Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 35
Found at i:4066046 original size:24 final size:24
Alignment explanation
Indices: 4066010--4066065 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
4066000 TTTTTCTTCT
4066010 TTTTCTTTCTTTCTTCTTTCTTTAAC
1 TTTT-TTTCTTTCTTCTTT-TTTAAC
*
4066036 TTTTTTT-TTTCTTCTTTTTTAGC
1 TTTTTTTCTTTCTTCTTTTTTAAC
4066059 TTTTTTT
1 TTTTTTT
4066066 GGTCTTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 12 0.41
24 10 0.34
25 3 0.10
26 4 0.14
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTTCTTTCTTCTTTTTTAAC
Found at i:4066071 original size:23 final size:24
Alignment explanation
Indices: 4066021--4066071 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
4066011 TTTCTTTCTT
**
4066021 TCTTCTTTCTTTAACTTTTTTTTT
1 TCTTCTTTCTTTAACTTTTTTTGG
*
4066045 TCTTCTTT-TTTAGCTTTTTTTGG
1 TCTTCTTTCTTTAACTTTTTTTGG
4066068 TCTT
1 TCTT
4066072 ATGTCTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.73
Consensus pattern (24 bp):
TCTTCTTTCTTTAACTTTTTTTGG
Found at i:4067033 original size:68 final size:68
Alignment explanation
Indices: 4066924--4067061 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
4066914 TTCACTTTTT
*
4066924 CATCAATCATTAAAATTTTTAATTTCTCAGTAATTTTCTAAATTAATCGATTCTTACGACCATTA
1 CATCAATCATTAAAAATTTTAATTTCTCAGTAATTTTCTAAATTAATCGATTCTTACGACCATTA
4066989 ACC
66 ACC
* *
4066992 CATCAATCATTAAAAATTTTAATTTCTCAGTAATTTTCTAAATTAATCGCTTCTTGCGACCATTA
1 CATCAATCATTAAAAATTTTAATTTCTCAGTAATTTTCTAAATTAATCGATTCTTACGACCATTA
4067057 ACC
66 ACC
4067060 CA
1 CA
4067062 ACCTTAATGC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (68 bp):
CATCAATCATTAAAAATTTTAATTTCTCAGTAATTTTCTAAATTAATCGATTCTTACGACCATTA
ACC
Found at i:4068445 original size:5 final size:5
Alignment explanation
Indices: 4068435--4068461 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4068425 AGTAAAACAA
4068435 TTTAG TTTAG TTTAG TTTAG TTTAG TT
1 TTTAG TTTAG TTTAG TTTAG TTTAG TT
4068462 ATTACAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (5 bp):
TTTAG
Found at i:4069810 original size:30 final size:31
Alignment explanation
Indices: 4069775--4069852 Score: 113
Period size: 30 Copynumber: 2.5 Consensus size: 31
4069765 CAACTATTCA
*
4069775 CAACTTTTCCAAAATTATTGAATTGGTCCC-
1 CAACTTTTCAAAAATTATTGAATTGGTCCCT
*
4069805 CAACTTTTTAAAAATTATTGAATTGGTCCCT
1 CAACTTTTCAAAAATTATTGAATTGGTCCCT
**
4069836 TGACTTTTCAAAAATTA
1 CAACTTTTCAAAAATTA
4069853 CAAAATGGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 28 0.67
31 14 0.33
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (31 bp):
CAACTTTTCAAAAATTATTGAATTGGTCCCT
Found at i:4087565 original size:23 final size:24
Alignment explanation
Indices: 4087531--4087582 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
4087521 GAATCGAGGG
4087531 TTCTACGAGGTCCTTCGGGAC-AA
1 TTCTACGAGGTCCTTCGGGACAAA
*
4087554 TTCTAC-ATGGTCTTTCGGGACAAA
1 TTCTACGA-GGTCCTTCGGGACAAA
4087578 TTCTA
1 TTCTA
4087583 TGCGATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.69
24 7 0.27
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (24 bp):
TTCTACGAGGTCCTTCGGGACAAA
Found at i:4087630 original size:24 final size:24
Alignment explanation
Indices: 4087600--4087646 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4087590 ATTCGAGACA
*
4087600 AATCTATGTGGCACTTCGGTGCAT
1 AATCTATGTAGCACTTCGGTGCAT
*
4087624 AATCTATGTAGTACTTCGGTGCA
1 AATCTATGTAGCACTTCGGTGCA
4087647 AATTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (24 bp):
AATCTATGTAGCACTTCGGTGCAT
Found at i:4090159 original size:17 final size:17
Alignment explanation
Indices: 4090137--4090170 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4090127 GTTAAAGAAT
*
4090137 TTCCATGAGTATTTCCA
1 TTCCATAAGTATTTCCA
4090154 TTCCATAAGTATTTCCA
1 TTCCATAAGTATTTCCA
4090171 GCTGAGCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (17 bp):
TTCCATAAGTATTTCCA
Found at i:4095999 original size:17 final size:17
Alignment explanation
Indices: 4095977--4096011 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4095967 GTTTGCCCTA
4095977 GCTAGATAAATCAAGAG
1 GCTAGATAAATCAAGAG
4095994 GCTAGATAAATCAAGAG
1 GCTAGATAAATCAAGAG
4096011 G
1 G
4096012 AACAATACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (17 bp):
GCTAGATAAATCAAGAG
Found at i:4097351 original size:12 final size:12
Alignment explanation
Indices: 4097334--4097358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4097324 TTACCCATAA
4097334 ACTATCGGATAT
1 ACTATCGGATAT
4097346 ACTATCGGATAT
1 ACTATCGGATAT
4097358 A
1 A
4097359 GGATAAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ACTATCGGATAT
Found at i:4097516 original size:26 final size:26
Alignment explanation
Indices: 4097487--4097540 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
4097477 TTCCTTTCAA
*
4097487 TTCTGCCATCGTCCATCCTATAGCTT
1 TTCTACCATCGTCCATCCTATAGCTT
* *
4097513 TTCTATCATCGTCCATCCTATAGTTT
1 TTCTACCATCGTCCATCCTATAGCTT
4097539 TT
1 TT
4097541 ATGTGTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.44
Consensus pattern (26 bp):
TTCTACCATCGTCCATCCTATAGCTT
Found at i:4099146 original size:21 final size:20
Alignment explanation
Indices: 4099113--4099152 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4099103 CATCAAGGTC
4099113 TTTGTAGACGCCATGAAATTT
1 TTTGTAGACGCCAT-AAATTT
* *
4099134 TTTGTCGAGGCCATAAATT
1 TTTGTAGACGCCATAAATT
4099153 CCTGCAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTGTAGACGCCATAAATTT
Found at i:4103356 original size:20 final size:20
Alignment explanation
Indices: 4103304--4103356 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
4103294 ATTGATGTGG
*
4103304 AGGTATCGATACCAAGAGTA
1 AGGTATCGATACTAAGAGTA
4103324 AGGTATCGATACTAAGAGTA
1 AGGTATCGATACTAAGAGTA
4103344 AGGTATCGATACT
1 AGGTATCGATACT
4103357 GTAATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (20 bp):
AGGTATCGATACTAAGAGTA
Found at i:4113217 original size:31 final size:29
Alignment explanation
Indices: 4113161--4113221 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
4113151 ATTACCATTA
4113161 AACCAAGACACCTAACCTTGACATCTTCCC
1 AACCAAGACACCTAACCTTGACATC-TCCC
* *
4113191 AACCATGACACTTAAACCTT-ATCATCTCCC
1 AACCAAGACACCT-AACCTTGA-CATCTCCC
4113221 A
1 A
4113222 TAAGTCAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.34, C:0.38, G:0.05, T:0.23
Consensus pattern (29 bp):
AACCAAGACACCTAACCTTGACATCTCCC
Found at i:4133929 original size:138 final size:135
Alignment explanation
Indices: 4133759--4134173 Score: 423
Period size: 136 Copynumber: 3.0 Consensus size: 135
4133749 TATCAATTGA
* * * *
4133759 AAGG-ACTAAAGTGAAACTATACCTAAAGTGGAGATTCTAACATTAAAATCTAACCAGTTTTAGC
1 AAGGAACTAAAGTGAAACTATACCTAAAATGGAG-CTCTAATATTAAAATCTAACCAATTTTAGC
4133823 AATTTATTAAATCGAATAATCAATTCAAAACCTCTGG-AAAAGGCGAGGACCAAATAAAAAATTT
65 AATTTATTAAATCGAATAATCAATTCAAAACCTC-GGTAAAA-GCGAGGACCAAATAAAAAA-TT
* *
4133887 CACTCAATT
127 CCCTAAATT
* * *
4133896 AAGGAACTAAAGTGAAACTAAACCTAAAATGGAGGCTCTAATATTAAAACCTAGA-CAATTTTAT
1 AAGGAACTAAAGTGAAACTATACCTAAAATGGA-GCTCTAATATTAAAATCTA-ACCAATTTTAG
* * * * * * ** * *
4133960 CAATTTAATGAATTGGATAATCAATT-TAAACCCCGGGTAAAAGTAAGGATCAAATAGAAAAA-C
64 CAATTTATTAAATCGAATAATCAATTCAAAACCTC-GGTAAAAGCGAGGACCAAATA-AAAAATT
*
4134023 CCCTAAAGT
127 CCCTAAATT
* * * *
4134032 AAGGGACTAAAGTGAAATTGTGCCTAAAATGGATGCTCTAATATT--AATCCTAACCAATTTTAG
1 AAGGAACTAAAGTGAAACTATACCTAAAATGGA-GCTCTAATATTAAAAT-CTAACCAATTTTAG
* * *
4134095 CCAA-TTATTTAATCGAATAATCAATTCGAAACCTCGGTTAAAAGCGAGGACCAAATTAAAAATT
64 -CAATTTATTAAATCGAATAATCAATTCAAAACCTCGG-TAAAAGCGAGGACCAAATAAAAAATT
4134159 CCCTAAATT
127 CCCTAAATT
4134168 AAGGAA
1 AAGGAA
4134174 ATTCATGGAC
Statistics
Matches: 225, Mismatches: 42, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
134 3 0.01
135 36 0.16
136 82 0.36
137 23 0.10
138 79 0.35
139 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (135 bp):
AAGGAACTAAAGTGAAACTATACCTAAAATGGAGCTCTAATATTAAAATCTAACCAATTTTAGCA
ATTTATTAAATCGAATAATCAATTCAAAACCTCGGTAAAAGCGAGGACCAAATAAAAAATTCCCT
AAATT
Found at i:4135222 original size:20 final size:21
Alignment explanation
Indices: 4135199--4135238 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4135189 TCAATATATG
*
4135199 AATG-AATTTTTGATTAGTTA
1 AATGCAATTTTTGAATAGTTA
*
4135219 AATGCTATTTTTGAATAGTT
1 AATGCAATTTTTGAATAGTT
4135239 TGTAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (21 bp):
AATGCAATTTTTGAATAGTTA
Found at i:4136130 original size:32 final size:32
Alignment explanation
Indices: 4136094--4136159 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
4136084 TTAAGCATTT
4136094 AGGGTTTATATTTGAATTCATGAACAAACCAC
1 AGGGTTTATATTTGAATTCATGAACAAACCAC
4136126 AGGGTTTATATTTGAATTCATGAACAAACCAC
1 AGGGTTTATATTTGAATTCATGAACAAACCAC
4136158 AG
1 AG
4136160 TTTAGATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (32 bp):
AGGGTTTATATTTGAATTCATGAACAAACCAC
Found at i:4137151 original size:23 final size:23
Alignment explanation
Indices: 4137121--4137174 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4137111 GTTCTAGATG
**
4137121 AGAGAAAGAGTGAGATAGCAACT
1 AGAGAAAGAGCAAGATAGCAACT
4137144 AGAGAAAGAGCAAGATAGCAACT
1 AGAGAAAGAGCAAGATAGCAACT
*
4137167 AGTGAAAG
1 AGAGAAAG
4137175 GATAACCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.09, G:0.30, T:0.11
Consensus pattern (23 bp):
AGAGAAAGAGCAAGATAGCAACT
Found at i:4139390 original size:143 final size:142
Alignment explanation
Indices: 4139209--4139633 Score: 432
Period size: 141 Copynumber: 3.0 Consensus size: 142
4139199 AGATAGACAT
*
4139209 TTTTCAGTGATATATCAACTCATTTCAGAAAACATTTTAGTAGTGATATATCACTTCATATTAGA
1 TTTTCAGTGATATATCAACTCATTTCA-AAAACTTTTTAGTAGTGATATATCACTTCAT-TTAGA
** * * * * *
4139274 AAAAAATCCATTTCTCGTAGGCCATTTAACGCACAATGGTAGAAACTTTTCAGTGCCCAATAACT
64 AAAATGTCCATTTCTCATTGACCATTTAACGCACAATGATAGAAACTTTTCAGTGCACAATAACT
