTTCT
74563 GAAACGGTTTGACCGGT
1 GAAACGGTTTGACCGGT
74580 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 1 0.02
29 27 0.64
30 12 0.29
31 1 0.02
32 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.29
Consensus pattern (30 bp):
GAAACGGTTTGACCGGTTTCAACCGGTTCT
Found at i:74658 original size:7 final size:7
Alignment explanation
Indices: 74648--74678 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
74638 CCCCCGACCC
74648 GACCGTT
1 GACCGTT
74655 GACCGTT
1 GACCGTT
74662 GACCGTT
1 GACCGTT
74669 GACCGTT
1 GACCGTT
74676 GAC
1 GAC
74679 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:74665 original size:19 final size:19
Alignment explanation
Indices: 74622--74658 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
74612 ACCGGTCTGA
74622 CCGACCCGACCGTTGACCC
1 CCGACCCGACCGTTGACCC
74641 CCGACCCGACCGTTGACC
1 CCGACCCGACCGTTGACC
74659 GTTGACCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.51, G:0.22, T:0.11
Consensus pattern (19 bp):
CCGACCCGACCGTTGACCC
Found at i:75603 original size:31 final size:30
Alignment explanation
Indices: 75530--75603 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
75520 CTAATGTGAC
* *
75530 TCTTAGGTAGGCTTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCTGCGGCCCTAAGATCAT
** **
75560 TCTCGGGTAGGCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCTGCGGCCCTAAGAT-CAT
75591 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
75604 CCACGGCCCC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 23 0.66
31 12 0.34
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.28
Consensus pattern (30 bp):
TCTTAGGTAGGCCTGCGGCCCTAAGATCAT
Done.