**
4139339 TCTTTTCAG-AAAC
129 TCACTTCAGAAAAC
* * * * * *
4139352 TTTTTTA-TGATATATCAACTCATTTTTAAAAACTTTTTAGTGGTAAAATATCACTTCATTTCAT
1 -TTTTCAGTGATATATCAACTCA-TTTCAAAAACTTTTTAGTAGTGATATATCACTTCATTT-AG
* * * * * * *
4139416 AAATATGTCCATTTCTCATTGACCATTTAATGTATAATGACATAAACTTTTC--TGCATAATAAC
63 AAAAATGTCCATTTCTCATTGACCATTTAACGCACAATGATAGAAACTTTTCAGTGCACAATAAC
4139479 TTCACTTCAGAAAAC
128 TTCACTTCAGAAAAC
* * * * *
4139494 TTTTCAGTGATACATC-ACTTCAATTCAGAAACTATTCAGTAGTGATATATCACTTCATTTTAGA
1 TTTTCAGTGATATATCAAC-TCATTTCAAAAACTTTTTAGTAGTGATATATCACTTCA-TTTAGA
* * * * *
4139558 AAAATGCCCATTTCTAATTGACCATTTAACGCACAATGATAGAAACATTTCAGTG-ATATATCAC
64 AAAATGTCCATTTCTCATTGACCATTTAACGCACAATGATAGAAACTTTTCAGTGCACA-ATAAC
4139622 TTCA-TTCAGAAA
128 TTCACTTCAGAAA
4139634 CATTCCATAG
Statistics
Matches: 228, Mismatches: 44, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
141 95 0.42
142 31 0.14
143 93 0.41
144 9 0.04
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (142 bp):
TTTTCAGTGATATATCAACTCATTTCAAAAACTTTTTAGTAGTGATATATCACTTCATTTAGAAA
AATGTCCATTTCTCATTGACCATTTAACGCACAATGATAGAAACTTTTCAGTGCACAATAACTTC
ACTTCAGAAAAC
Found at i:4139521 original size:33 final size:34
Alignment explanation
Indices: 4139477--4139560 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 34
4139467 CTGCATAATA
* *
4139477 ACTTCACTTCAGAAAACTTTTC-AGTGATACATC
1 ACTTCAATTCAGAAAACTATTCAAGTGATACATC
*
4139510 ACTTCAATTCAG-AAACTATTCAGTAGTGATATATC
1 ACTTCAATTCAGAAAACTATTCA--AGTGATACATC
* *
4139545 ACTTCATTTTAGAAAA
1 ACTTCAATTCAGAAAA
4139561 ATGCCCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 8 0.19
33 11 0.26
35 20 0.48
36 3 0.07
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (34 bp):
ACTTCAATTCAGAAAACTATTCAAGTGATACATC
Found at i:4143018 original size:18 final size:17
Alignment explanation
Indices: 4142995--4143051 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 17
4142985 CGAAACCGAT
4142995 TTTTTTAGTTCGGTTCGG
1 TTTTTT-GTTCGGTTCGG
*
4143013 TTTTTT-TTAACGGTTCAAG
1 TTTTTTGTT--CGGTTC-GG
4143032 TTTTTTGGTTCGGTTCGG
1 TTTTTT-GTTCGGTTCGG
4143050 TT
1 TT
4143052 CGATTCGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
16 2 0.06
18 15 0.47
19 13 0.41
21 2 0.06
ACGTcount: A:0.09, C:0.11, G:0.25, T:0.56
Consensus pattern (17 bp):
TTTTTTGTTCGGTTCGG
Found at i:4144032 original size:18 final size:19
Alignment explanation
Indices: 4143997--4144033 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4143987 CACGGAATGT
4143997 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
4144017 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
4144034 GAATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:4144209 original size:34 final size:34
Alignment explanation
Indices: 4144178--4144241 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
4144168 TACAAATTGT
4144178 AAAATATT-TAT-ATTTTCTTTAAAAATTAAATTC
1 AAAATATTATATAATTTT-TTTAAAAATTAAATTC
* *
4144211 ATAATATTATATAATTTTTTTACAAATTAAA
1 AAAATATTATATAATTTTTTTAAAAATTAAA
4144242 AATATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 7 0.26
34 15 0.56
35 5 0.19
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (34 bp):
AAAATATTATATAATTTTTTTAAAAATTAAATTC
Found at i:4144915 original size:25 final size:26
Alignment explanation
Indices: 4144853--4144914 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
4144843 ACTCTCATCA
4144853 TCTAAAATTTTATCAATTTTTTCTCC
1 TCTAAAATTTTATCAATTTTTTCTCC
4144879 TCTAAAATTTTATCAATTTTTTCTCC
1 TCTAAAATTTTATCAATTTTTTCTCC
4144905 TCTAAAATTT
1 TCTAAAATTT
4144915 AAAAAACTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTAAAATTTTATCAATTTTTTCTCC
Found at i:4150031 original size:20 final size:20
Alignment explanation
Indices: 4150006--4150043 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4149996 TTTGGTTCAC
4150006 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
4150026 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
4150044 GGAATAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:4155626 original size:81 final size:81
Alignment explanation
Indices: 4155532--4155914 Score: 534
Period size: 81 Copynumber: 4.7 Consensus size: 81
4155522 AATGCAATGT
* * * *
4155532 TTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAGTGCACAGTTAGGCAATTAACCTTTCAT
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCAT
* *
4155597 CTAAAGGAAATTAACC
66 CTAAAGGCATTTAACC
* * * * **
4155613 TTTCAACTAACTTGCATTATTGTCACCTTTCTTCCAAATGCACAATTAGGCAATTAAGATTTCAT
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCAT
*
4155678 CTAAAGGCATTTAAAC
66 CTAAAGGCATTTAACC
* *
4155694 TTTCATCTAACTTACATTATTGACACATTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCAT
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCAT
* *
4155759 GTAAAAGCATTTAACC
66 CTAAAGGCATTTAACC
* * **
4155775 TTTCATCTAGCTTGAATTATTGGA-AAATTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCA
1 TTTCATCTAACTTGCATTATT-GACACCTTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCA
4155839 TCTAAAGGCATTTAACC
65 TCTAAAGGCATTTAACC
* * *
4155856 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCAAAATTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCAATTAACC
4155915 ATTCTTTTTA
Statistics
Matches: 264, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 2 0.01
81 260 0.98
82 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (81 bp):
TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCAATTAACCTTTCAT
CTAAAGGCATTTAACC
Found at i:4155691 original size:22 final size:22
Alignment explanation
Indices: 4155660--4155703 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4155650 ATGCACAATT
4155660 AGGCAATTAAGA-TTTCATCTAA
1 AGGCAATTAA-ACTTTCATCTAA
*
4155682 AGGCATTTAAACTTTCATCTAA
1 AGGCAATTAAACTTTCATCTAA
4155704 CTTACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
AGGCAATTAAACTTTCATCTAA
Found at i:4155853 original size:22 final size:22
Alignment explanation
Indices: 4155822--4155865 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4155812 ATGCACAGTT
4155822 AGGCAATTAACCTTTCATCTAA
1 AGGCAATTAACCTTTCATCTAA
*
4155844 AGGCATTTAACCTTTCATCTAA
1 AGGCAATTAACCTTTCATCTAA
4155866 CTTGCATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (22 bp):
AGGCAATTAACCTTTCATCTAA
Found at i:4157330 original size:149 final size:150
Alignment explanation
Indices: 4157140--4157438 Score: 591
Period size: 149 Copynumber: 2.0 Consensus size: 150
4157130 GATACAAATT
4157140 TATTTTAAACACTATTTTTAAATCATTTCTTACCCTTTTATTTTATTCAAATTATTCCTCAAATT
1 TATTTTAAACACTATTTTTAAATCATTTCTTACCCTTTTATTTTATTCAAATTATTCCTCAAATT
4157205 TTAAATCTTTTCAATAAAGTCACTGGCCTGATATTTGGGGTATTAC-TGAGATGTTTGAATTATA
66 TTAAATCTTTTCAATAAAGTCACTGGCCTGATATTTGGGGTATTACTTGAGATGTTTGAATTATA
4157269 ACCAATAAAAATGTTAAAGC
131 ACCAATAAAAATGTTAAAGC
4157289 TATTTTAAACACTATTTTTAAATCATTTCTTACCCTTTTATTTTATTCAAATTATTCCTCAAATT
1 TATTTTAAACACTATTTTTAAATCATTTCTTACCCTTTTATTTTATTCAAATTATTCCTCAAATT
4157354 TTAAATCTTTTCAATAAAGTCACTGGCCTGATATTTGGGGTATTACTTGAGATGTTTGAATTATA
66 TTAAATCTTTTCAATAAAGTCACTGGCCTGATATTTGGGGTATTACTTGAGATGTTTGAATTATA
4157419 ACCAATAAAAATGTTAAAGC
131 ACCAATAAAAATGTTAAAGC
4157439 AAAATTGTAA
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
149 111 0.74
150 38 0.26
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (150 bp):
TATTTTAAACACTATTTTTAAATCATTTCTTACCCTTTTATTTTATTCAAATTATTCCTCAAATT
TTAAATCTTTTCAATAAAGTCACTGGCCTGATATTTGGGGTATTACTTGAGATGTTTGAATTATA
ACCAATAAAAATGTTAAAGC
Found at i:4165050 original size:44 final size:43
Alignment explanation
Indices: 4165012--4165290 Score: 283
Period size: 44 Copynumber: 6.4 Consensus size: 43
4165002 GCATTTTTCA
* * * *
4165012 GATACAAACGCCGTAAAAAGTCTGTTATATAGCGGCATTTTTTG
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGC-GTTTTTG
* * * * * *
4165056 GATACAAATGCCACAAAAGGTGTGATATATATACCAGCGTTTTT-
1 GATACAAACGCCGCAAAAGGTCTG--GTATATAGCGGCGTTTTTG
*
4165100 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGTGTTTTTTG
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCG-TTTTTG
* * * *
4165144 GATACAAACGCCGCAAAAGGTGTGATATATAGCGACATTTTT-
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTG
* * * **
4165186 TATATAAACACCGCAAAAGGTCTGGTATATAGTAGCGTTTTTCG
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTT-G
* * *
4165230 GATACAAACGCCGTAAAAGGTATGGTATATAGCGGCGTTTTTT
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTG
*
4165273 GTTACAAACGCCGCAAAA
1 GATACAAACGCCGCAAAA
4165291 TATCTAAATT
Statistics
Matches: 189, Mismatches: 40, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
42 42 0.22
43 26 0.14
44 107 0.57
45 5 0.03
46 9 0.05
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTG
Found at i:4165123 original size:88 final size:88
Alignment explanation
Indices: 4165012--4165290 Score: 323
Period size: 88 Copynumber: 3.2 Consensus size: 88
4165002 GCATTTTTCA
* * * * * *
4165012 GATACAAACGCCGTAAAAAGTCTGTTATATAGCGGCATTTTTTGGATACAAATGCCACAAAAGGT
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGT
4165077 GTGATATATATACCAGCGTTTTT
66 GTGATATATATACCAGCGTTTTT
*
4165100 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGTGTTTTTTGGATACAAACGCCGCAAAAGGT
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGT
* * *
4165165 GTGATATATA-GCGA-CATTTTT
66 GTGATATATATACCAGCGTTTTT
* * * ** * *
4165186 TATATAAACACCGCAAAAGGTCTGGTATATAGTAGCGTTTTTCGGATACAAACGCCGTAAAAGGT
1 GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGT
* * * *
4165251 ATG--GTATATAGCGGCGTTTTTT
66 GTGATATATATACCAGCG-TTTTT
*
4165273 GTTACAAACGCCGCAAAA
1 GATACAAACGCCGCAAAA
4165291 TATCTAAATT
Statistics
Matches: 159, Mismatches: 29, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
84 4 0.03
86 66 0.42
87 21 0.13
88 68 0.43
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (88 bp):
GATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGT
GTGATATATATACCAGCGTTTTT
Found at i:4165226 original size:86 final size:86
Alignment explanation
Indices: 4165013--4165290 Score: 340
Period size: 86 Copynumber: 3.2 Consensus size: 86
4165003 CATTTTTCAG
* * * * * *
4165013 ATACAAACGCCGTAAAAAGTCTGTTATATAGCGGCATTTTTTGGATACAAATGCCACAAAAGGTG
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGTG
* * *
4165078 TGATATATATACCAGCGTTTTTG
66 TGATATATA-GCGA-CGTTTTTT
*
4165101 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGTGTTTTTTGGATACAAACGCCGCAAAAGGTG
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGTG
*
4165166 TGATATATAGCGACATTTTTT
66 TGATATATAGCGACGTTTTTT
* * ** * * *
4165187 ATATAAACACCGCAAAAGGTCTGGTATATAGTAGCGTTTTTCGGATACAAACGCCGTAAAAGGTA
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGTG
* *
4165252 TGGTATATAGCGGCGTTTTTT
66 TGATATATAGCGACGTTTTTT
*
4165273 GTTACAAACGCCGCAAAA
1 -ATACAAACGCCGCAAAA
4165291 TATCTAAATT
Statistics
Matches: 164, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
86 81 0.49
87 16 0.10
88 67 0.41
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (86 bp):
ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTTGGATACAAACGCCGCAAAAGGTG
TGATATATAGCGACGTTTTTT
Found at i:4170072 original size:15 final size:15
Alignment explanation
Indices: 4170062--4170103 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
4170052 ATATCCGATT
4170062 AACATATATCCCAAA
1 AACATATATCCCAAA
*
4170077 AACATATATCCAAATA
1 AACATATATCCCAA-A
4170093 ACACATATATC
1 A-ACATATATC
4170104 AAAATAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 9 0.38
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
AACATATATCCCAAA
Found at i:4170098 original size:17 final size:17
Alignment explanation
Indices: 4170063--4170115 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
4170053 TATCCGATTA
*
4170063 ACATATATCCCAA-AA-
1 ACATATATCCAAATAAC
4170078 ACATATATCCAAATAAC
1 ACATATATCCAAATAAC
*
4170095 ACATATATCAAAATAAC
1 ACATATATCCAAATAAC
4170112 ACAT
1 ACAT
4170116 TTGGATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.35
16 2 0.06
17 20 0.59
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (17 bp):
ACATATATCCAAATAAC
Found at i:4173014 original size:137 final size:137
Alignment explanation
Indices: 4172768--4173042 Score: 550
Period size: 137 Copynumber: 2.0 Consensus size: 137
4172758 TTCCATCGAA
4172768 AAATGTCCCACCTTTAAGAGGATTGTTCAAATGATATGATAAAAATCACATTCATTTCAACAATT
1 AAATGTCCCACCTTTAAGAGGATTGTTCAAATGATATGATAAAAATCACATTCATTTCAACAATT
4172833 TAGAGTCACCCAATGTTGCACAAAATCTGCTACCTAATCAAGGGGAACTAGGAGTTAACGCCATA
66 TAGAGTCACCCAATGTTGCACAAAATCTGCTACCTAATCAAGGGGAACTAGGAGTTAACGCCATA
4172898 GTCGACG
131 GTCGACG
4172905 AAATGTCCCACCTTTAAGAGGATTGTTCAAATGATATGATAAAAATCACATTCATTTCAACAATT
1 AAATGTCCCACCTTTAAGAGGATTGTTCAAATGATATGATAAAAATCACATTCATTTCAACAATT
4172970 TAGAGTCACCCAATGTTGCACAAAATCTGCTACCTAATCAAGGGGAACTAGGAGTTAACGCCATA
66 TAGAGTCACCCAATGTTGCACAAAATCTGCTACCTAATCAAGGGGAACTAGGAGTTAACGCCATA
4173035 GTCGACG
131 GTCGACG
4173042 A
1 A
4173043 TGGTGTTGAT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (137 bp):
AAATGTCCCACCTTTAAGAGGATTGTTCAAATGATATGATAAAAATCACATTCATTTCAACAATT
TAGAGTCACCCAATGTTGCACAAAATCTGCTACCTAATCAAGGGGAACTAGGAGTTAACGCCATA
GTCGACG
Found at i:4176513 original size:6 final size:6
Alignment explanation
Indices: 4176504--4176568 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
4176494 TGAAAAGAAG
* * * *
4176504 AAAAGA AAAAGA AAAAAA AAGAAGA AGAAGA AGAAGA ATAAGAA AAAAGA
1 AAAAGA AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAG-A AAAAGA
*
4176554 AAAA-A AAGAGA AAAA
1 AAAAGA AAAAGA AAAA
4176569 AAGAGGGGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 4 0.08
6 36 0.73
7 9 0.18
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:4176528 original size:3 final size:3
Alignment explanation
Indices: 4176498--4176547 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
4176488 AAAAAATGAA
* * *
4176498 AAG AAG AA- AAG AAA AAG AA- AA- AAA AAG AAG AAG AAG AAG AAG AAT
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
4176543 AAG AA
1 AAG AA
4176548 AAAAGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:4176558 original size:9 final size:9
Alignment explanation
Indices: 4176509--4176572 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
4176499 AGAAGAAAAG
4176509 AAAAAGAAAA
1 AAAAAG-AAA
*
4176519 AAAAAGAAG
1 AAAAAGAAA
* *
4176528 AAGAAGAAG
1 AAAAAGAAA
* *
4176537 AAGAATAAGA
1 AAAAAGAA-A
4176547 AAAAAGAAA
1 AAAAAGAAA
4176556 AAAAAGAGAA
1 AAAAAGA-AA
4176566 AAAAAGA
1 AAAAAGA
4176573 GGGGGTCAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
9 25 0.54
10 21 0.46
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:4177430 original size:114 final size:114
Alignment explanation
Indices: 4177227--4177896 Score: 1126
Period size: 114 Copynumber: 6.0 Consensus size: 114
4177217 GTGCCACGTT
*
4177227 CTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
4177292 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTG
* *
4177341 CTTATAGTAGAAATAAGAAGACCCAATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
4177406 ATTTGGTATAAACCCCAAAATCAATCATTAGATTTAAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTG
4177455 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
4177520 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTG
* *
4177569 CTCATACTAGAAATAAGAAGACCCGATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
4177634 ATTTGGTATGAACCCTAAAATCAATCATTAGATTTAAAAGATGAATTT-
66 ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTG
*
4177682 CTCATAGTAGAAATAAGAAGACCCAATAGCATC-T-T-GAAGTGTTCTTTGAGTTATCTGCTCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * *
4177744 ATTTAGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTT
66 ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTG
4177793 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
4177858 -TTT-GTA-GAACCCC-AAA-CAATCATTAGA-ATGAAAGATGAA
66 ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAA
4177897 CTGCATGATT
Statistics
Matches: 526, Mismatches: 26, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
108 11 0.02
109 10 0.02
110 73 0.14
111 41 0.08
112 5 0.01
113 35 0.07
114 351 0.67
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTTGGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTG
Found at i:4178782 original size:113 final size:112
Alignment explanation
Indices: 4178618--4179482 Score: 1128
Period size: 113 Copynumber: 7.7 Consensus size: 112
4178608 TTTAAGTCAG
* * * * **
4178618 AGTTTATAATGAGATGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAGCTCATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
4178683 AACCTTTTGCTCATATCCATCACTCGATGGATCAACATTTCAAGAGAA
66 AACCTTTTGTTGA-ATTCATCATTCGATGGATCAACATTTCCAGAGAA
*
4178731 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
4178796 AACTTTTTGTTTGAATTCATCATTCAATGGATCATCATTTCCAGAGAA
66 AACCTTTTG-TTGAATTCATCATTCGATGGATCAACATTTCCAGAGAA
* *
4178844 GGAATTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 --AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * *
4178909 TCAACTTTTTGGTTGAATTCATCATTCGATGGATCATCATTTCAAGAGAA
64 TCAACCTTTT-GTTGAATTCATCATTCGATGGATCAACATTTCCAGAGAA
*
4178959 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
4179024 AACTTTTTGTTTGAATTCATCATTCGATGGATCATCATTTCCAGAGAA
66 AACCTTTTG-TTGAATTCATCATTCGATGGATCAACATTTCCAGAGAA
*
4179072 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
** * * * * *
4179137 AACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGA-AGG
66 AACCTTTTG-TTGAATTCATCATTCGATGGATCAACATTTCCAGAGA-A
* * *
4179185 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
4179250 AACCTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAG-GTAG
66 AACCTTTTG-TTGAATTCATCATTCGATGGATCAACATTTCCAGAG-AA
* ** * *
4179298 AGTTCATAATGAGAAGAACTCGTCATCTA-AA-GAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
4179361 CAACTTTTTGTTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAA
65 CAACCTTTTG-TTGAATTCATCATTCGATGGATCAACATTTCCAGAGAA
* * **
4179410 AATTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGTTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
4179474 AACCTTTTG
66 AACCTTTTG
4179483 CATAACTCTA
Statistics
Matches: 676, Mismatches: 65, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
111 2 0.00
112 133 0.20
113 427 0.63
114 5 0.01
115 108 0.16
116 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGTTGAATTCATCATTCGATGGATCAACATTTCCAGAGAA
Found at i:4179217 original size:226 final size:225
Alignment explanation
Indices: 4178618--4179603 Score: 1211
Period size: 226 Copynumber: 4.3 Consensus size: 225
4178608 TTTAAGTCAG
* * * **
4178618 AGTTTATAATGAGATGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAGCTCATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
*
4178683 AACCTTTTGCTCATATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGA
65 AACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGA
* *
4178748 ACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
130 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATT
*
4178813 CATCATTCAATGGATCATCATTTCCAGAGAA
195 CATCATTCGATGGATCATCATTTCCAGAGAA
* *
4178844 GGAATTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 --AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGT
* * ** * * *
4178909 TCAACTTTTTGGTTGAATTCATCATTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAA
63 TCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAA
* *
4178974 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGTTTGAA
128 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAA
4179039 TTCATCATTCGATGGATCATCATTTCCAGAGAA
193 TTCATCATTCGATGGATCATCATTTCCAGAGAA
4179072 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * *
4179137 AACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGA-AGGAGTTCATAATGAGAAG
65 AACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGA-AAGTTCATAATGAGAAG
* * * *
4179201 AACTTATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAAT
129 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAAT
* * * *
4179266 TCATCATTTGATGGATCAACATTGCCAG-GTAG
194 TCATCATTCGATGGATCATCATTTCCAGAG-AA
* ** * **
4179298 AGTTCATAATGAGAAGAACTCGTCATCTA-AAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * * * * *
4179362 AACTTTTTGTTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAATTCATAATGAGAAGA
65 AACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGA
* ** ** *
4179427 ACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGCAT-AACT
130 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATT
* *
4179490 CTATCA--CAGAAGGAGATATATCATCATCAGCATTTCCAGAAGGA
195 C-ATCATTC-G-ATG-G-------ATCAT---CATTTCCAG-AGAA
4179534 A-TTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
4179595 ACCTTTTGC
66 ACCTTTTGC
4179604 ATAACTCTAT
Statistics
Matches: 665, Mismatches: 72, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
223 5 0.01
224 47 0.07
225 103 0.15
226 225 0.34
227 2 0.00
228 207 0.31
232 44 0.07
234 1 0.00
235 29 0.04
236 1 0.00
237 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (225 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
ACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTC
ATCATTCGATGGATCATCATTTCCAGAGAA
Found at i:4179250 original size:454 final size:454
Alignment explanation
Indices: 4178618--4179603 Score: 1325
Period size: 454 Copynumber: 2.2 Consensus size: 454
4178608 TTTAAGTCAG
* * * **
4178618 AGTTTATAATGAGATGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAGCTCATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
*
4178683 AACCTTTTGCTCATATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGA
* * * *
4178748 ACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
131 ACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATT
* * *
4178813 CATCATTCAATGGATCATCATTTCCAGAGAAGGAATTCATAATGAGAAGAACTCATC-TGAAGAA
196 CATCATTCAATGGATCAACATTGCCAG-GAA-GAATTCATAATGAGAAGAACTCATCATCAA-AA
* * *
4178877 TGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGGTTGAATTCATCATTCGATGGA
258 -GAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGGTTAAATTCATCACTCGATGGA
* *
4178942 TCATCATTTCAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
322 TCAACATTTCAAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATA
* ** * *
4179007 ATAAGAAGAACTTGTTCAACTTTTTGTTTGAATTC-ATCATTC-G-ATG-G-ATCAT-CATTTCC
386 ATAAGAAGAACTTGTTCAACCTTTTGCAT-AACTCTATCA--CAGAAGGAGAATCATACATTTCC
4179066 AG-AGAA
448 AGAAGAA
4179072 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * *
4179137 AACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGA-AGGAGTTCATAATGAGAAG
66 AACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGA-AAGTTCATAATGAGAAG
* *
4179201 AACTTATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAAT
130 AACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAAT
** * * * *
4179266 TCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGA
195 TCATCATTCAATGGATCAACATTGCCAGGAAGAATTCATAATGAGAAGAACTCATCATCAAAAGA
* *
4179331 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTAAATTCATCACTCGATGGATCA
260 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGGTTAAATTCATCACTCGATGGATCA
* * * *
4179396 ACTTTTCCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGA
325 ACATTTCAAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATAA
**
4179461 GAAGAGTTTGTTCAACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTC
390 GAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAGGAG----A--ATCAT-A-CATTTC
*
4179526 CAGAAGGA
447 CAGAAGAA
4179534 A-TTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
4179594 AACCTTTTGC
66 AACCTTTTGC
4179604 ATAACTCTAT
Statistics
Matches: 471, Mismatches: 44, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
448 1 0.00
449 5 0.01
450 45 0.10
451 103 0.22
452 25 0.05
453 5 0.01
454 200 0.42
457 43 0.09
458 8 0.02
461 32 0.07
462 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (454 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
AACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCAAGAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATT
CATCATTCAATGGATCAACATTGCCAGGAAGAATTCATAATGAGAAGAACTCATCATCAAAAGAA
GAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGGTTAAATTCATCACTCGATGGATCAA
CATTTCAAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATAAG
AAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAGGAGAATCATACATTTCCAGAAGAA
Found at i:4179615 original size:120 final size:120
Alignment explanation
Indices: 4179410--4179747 Score: 545
Period size: 120 Copynumber: 2.8 Consensus size: 120
4179400 TTCCAGAGAA
*
4179410 AATTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCA
1 AATTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCA
4179475 ACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCCAGAAGG
63 ACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCCAGAAGG
*
4179533 AATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
1 AATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACC
*
4179598 TTTTGCATAACTCTATCACAGAAGGAGAAATATCATCATCAGCATTTCCAGAAGG
66 TTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCCAGAAGG
* * * *
4179653 AATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAAGGAGGAGAATTTGTTCAACT
1 AATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACC
*
4179718 TTTTGC-TAGATTAC-ATCACAGAAGGAGATA
66 TTTTGCATA-ACT-CTATCACAGAAGGAGATA
4179748 AATTGTCATC
Statistics
Matches: 203, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
119 2 0.01
120 176 0.87
121 1 0.00
123 24 0.12
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (120 bp):
AATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACC
TTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCCAGAAGG
Found at i:4179953 original size:3 final size:3
Alignment explanation
Indices: 4179947--4180008 Score: 72
Period size: 3 Copynumber: 20.0 Consensus size: 3
4179937 TTTTTATTTT
* *
4179947 TTA TTA TTA TTA TTTA TTA TTA TTA CTA TTA TTA ATA TTA TTA TTTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
4179994 TTA TTAA TT- TTA TTA
1 TTA TT-A TTA TTA TTA
4180009 CAGGCCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4179987 original size:28 final size:28
Alignment explanation
Indices: 4179947--4180008 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4179937 TTTTTATTTT
* *
4179947 TTATTATTATTATT-TATTATTATTACTA
1 TTATTAATATTATTAT-TTATTATTAATA
*
4179975 TTATTAATATTATTATTTATTATTAATT
1 TTATTAATATTATTATTTATTATTAATA
4180003 TTATTA
1 TTATTA
4180009 CAGGCCCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTATTAATATTATTATTTATTATTAATA
Found at i:4181598 original size:20 final size:19
Alignment explanation
Indices: 4181573--4181614 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4181563 TTATTTTATA
4181573 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
4181593 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
4181612 AAT
1 AAT
4181615 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:4186902 original size:2 final size:2
Alignment explanation
Indices: 4186895--4186921 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4186885 ATCATATTAA
4186895 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4186922 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4186926 original size:2 final size:2
Alignment explanation
Indices: 4186921--4186972 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4186911 TCTCTCTCTC
4186921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4186963 TA TA TA TA TA
1 TA TA TA TA TA
4186973 CCTCAGAGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4190715 original size:15 final size:16
Alignment explanation
Indices: 4190695--4190735 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4190685 GTTTACTTCA
*
4190695 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
4190710 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
4190726 GAATGATTCA
1 GAATGATTCA
4190736 GAGGCTTTGA
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:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:4193984 original size:25 final size:25
Alignment explanation
Indices: 4193950--4193997 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
4193940 TAAACAAAAA
4193950 TATGAAATGCCACATTATAGCCTTT
1 TATGAAATGCCACATTATAGCCTTT
*
4193975 TATGAAATGCTACATTATAGCCT
1 TATGAAATGCCACATTATAGCCT
4193998 CTTAAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (25 bp):
TATGAAATGCCACATTATAGCCTTT
Found at i:4194865 original size:25 final size:27
Alignment explanation
Indices: 4194815--4194868 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
4194805 CATCAAATAC
4194815 AATAAATAATATTATTTATTAATAAAAT
1 AATAAATAATATTATTTATT-ATAAAAT
4194843 AATAAATAATATTATTT-TT-TAAAAT
1 AATAAATAATATTATTTATTATAAAAT
4194868 A
1 A
4194869 TTATACCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.27
27 2 0.08
28 17 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AATAAATAATATTATTTATTATAAAAT
Found at i:4195014 original size:17 final size:17
Alignment explanation
Indices: 4194992--4195042 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
4194982 TATCAATTAC
4194992 TTATTAAAATAATAATA
1 TTATTAAAATAATAATA
* *
4195009 TTATTAAAAATATTAAAA
1 TTATT-AAAATAATAATA
*
4195027 TTATAAAAATAA-AATA
1 TTATTAAAATAATAATA
4195043 ACAATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTATTAAAATAATAATA
Found at i:4196578 original size:21 final size:20
Alignment explanation
Indices: 4196550--4196588 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4196540 CCTTGTCCAA
4196550 AATATCCACAT-TTGCCTCTG
1 AATATCCA-ATATTGCCTCTG
4196570 AATACTCCAATATTGCCTC
1 AATA-TCCAATATTGCCTC
4196589 CACAAGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (20 bp):
AATATCCAATATTGCCTCTG
Found at i:4201221 original size:114 final size:110
Alignment explanation
Indices: 4201009--4201234 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 110
4200999 CTTAAAATAC
* * * *
4201009 AATAATATTTTTTTAACTACTTCAATCATTCAATAAGCTTTAAGAATATTAATTACTTTTTTTTA
1 AATAATATTTTTTTAACTACTTAAATCACTCAATAAACTTCAAGAATATTAATTACTTTTTTTTA
4201074 AAAAAGTGATATTTTATAAAAATAATTCAAATTCAAACAACTGTA
66 AAAAAGTGATATTTTATAAAAATAATTCAAATTCAAACAACTGTA
4201119 AATAATATTCTTTTTAACTACTTAAATCACTCAATAAACTTCAAGAATATTAATTACTTTTTTTT
1 AATAATATT-TTTTTAACTACTTAAATCACTCAATAAACTTCAAGAATATTAATTAC-TTTTTTT
* *
4201184 ATAAAAAAAGTGATATTTTATAAAAATAATTTAAATTCAAACAATTGTA
64 -T-AAAAAAGTGATATTTTATAAAAATAATTCAAATTCAAACAACTGTA
4201233 AA
1 AA
4201235 CCATTTTCTT
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
110 9 0.08
111 43 0.41
112 7 0.07
113 1 0.01
114 46 0.43
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (110 bp):
AATAATATTTTTTTAACTACTTAAATCACTCAATAAACTTCAAGAATATTAATTACTTTTTTTTA
AAAAAGTGATATTTTATAAAAATAATTCAAATTCAAACAACTGTA
Found at i:4206078 original size:26 final size:26
Alignment explanation
Indices: 4206049--4206098 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
4206039 GAATTCTTTA
4206049 TATTTCATCCATCTTCTTATTCTCCC
1 TATTTCATCCATCTTCTTATTCTCCC
* * * *
4206075 TATTTCCTCCGTTTTCTTCTTCTC
1 TATTTCATCCATCTTCTTATTCTC
4206099 TTTCTCTACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.10, C:0.34, G:0.02, T:0.54
Consensus pattern (26 bp):
TATTTCATCCATCTTCTTATTCTCCC
Found at i:4213000 original size:64 final size:64
Alignment explanation
Indices: 4212927--4213054 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
4212917 TCCTAATCCT
*
4212927 TTGGAGTATTAAGCTTTCATAAATTT-ATAGTATTTCCTAATATATGAGTATTTAGGCATTTTAG
1 TTGGAGTATTAAGCTTTCATAAATTTCAT-GTATTTCCTAATATATGAGTATTTAAGCATTTTAG
*
4212991 TTGGAGTATTAAGCTTTCATAAATTTCATGTCTTTCCTAATATATGAGTATTTAAGCATTTTAG
1 TTGGAGTATTAAGCTTTCATAAATTTCATGTATTTCCTAATATATGAGTATTTAAGCATTTTAG
4213055 GTTTATATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 59 0.97
65 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (64 bp):
TTGGAGTATTAAGCTTTCATAAATTTCATGTATTTCCTAATATATGAGTATTTAAGCATTTTAG
Found at i:4214073 original size:20 final size:20
Alignment explanation
Indices: 4214044--4214082 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4214034 AGAGTTCATA
*
4214044 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
4214064 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
4214083 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:4219362 original size:20 final size:20
Alignment explanation
Indices: 4219325--4219363 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4219315 ATTTCACCAC
**
4219325 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATAATCCTAA
*
4219345 ATGCATCTATATAATCCTA
1 ATGCAACTATATAATCCTA
4219364 TATGAGCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATAATCCTAA
Found at i:4223075 original size:13 final size:12
Alignment explanation
Indices: 4223043--4223076 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4223033 ACAGAGCTCT
4223043 GGTTTTTATAAA
1 GGTTTTTATAAA
*
4223055 TGTTTTTATAAA
1 GGTTTTTATAAA
4223067 GGTTATTTAT
1 GGTT-TTTAT
4223077 GTTTCAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (12 bp):
GGTTTTTATAAA
Found at i:4233299 original size:14 final size:14
Alignment explanation
Indices: 4233244--4233316 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
4233234 AATTGTTGTC
*
4233244 TTTAAACTATTTAT
1 TTTAAACTATTGAT
* * **
4233258 TCTAAACTGTCAAT
1 TTTAAACTATTGAT
* * *
4233272 TTTGAGCTACTGAT
1 TTTAAACTATTGAT
4233286 TTTAAACTATTGAT
1 TTTAAACTATTGAT
* *
4233300 TTTGAACAATTGAT
1 TTTAAACTATTGAT
4233314 TTT
1 TTT
4233317 GAGGCTATTT
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (14 bp):
TTTAAACTATTGAT
Found at i:4239297 original size:20 final size:20
Alignment explanation
Indices: 4239263--4239312 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4239253 CTACACATGC
* *
4239263 AGTTTCAAAAGTTTGAAGAA
1 AGTTTCGAAACTTTGAAGAA
* * *
4239283 TGTTTTGAAACTTTGATGAA
1 AGTTTCGAAACTTTGAAGAA
4239303 AGTTTCGAAA
1 AGTTTCGAAA
4239313 TTCTTACTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (20 bp):
AGTTTCGAAACTTTGAAGAA
Found at i:4239528 original size:20 final size:22
Alignment explanation
Indices: 4239491--4239541 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
4239481 ATAATATTTT
4239491 TCATATTTAAAAAGCTTTAAAC-
1 TCAT-TTTAAAAAGCTTTAAACA
*
4239513 TCATTTTAAACA-CTTTAAACA
1 TCATTTTAAAAAGCTTTAAACA
4239534 T-ATTTTAA
1 TCATTTTAA
4239542 TTAACTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 15 0.56
21 8 0.30
22 4 0.15
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (22 bp):
TCATTTTAAAAAGCTTTAAACA
Found at i:4247676 original size:52 final size:52
Alignment explanation
Indices: 4247598--4247699 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
4247588 GCAATTAAAG
* *
4247598 ATAGAAAATTTGGCACAATGATTTATAGTGGTTCGACTTCTCAACCAAGTTT
1 ATAGAAAATTTGGCAAAATGATTTATAGTGGTTCAACTTCTCAACCAAGTTT
4247650 ATAGAAAATTTGGCAAAATGATTTATAGTGGTTCAACTTCTCAACCAAGT
1 ATAGAAAATTTGGCAAAATGATTTATAGTGGTTCAACTTCTCAACCAAGT
4247700 CTACATCCAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (52 bp):
ATAGAAAATTTGGCAAAATGATTTATAGTGGTTCAACTTCTCAACCAAGTTT
Found at i:4249146 original size:46 final size:46
Alignment explanation
Indices: 4249073--4249430 Score: 412
Period size: 46 Copynumber: 7.7 Consensus size: 46
4249063 ATACCATGAG
* * * * * *
4249073 TGGCA-CCTTTTATGTCGTTAATACACCGTTATGTATTTTCATTTG
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
** *
4249118 TGGCATCCTTTCATGTTGATTATGCACCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
4249164 TGGAATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* * * * *
4249210 TGACATCATTTAAAGCCGATAATGCATCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* * * *
4249256 TGGCATCCTTTCATACCGATAAAGCACCATTATGTATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
4249302 TGACATCCTTTCATGCCAATAATGCACCGTTTTTGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACC------GTTATGCATTTTCATTTA
* * *
4249354 TGGCATCCTTTCATGCCGATAATCCACTGTTATGGATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
4249400 TGGCATCCTTTTATGTCGATAATGCACCGTT
1 TGGCATCCTTTCATGCCGATAATGCACCGTT
4249431 TATCATCTAA
Statistics
Matches: 263, Mismatches: 43, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
45 5 0.02
46 218 0.83
52 40 0.15
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (46 bp):
TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
Found at i:4249373 original size:98 final size:98
Alignment explanation
Indices: 4249145--4249431 Score: 379
Period size: 98 Copynumber: 3.0 Consensus size: 98
4249135 GATTATGCAC
* *
4249145 CGTTATGCATTTTCATTTATGGAATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTA
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
4249210 TGACATCATTTAAAGCCGATAATGCA------T
66 TGACATCCTTTAATGCCGATAATGCACCGTTTT
* * * *
4249237 CGTTATGCATTTTCATTTATGGCATCCTTTCATACCGATAAAGCACCATTATGTATTTTCATTTA
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
4249302 TGACATCCTTTCATGCCAATAATGCACCGTTTT
66 TGACATCCTTTAATGCCGATAATGCACCGTTTT
* * * *
4249335 TGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATCCACTGTTATGGATTTTCATTTA
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* * *
4249400 TGGCATCCTTTTATGTCGATAATGCACCGTTT
66 TGACATCCTTTAATGCCGATAATGCACCGTTT
4249432 ATCATCTAAC
Statistics
Matches: 168, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
92 81 0.48
98 87 0.52
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (98 bp):
CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
TGACATCCTTTAATGCCGATAATGCACCGTTTT
Found at i:4249511 original size:98 final size:98
Alignment explanation
Indices: 4249420--4249690 Score: 339
Period size: 98 Copynumber: 2.8 Consensus size: 98
4249410 TTATGTCGAT
* * *
4249420 AATGCACCGTTTATCATCTAACTTGCATTAGTGGCACATTTCAACAAAAAATGTATCGTTAGACA
1 AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCAACCAAAAATGTATCGTTAGACA
*
4249485 TTTAATTTGCATCAATGGAACCTTTATGCAAAA
66 TTTAACTTGCATCAATGGAACCTTTATGCAAAA
* * ** * *
4249518 AATGCACCATTTGTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCGTTAGGCA
1 AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCAACCAAAAATGTATCGTTAGACA
* * * *
4249583 TTTAACTTGCATTAGTGGCACCTTTCTGCCAAAA
66 TTTAACTTGCATCAATGGAACCTTTATG-CAAAA
* * *
4249617 AATGCACCGTTTGTAATCTAACTTGCATTAGTGGGACCTTT-ATACCAAAAATGTA-CAGGTAGA
1 AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCA-ACCAAAAATGTATC-GTTAGA
*
4249680 CATTTAGCTTG
64 CATTTAACTTG
4249691 TATTAGTGGC
Statistics
Matches: 146, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
98 80 0.55
99 66 0.45
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (98 bp):
AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCAACCAAAAATGTATCGTTAGACA
TTTAACTTGCATCAATGGAACCTTTATGCAAAA
Found at i:4249645 original size:99 final size:98
Alignment explanation
Indices: 4249420--4249707 Score: 371
Period size: 99 Copynumber: 2.9 Consensus size: 98
4249410 TTATGTCGAT
* * * *
4249420 AATGCACCGTTTATCATCTAACTTGCATTAGTGGCACATTTCAACAAAAAATGTATCGTTAGACA
1 AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGTATCGTTAGACA
* * * *
4249485 TTTAATTTGCATCAATGGAACCTTTATGCAAAA
66 TTTAACTTGCATTAGTGGCACCTTTATGCAAAA
* * * * *
4249518 AATGCACCATTTGTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCGTTAGGCA
1 AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGTATCGTTAGACA
*
4249583 TTTAACTTGCATTAGTGGCACCTTTCTGCCAAAA
66 TTTAACTTGCATTAGTGGCACCTTTATG-CAAAA
* * * *
4249617 AATGCACCGTTTGTAATCTAACTTGCATTAGTGGGACCTTTATACCAAAAATGTA-CAGGTAGAC
1 AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGTATC-GTTAGAC
* *
4249681 ATTTAGCTTGTATTAGTGGCACCTTTA
65 ATTTAACTTGCATTAGTGGCACCTTTA
4249708 CAGAGGTATT
Statistics
Matches: 162, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
98 80 0.49
99 82 0.51
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (98 bp):
AATGCACCGTTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGTATCGTTAGACA
TTTAACTTGCATTAGTGGCACCTTTATGCAAAA
Found at i:4249707 original size:49 final size:48
Alignment explanation
Indices: 4249438--4249707 Score: 229
Period size: 49 Copynumber: 5.5 Consensus size: 48
4249428 GTTTATCATC
* * * *
4249438 TAACTTGCATTAGTGGCACATTTCA-ACAAAAAATGTATCGTTAGACATT
1 TAACTTGCATTAGTGGCACCTTT-ATGCCAAAAATGCA-CGTTAGACATT
* * * * * * * * *
4249487 TAATTTGCATCAATGGAACCTTTATGCAAAAAATGCACCATTTGTCATC
1 TAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCA-CGTTAGACATT
* * *
4249536 TAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCA-CGTTAGACATT
* * *
4249585 TAACTTGCATTAGTGGCACCTTTCTGCCAAAAAATGCACCGTTTGTA-ATC
1 TAACTTGCATTAGTGGCACCTTTATGCC-AAAAATGCA-CGTTAG-ACATT
* * * *
4249635 TAACTTGCATTAGTGGGACCTTTATACCAAAAATGTACAGGTAGACATT
1 TAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCAC-GTTAGACATT
* *
4249684 TAGCTTGTATTAGTGGCACCTTTA
1 TAACTTGCATTAGTGGCACCTTTA
4249708 CAGAGGTATT
Statistics
Matches: 177, Mismatches: 39, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
48 3 0.02
49 133 0.75
50 41 0.23
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (48 bp):
TAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCACGTTAGACATT
Found at i:4255409 original size:181 final size:181
Alignment explanation
Indices: 4255105--4255466 Score: 724
Period size: 181 Copynumber: 2.0 Consensus size: 181
4255095 AGAAACATGC
4255105 TCAATACCTTGATAACCATCAACCATGAATTCCACCTCTCAATCTAGAGGTAACCCAGTTAATTC
1 TCAATACCTTGATAACCATCAACCATGAATTCCACCTCTCAATCTAGAGGTAACCCAGTTAATTC
4255170 ATTTGAAAAGAAATCTATAAATTCCCTAGTTGTGGAGCTATCATATAATTCTACTTAATTATTTG
66 ATTTGAAAAGAAATCTATAAATTCCCTAGTTGTGGAGCTATCATATAATTCTACTTAATTATTTG
4255235 AGTATCTATCGCATTAGCCAAAAATGTTATACATCTTTCTGACATCATTTT
131 AGTATCTATCGCATTAGCCAAAAATGTTATACATCTTTCTGACATCATTTT
4255286 TCAATACCTTGATAACCATCAACCATGAATTCCACCTCTCAATCTAGAGGTAACCCAGTTAATTC
1 TCAATACCTTGATAACCATCAACCATGAATTCCACCTCTCAATCTAGAGGTAACCCAGTTAATTC
4255351 ATTTGAAAAGAAATCTATAAATTCCCTAGTTGTGGAGCTATCATATAATTCTACTTAATTATTTG
66 ATTTGAAAAGAAATCTATAAATTCCCTAGTTGTGGAGCTATCATATAATTCTACTTAATTATTTG
4255416 AGTATCTATCGCATTAGCCAAAAATGTTATACATCTTTCTGACATCATTTT
131 AGTATCTATCGCATTAGCCAAAAATGTTATACATCTTTCTGACATCATTTT
4255467 CTTCATAATC
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (181 bp):
TCAATACCTTGATAACCATCAACCATGAATTCCACCTCTCAATCTAGAGGTAACCCAGTTAATTC
ATTTGAAAAGAAATCTATAAATTCCCTAGTTGTGGAGCTATCATATAATTCTACTTAATTATTTG
AGTATCTATCGCATTAGCCAAAAATGTTATACATCTTTCTGACATCATTTT
Found at i:4257660 original size:18 final size:19
Alignment explanation
Indices: 4257623--4257663 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4257613 CACCATTTAC
4257623 ATGAATCAAATTGCTACAAA
1 ATGAATCAAA-TGCTACAAA
*
4257643 ATGAATCAAA-GTTACAAA
1 ATGAATCAAATGCTACAAA
4257661 ATG
1 ATG
4257664 GAAAACTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (19 bp):
ATGAATCAAATGCTACAAA
Found at i:4257895 original size:24 final size:24
Alignment explanation
Indices: 4257868--4257923 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
4257858 GAAATGTCAT
*
4257868 AGGACATGTCTTGTGGGTCACCAA
1 AGGACATGTCTTATGGGTCACCAA
4257892 AGGACATGTCTTATGGGTCACCAA
1 AGGACATGTCTTATGGGTCACCAA
*
4257916 AGGTCATG
1 AGGACATG
4257924 ACTATTGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (24 bp):
AGGACATGTCTTATGGGTCACCAA
Found at i:4259123 original size:23 final size:25
Alignment explanation
Indices: 4259093--4259143 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4259083 CTTTTCTTTC
* *
4259093 TTTTTTC-T-TTTTGAGTGCTTGAA
1 TTTTTTCTTCTTTTGAGTACTTCAA
4259116 TTTTTTCTTCTTTTGAGTACTTCAA
1 TTTTTTCTTCTTTTGAGTACTTCAA
4259141 TTT
1 TTT
4259144 CTTTGCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 1 0.04
25 16 0.67
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (25 bp):
TTTTTTCTTCTTTTGAGTACTTCAA
Found at i:4262640 original size:46 final size:46
Alignment explanation
Indices: 4262563--4262804 Score: 331
Period size: 46 Copynumber: 5.3 Consensus size: 46
4262553 TTTATGTCGT
* * * *
4262563 TAATACACCGTTATGTATGTTCATTTGTGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* **
4262609 TTATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCATA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
** *
4262655 TAATGCACCACTATGCATTTTCATTTATGGCATTCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* *
4262701 TAATGCACCATTATGTATTTTCATTTATGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * * *
4262747 TAATGCACCGTTATACATTTTCATTTAGGGCATCCTTTTATGCTGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
*
4262793 TAATGCAACGTT
1 TAATGCACCGTT
4262805 TGTCATCTAA
Statistics
Matches: 173, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 173 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
Found at i:4262885 original size:49 final size:49
Alignment explanation
Indices: 4262808--4263137 Score: 331
Period size: 49 Copynumber: 6.8 Consensus size: 49
4262798 CAACGTTTGT
* * * * *
4262808 CATCTAACTTGTATTAGTGGCACATTTCTACCAAAAAGGCACCGTTAGG
1 CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
* * * *
4262857 CAAT-TAACTTGCATTAGTGGCACCTTTCTGCAAAAAATACACCATTTGT
1 C-ATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
* * *
4262906 CATCTAACTTGCATTAGTGGCACTTTTCTACCAAAAATGCACCGTTAGG
1 CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
* * * * * * * *
4262955 CATTTAACTTGCATTACTGGCACATTTTTGCAAAAAATGCATCATTTGT
1 CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
* * * **
4263004 CATCTAACTTGCATTAGTGGTACCTTTCTGCAAAAAATGCGCTGTTAGG
1 CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
* ** ** * *
4263053 CATTTAA-TTGCACAAGTGGCAATTTTCTGCCAAAAATGCACCATTTGT
1 CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
* *
4263101 CATCTAACATGCATTAGTGGCACCTTTTTGCCAAAAA
1 CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAA
4263138 AAACACCATT
Statistics
Matches: 222, Mismatches: 56, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
48 38 0.17
49 182 0.82
50 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (49 bp):
CATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAGG
Found at i:4262922 original size:98 final size:98
Alignment explanation
Indices: 4262794--4263137 Score: 458
Period size: 98 Copynumber: 3.5 Consensus size: 98
4262784 TTATGCTGAT
* * * * *
4262794 AATGCAACGTTTGTCATCTAACTTGTATTAGTGGCACATTTCTACCAAAAAGGCACCGTTAGGCA
1 AATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGGCA
* *
4262859 ATTAACTTGCATTAGTGGCACCTTTCTGCAAAA
66 TTTAACTTGCATTAGTGGCACATTTCTGCAAAA
* *
4262892 AATACACCATTTGTCATCTAACTTGCATTAGTGGCACTTTTCTACCAAAAATGCACCGTTAGGCA
1 AATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGGCA
* *
4262957 TTTAACTTGCATTACTGGCACATTTTTGCAAAA
66 TTTAACTTGCATTAGTGGCACATTTCTGCAAAA
* * * * * *
4262990 AATGCATCATTTGTCATCTAACTTGCATTAGTGGTACCTTTCTGCAAAAAATGCGCTGTTAGGCA
1 AATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGGCA
** *
4263055 TTTAA-TTGCACAAGTGGCA-ATTTTCTGCCAAA
66 TTTAACTTGCATTAGTGGCACA-TTTCTGCAAAA
* * *
4263087 AATGCACCATTTGTCATCTAACATGCATTAGTGGCACCTTTTTGCCAAAAA
1 AATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAA
4263138 AAACACCATT
Statistics
Matches: 217, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
96 1 0.00
97 66 0.30
98 150 0.69
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (98 bp):
AATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGGCA
TTTAACTTGCATTAGTGGCACATTTCTGCAAAA
Found at i:4264678 original size:74 final size:74
Alignment explanation
Indices: 4264557--4264704 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
4264547 GTTCCCATGA
4264557 GGATTGAAGGAAATTGCAGTATAAGTTAAAGCGCGAATATTAAACTACCTAAGAAAAGTTAATGT
1 GGATTGAAGGAAATTGCAGTATAAGTTAAAGCGCGAATATTAAACTACCTAAGAAAAGTTAATGT
4264622 GGTGGTATG
66 GGTGGTATG
4264631 GGATTGAAGGAAATTGCAGTATAAGTTAAAGCGCGAATATTAAACTACCTAAGAAAAGTTAATGT
1 GGATTGAAGGAAATTGCAGTATAAGTTAAAGCGCGAATATTAAACTACCTAAGAAAAGTTAATGT
4264696 GGTGGTATG
66 GGTGGTATG
4264705 CACAAATGTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (74 bp):
GGATTGAAGGAAATTGCAGTATAAGTTAAAGCGCGAATATTAAACTACCTAAGAAAAGTTAATGT
GGTGGTATG
Found at i:4271455 original size:45 final size:45
Alignment explanation
Indices: 4271360--4271458 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
4271350 AATGTTTTTG
* * *
4271360 AAAAAGCATGAGTTCATCGATGCATGGTCTTGTGCATCGATGCAT
1 AAAATGCATGAGTGCATCGATGCATGGTCATGTGCATCGATGCAT
*
4271405 CAAATGCACTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCAT
1 AAAATGCA-TGAGTGCATCGATGCATGGTCATGTGCATCGATGCAT
4271450 AAAATGCAT
1 AAAATGCAT
4271459 TCGATGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 28 0.58
46 19 0.40
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
AAAATGCATGAGTGCATCGATGCATGGTCATGTGCATCGATGCAT
Found at i:4273664 original size:11 final size:11
Alignment explanation
Indices: 4273648--4273672 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4273638 TGGGCATAGT
4273648 TTTGAAAACAA
1 TTTGAAAACAA
4273659 TTTGAAAACAA
1 TTTGAAAACAA
4273670 TTT
1 TTT
4273673 TTGTAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
TTTGAAAACAA
Found at i:4273729 original size:20 final size:20
Alignment explanation
Indices: 4273704--4273743 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4273694 AGTTTTTATG
4273704 AAAACAACATAA-TTAAAAAA
1 AAAACAACA-AATTTAAAAAA
*
4273724 AAAACATCAAATTTAAAAAA
1 AAAACAACAAATTTAAAAAA
4273744 TTAAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAACAAATTTAAAAAA
Found at i:4274219 original size:23 final size:23
Alignment explanation
Indices: 4274185--4274262 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
4274175 CATGGCCTTG
4274185 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGCA
* * *
4274208 TGCATCGGTGCACCTTCATGGC-
1 TGCATCGATGCACATTCAAGGCA
*
4274230 -GTATCGATGCACATTCAAGG-A
1 TGCATCGATGCACATTCAAGGCA
4274251 TGCATCGATGCA
1 TGCATCGATGCA
4274263 TTGTTAGGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
21 16 0.36
22 10 0.22
23 19 0.42
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGCA
Found at i:4275503 original size:30 final size:31
Alignment explanation
Indices: 4275458--4275517 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
4275448 CTTAGCTTTA
* **
4275458 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTATACATATCATTTAGATATCATT
*
4275488 TATTATGTATGCATATCATTTAGATATCAT
1 TATTATGTATACATATCATTTAGATATCAT
4275518 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (31 bp):
TATTATGTATACATATCATTTAGATATCATT
Found at i:4276452 original size:19 final size:20
Alignment explanation
Indices: 4276427--4276477 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4276417 CGGCCAAGAG
* *
4276427 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
*
4276446 TATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
4276466 CATGTATTTTCA
1 CATGTATTTTCA
4276478 AAGGGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:4277255 original size:19 final size:19
Alignment explanation
Indices: 4277214--4277261 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4277204 AGAAAAAGAC
*
4277214 AAAAGAAGAGAAAAATCAT
1 AAAAGAAGAAAAAAATCAT
*
4277233 AAAAGAAGAAAAGAAATGA-
1 AAAAGAAGAAAA-AAATCAT
4277252 AAAAG-AGAAA
1 AAAAGAAGAAA
4277262 TTCAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (19 bp):
AAAAGAAGAAAAAAATCAT
Found at i:4278908 original size:178 final size:176
Alignment explanation
Indices: 4278597--4278950 Score: 674
Period size: 178 Copynumber: 2.0 Consensus size: 176
4278587 CAACCAACTC
4278597 CCATTAAACATCCCCCTGGTTTGATATTTCTATTCATCTTGTCATAGTTTTTCCATTTACATGTT
1 CCATTAAACATCCCCCTGGTTTGATATTTCTATTCATCTTGTCATAGTTTTTCCATTTACATGTT
4278662 TTGATTTATTTGCAGCAAATCGATTAATGTCTATGGTATTATCTTATCAATTTTTGATGACAAGG
66 TTGATTTATTTGCAGCAAATCGATTAATGTCTATGGTATTATCTTATCAATTTTTGATGACAAGG
4278727 TCATTCGAGAATGCTTATGGATGAGGCAAAAGATCAAGGATGATTA
131 TCATTCGAGAATGCTTATGGATGAGGCAAAAGATCAAGGATGATTA
4278773 CCATTAAACATCCACCCTGGTTTGATATTTCTATTCATCTTGTCAATAG-TTTTCCATTTACATG
1 CCATTAAACATCC-CCCTGGTTTGATATTTCTATTCATCTTGTC-ATAGTTTTTCCATTTACATG
4278837 TTTTGATTTATTTTGCAGCAAATCGATTAATGTCTATGGTATTATCTTATCAATTTTTGATGACA
64 TTTTGATTTA-TTTGCAGCAAATCGATTAATGTCTATGGTATTATCTTATCAATTTTTGATGACA
4278902 AGGTCATTCGAGAATGCTTATGGATGAGGCAAAAGATCAAGGATGATTA
128 AGGTCATTCGAGAATGCTTATGGATGAGGCAAAAGATCAAGGATGATTA
4278951 TTCTAACCAT
Statistics
Matches: 175, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
176 13 0.07
177 55 0.31
178 107 0.61
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (176 bp):
CCATTAAACATCCCCCTGGTTTGATATTTCTATTCATCTTGTCATAGTTTTTCCATTTACATGTT
TTGATTTATTTGCAGCAAATCGATTAATGTCTATGGTATTATCTTATCAATTTTTGATGACAAGG
TCATTCGAGAATGCTTATGGATGAGGCAAAAGATCAAGGATGATTA
Found at i:4299889 original size:21 final size:22
Alignment explanation
Indices: 4299853--4299893 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4299843 GCATATTCCT
4299853 AAAAAAGTATCAATCCCTTTGG
1 AAAAAAGTATCAATCCCTTTGG
*
4299875 AAAAAAG-ATCGATCCCTTT
1 AAAAAAGTATCAATCCCTTT
4299894 TTGTGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (22 bp):
AAAAAAGTATCAATCCCTTTGG
Found at i:4300190 original size:139 final size:139
Alignment explanation
Indices: 4300018--4300293 Score: 543
Period size: 139 Copynumber: 2.0 Consensus size: 139
4300008 CTAAAATCTT
4300018 CAAATTTCATCAAATTATTCAATCCAAATCCATTTTTCAGGTGGGTTTTTTTGTGAAATTACTCC
1 CAAATTTCATCAAATTATTCAATCCAAATCCATTTTTCAGGTGGGTTTTTTTGTGAAATTACTCC
4300083 TTCAAACTTCCTTTCAACGAATCATCACAACTATTTGAAGGAATTATCTCATTTGGATAAGATTT
66 TTCAAACTTCCTTTCAACGAATCATCACAACTATTTGAAGGAATTATCTCATTTGGATAAGATTT
4300148 TTCAAAATC
131 TTCAAAATC
4300157 CAAATTTCATCAAATTATTCAATCCAAATCCATTTTTCAGGTGGGTTTTTTTGTGAAATTACTCC
1 CAAATTTCATCAAATTATTCAATCCAAATCCATTTTTCAGGTGGGTTTTTTTGTGAAATTACTCC
*
4300222 TTCAAACTTCCTTTCAATGAATCATCACAACTATTTGAAGGAATTATCTCATTTGGATAAGATTT
66 TTCAAACTTCCTTTCAACGAATCATCACAACTATTTGAAGGAATTATCTCATTTGGATAAGATTT
4300287 TTCAAAA
131 TTCAAAA
4300294 ACCTTAACTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (139 bp):
CAAATTTCATCAAATTATTCAATCCAAATCCATTTTTCAGGTGGGTTTTTTTGTGAAATTACTCC
TTCAAACTTCCTTTCAACGAATCATCACAACTATTTGAAGGAATTATCTCATTTGGATAAGATTT
TTCAAAATC
Found at i:4302384 original size:21 final size:21
Alignment explanation
Indices: 4302371--4302426 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
4302361 TCCCTTGATG
*
4302371 AAAAGGATCGATCCTTTCACC
1 AAAAGGATCGATCCCTTCACC
*
4302392 AAACGGATCGATCCCTTCACC
1 AAAAGGATCGATCCCTTCACC
*
4302413 AAACGGATCGATCC
1 AAAAGGATCGATCC
4302427 ATCGATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (21 bp):
AAAAGGATCGATCCCTTCACC
Found at i:4302468 original size:63 final size:63
Alignment explanation
Indices: 4302334--4302471 Score: 145
Period size: 63 Copynumber: 2.2 Consensus size: 63
4302324 ATGAGTTTGG
* * * * * * *
4302334 GATTGATCCCTTTACAAAATGGATATATCCCTTGATGAAAAGGATCGATCCTTTCACCAAACG
1 GATTGATCCCTTCACAAAACGGATAGATCCATCGATGAAAAGGATCGATCCCTTCACCAAACA
* * * *
4302397 GATCGATCCCTTCACCAAACGGATCGATCCATCGATGAAAAGGATCGTTCCCTTC-CCTTAAA-A
1 GATTGATCCCTTCACAAAACGGATAGATCCATCGATGAAAAGGATCGATCCCTTCACC--AAACA
4302460 GATTGATCCCTT
1 GATTGATCCCTT
4302472 TTTTACAACG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
62 2 0.03
63 56 0.92
64 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (63 bp):
GATTGATCCCTTCACAAAACGGATAGATCCATCGATGAAAAGGATCGATCCCTTCACCAAACA
Found at i:4303941 original size:23 final size:23
Alignment explanation
Indices: 4303915--4303962 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4303905 TGTTTTAAAC
*
4303915 AAGTTTGTATAATTAAATATGTT
1 AAGTTTGTATAATTAAATACGTT
*
4303938 AAGTTTTTATAATTAAATACGTT
1 AAGTTTGTATAATTAAATACGTT
4303961 AA
1 AA
4303963 CTTATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (23 bp):
AAGTTTGTATAATTAAATACGTT
Found at i:4304303 original size:8 final size:7
Alignment explanation
Indices: 4304257--4304304 Score: 50
Period size: 6 Copynumber: 7.1 Consensus size: 7
4304247 TAAAAATACA
4304257 TTATTA-
1 TTATTAT
4304263 TTATTA-
1 TTATTAT
4304269 TTATTA-
1 TTATTAT
4304275 TTATTA-
1 TTATTAT
4304281 TTATTAT
1 TTATTAT
4304288 TTATTTAT
1 TTA-TTAT
4304296 TCTATTAT
1 T-TATTAT
4304304 T
1 T
4304305 AATTTTGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 24 0.62
7 3 0.08
8 10 0.26
9 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
TTATTAT
Found at i:4304305 original size:3 final size:3
Alignment explanation
Indices: 4304256--4304288 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4304246 ATAAAAATAC
4304256 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4304289 TATTTATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4304621 original size:31 final size:31
Alignment explanation
Indices: 4304580--4304651 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
4304570 ATAATTATAT
4304580 ATTTTATCCTTAATATTTATATATTCTATCA
1 ATTTTATCCTTAATATTTATATATTCTATCA
*
4304611 ATTTTGTCCTTAATATTTATATATTCTATCA
1 ATTTTATCCTTAATATTTATATATTCTATCA
4304642 ATTTTATCCT
1 ATTTTATCCT
4304652 AATTTAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.56
Consensus pattern (31 bp):
ATTTTATCCTTAATATTTATATATTCTATCA
Found at i:4305221 original size:32 final size:32
Alignment explanation
Indices: 4305185--4305257 Score: 105
Period size: 30 Copynumber: 2.3 Consensus size: 32
4305175 TTGATTCATG
*
4305185 CATTTAAATATATAAATATATTTTTATTTATA
1 CATTTAAATATATAAATATATATTTATTTATA
*
4305217 CATTT-AA-ATATAACTATATATTTATTTATA
1 CATTTAAATATATAAATATATATTTATTTATA
*
4305247 TATTTAAATAT
1 CATTTAAATAT
4305258 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 25 0.69
31 4 0.11
32 7 0.19
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (32 bp):
CATTTAAATATATAAATATATATTTATTTATA
Found at i:4306339 original size:10 final size:9
Alignment explanation
Indices: 4306326--4306399 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
4306316 CAAAAAAAGG
4306326 AAAAAAT-A
1 AAAAAATAA
*
4306334 ATAAAATAA
1 AAAAAATAA
* *
4306343 ATAACATAA
1 AAAAAATAA
*
4306352 AATAAAGTAA
1 AA-AAAATAA
4306362 AATAAAATAA
1 AA-AAAATAA
*
4306372 AATAAA-AA
1 AAAAAATAA
*
4306380 ACAAAATAA
1 AAAAAATAA
*
4306389 ATAAAATAA
1 AAAAAATAA
4306398 AA
1 AA
4306400 TAAGAAAAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
8 12 0.23
9 24 0.46
10 16 0.31
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (9 bp):
AAAAAATAA
Found at i:4306343 original size:5 final size:5
Alignment explanation
Indices: 4306333--4306402 Score: 81
Period size: 5 Copynumber: 14.0 Consensus size: 5
4306323 AGGAAAAAAT
* *
4306333 AATAA AAT-A AATAA CATAA AATAA AGTAA AATAA AATAA AATAA AA-AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
*
4306381 CAAAATA AATAA AATAA AATAA
1 -AATA-A AATAA AATAA AATAA
4306403 GAAAAAGAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
4 6 0.11
5 45 0.80
6 4 0.07
7 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:4306560 original size:63 final size:62
Alignment explanation
Indices: 4306466--4306611 Score: 183
Period size: 63 Copynumber: 2.3 Consensus size: 62
4306456 CACAATATAT
* * *
4306466 ATAAT-AA-AAAATAAATAAAAAAGATAAATATATATATATAAAT-AAAATGTTATGAAAAA-A
1 ATAATAAACAAAAGAAAT-AAAAAGAAAAATATATATATATAAATAAAAATGTT-GGAAAAATA
*
4306526 ATAATAAAGAAACAGAAATAAAAAGAAAATATATATATATATAAATAAAAAATGTTGGAAAAATA
1 ATAATAAACAAA-AGAAATAAAAAGAAAA-ATATATATATATAAAT-AAAAATGTTGGAAAAATA
4306591 ATAATAAACAAAAGAAATAAA
1 ATAATAAACAAAAGAAATAAA
4306612 CAAAAGGAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
60 5 0.07
61 2 0.03
62 12 0.16
63 21 0.28
64 15 0.20
65 20 0.27
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (62 bp):
ATAATAAACAAAAGAAATAAAAAGAAAAATATATATATATAAATAAAAATGTTGGAAAAATA
Found at i:4306611 original size:13 final size:13
Alignment explanation
Indices: 4306593--4306617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4306583 GAAAAATAAT
4306593 AATAAACAAAAGA
1 AATAAACAAAAGA
4306606 AATAAACAAAAG
1 AATAAACAAAAG
4306618 GAAGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AATAAACAAAAGA
Found at i:4309562 original size:6 final size:6
Alignment explanation
Indices: 4309547--4309585 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
4309537 CCCACCTTAA
4309547 TTTC-T TTTCTT TTTCTT TTTCTTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTT
4309586 TCAATTTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:4309574 original size:13 final size:13
Alignment explanation
Indices: 4309547--4309587 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
4309537 CCCACCTTAA
4309547 TTTC-TTTTC-TT
1 TTTCTTTTTCTTT
4309558 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
4309571 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
4309584 TTTC
1 TTTC
4309588 AATTTAGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 19 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:4309651 original size:5 final size:6
Alignment explanation
Indices: 4309636--4309677 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
4309626 TTTTTCATCT
**
4309636 TTTTTC TTTTTC TTTTTC TTTTT- TGGTT- TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
4309678 CTTCGACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 6 0.19
6 25 0.81
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:4313191 original size:17 final size:17
Alignment explanation
Indices: 4313182--4313225 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
4313172 AATACTGAAT
4313182 GAAAGAAAATTGAATTC
1 GAAAGAAAATTGAATTC
4313199 GAAAGAAAATTGAATTC
1 GAAAGAAAATTGAATTC
4313216 GAAAGAAAAT
1 GAAAGAAAAT
4313226 AAATAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.57, C:0.05, G:0.18, T:0.20
Consensus pattern (17 bp):
GAAAGAAAATTGAATTC
Found at i:4313983 original size:93 final size:93
Alignment explanation
Indices: 4313824--4314010 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
4313814 AGGGTTTGGA
4313824 AATATTTCTTCCTTCAGCCACGAATATGGCATTCACAAATTATAAGGAGCGGAATGAACATTCTA
1 AATATTTCTTCCTTCAGCCACGAATATGGCATTCACAAATTATAAGGAGCGGAATGAACATTCTA
4313889 CCTCCTCCTCGTCTACTTCAATGTATGG
66 CCTCCTCCTCGTCTACTTCAATGTATGG
4313917 AATATTTCTTCCTTCAGCCACGAATATGGCATTCACAAATTATAAGGAGCGGAATGAACATTCTA
1 AATATTTCTTCCTTCAGCCACGAATATGGCATTCACAAATTATAAGGAGCGGAATGAACATTCTA
4313982 CCTCCTCCTCGTCTACTTCAATGTATGG
66 CCTCCTCCTCGTCTACTTCAATGTATGG
4314010 A
1 A
4314011 GCATCCGTGG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (93 bp):
AATATTTCTTCCTTCAGCCACGAATATGGCATTCACAAATTATAAGGAGCGGAATGAACATTCTA
CCTCCTCCTCGTCTACTTCAATGTATGG
Found at i:4316836 original size:28 final size:28
Alignment explanation
Indices: 4316796--4316851 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4316786 GACATTTTCT
4316796 GTTACTTAATGTGAATGTAAAAACATGG
1 GTTACTTAATGTGAATGTAAAAACATGG
4316824 GTTACTTAATGTGAATGTAAAAACATGG
1 GTTACTTAATGTGAATGTAAAAACATGG
4316852 AAAATAGAAA
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:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (28 bp):
GTTACTTAATGTGAATGTAAAAACATGG
Found at i:4316868 original size:21 final size:21
Alignment explanation
Indices: 4316844--4316885 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4316834 GTGAATGTAA
4316844 AAACATGGAAAATAG-AAAAAT
1 AAACATGGAAAA-AGTAAAAAT
4316865 AAACATGGAAAAAGTAAAAAT
1 AAACATGGAAAAAGTAAAAAT
4316886 GCAAAGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (21 bp):
AAACATGGAAAAAGTAAAAAT
Found at i:4318821 original size:45 final size:46
Alignment explanation
Indices: 4318733--4318821 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 46
4318723 TGAAAAAAGT
* * *
4318733 CTGAGTGCATCGATACGTGGTCTTGTGCATCGATGCATCAAATGTA
1 CTGAGTGCATCGATACATGGTCATGTGCATCGATGCATAAAATGTA
* *
4318779 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGTATAAAATG
1 CTGAGTGCATCGATACATGGTCATGTGCATCGATGCATAAAATG
4318822 CATTCGATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 19 0.50
46 19 0.50
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (46 bp):
CTGAGTGCATCGATACATGGTCATGTGCATCGATGCATAAAATGTA
Found at i:4318871 original size:20 final size:20
Alignment explanation
Indices: 4318843--4318881 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4318833 CAAGAAATTA
4318843 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
4318863 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
4318882 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:4319252 original size:19 final size:19
Alignment explanation
Indices: 4319214--4319269 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 19
4319204 TTTGAAATTA
*
4319214 CTCCCCCTTACTATAACATTT
1 CTCCCCCTT--TAAAACATTT
4319235 CTCCCCCTTTAAAACATTT
1 CTCCCCCTTTAAAACATTT
*
4319254 -T--ACCTTTAAAACATTT
1 CTCCCCCTTTAAAACATTT
4319270 TACACTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 14 0.42
18 1 0.03
19 9 0.27
21 9 0.27
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCCCCCTTTAAAACATTT
Found at i:4319261 original size:16 final size:16
Alignment explanation
Indices: 4319240--4319272 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4319230 CATTTCTCCC
4319240 CCTTTAAAACATTTTA
1 CCTTTAAAACATTTTA
4319256 CCTTTAAAACATTTTA
1 CCTTTAAAACATTTTA
4319272 C
1 C
4319273 ACTTCTCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (16 bp):
CCTTTAAAACATTTTA
Found at i:4319660 original size:178 final size:179
Alignment explanation
Indices: 4319354--4319710 Score: 691
Period size: 178 Copynumber: 2.0 Consensus size: 179
4319344 TAGCCAATTT
4319354 ATATTTTGAAACTTAAAGATTAAGCTGCTAAGATCAAATATCAAAAGAGAGATTAGTCATTAGTT
1 ATATTTTGAAACTTAAAGATTAAGCTGCTAAGATCAAATATCAAAAGAGAGATTAGTCATTAGTT
4319419 TCATAATCAATATTAATAATAAAATGTGAAATGGCATAATTTGGTCATAATGCAACTATATGTAA
66 TCATAATCAATATTAATAATAAAATGTGAAATGGCATAATTTGGTCATAATGCAACTATATGTAA
4319484 ATGATGCAAGAATTAAACCAAACCAAATA-TTATAAGAAGTTCAAACAA
131 ATGATGCAAGAATTAAACCAAACCAAATATTTATAAGAAGTTCAAACAA
4319532 ATATTTTGAAACTTAAAGATTAAGCTGCTAAGATCAAATATCAAAAGAGAGATTAGTCATTAGTT
1 ATATTTTGAAACTTAAAGATTAAGCTGCTAAGATCAAATATCAAAAGAGAGATTAGTCATTAGTT
4319597 TCATAATCAATATTAATAATAAAATGTGAAATGGCATAA-TTGGTCATAATGCAACTAATATGTA
66 TCATAATCAATATTAATAATAAAATGTGAAATGGCATAATTTGGTCATAATGCAACT-ATATGTA
4319661 AATGATGCAAGAATTAAACCAAACCAAATATTTATAAGAAGTTCAAACAA
130 AATGATGCAAGAATTAAACCAAACCAAATATTTATAAGAAGTTCAAACAA
4319711 CCAATCATTC
Statistics
Matches: 177, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
177 17 0.10
178 141 0.80
179 19 0.11
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (179 bp):
ATATTTTGAAACTTAAAGATTAAGCTGCTAAGATCAAATATCAAAAGAGAGATTAGTCATTAGTT
TCATAATCAATATTAATAATAAAATGTGAAATGGCATAATTTGGTCATAATGCAACTATATGTAA
ATGATGCAAGAATTAAACCAAACCAAATATTTATAAGAAGTTCAAACAA
Found at i:4325604 original size:22 final size:21
Alignment explanation
Indices: 4325562--4325601 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4325552 GAGTATGTTT
*
4325562 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4325583 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4325602 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4330131 original size:21 final size:21
Alignment explanation
Indices: 4330107--4330150 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4330097 AAAAAACTAC
* *
4330107 AATATATATAATAAATAAATA
1 AATATAAAAAATAAATAAATA
*
4330128 AATATAAAAAATATATAAATA
1 AATATAAAAAATAAATAAATA
4330149 AA
1 AA
4330151 CCATTATGTA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATAAAAAATAAATAAATA
Found at i:4330132 original size:17 final size:17
Alignment explanation
Indices: 4330079--4330148 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
4330069 ATAAAACACA
*
4330079 AAAAAATTAAA-AAATTAA
1 AAAAAA-TAAATAAA-TAT
*
4330097 AAAAAACTACAATATATAT
1 AAAAAA-TA-AATAAATAT
*
4330116 AATAAATAAATAAATAT
1 AAAAAATAAATAAATAT
*
4330133 AAAAAATATATAAATA
1 AAAAAATAAATAAATA
4330149 AACCATTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
17 22 0.51
18 10 0.23
19 9 0.21
20 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATAAATAAATAT
Found at i:4330189 original size:24 final size:27
Alignment explanation
Indices: 4330160--4330208 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4330150 ACCATTATGT
4330160 AAAG-AAAAATA-AT-AATAAAAAACA
1 AAAGAAAAAATATATAAATAAAAAACA
4330184 AAAGAAAAAATATATAAATAAAAAA
1 AAAGAAAAAATATATAAATAAAAAA
4330209 TGTTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 2 0.09
27 9 0.41
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (27 bp):
AAAGAAAAAATATATAAATAAAAAACA
Found at i:4330208 original size:15 final size:15
Alignment explanation
Indices: 4330107--4330209 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
4330097 AAAAAACTAC
4330107 AATATATATAATAAATA
1 AATATATA-AATAAA-A
*
4330124 AATA-A-ATATAAAA
1 AATATATAAATAAAA
*
4330137 AATATATAAATAAACC
1 AATATATAAATAAA-A
* * *
4330153 ATTATGTAAA-GAAA
1 AATATATAAATAAAA
4330167 AATA-AT-AAT-AAA
1 AATATATAAATAAAA
* *
4330179 AA-ACA-AAAGAAAA
1 AATATATAAATAAAA
4330192 AATATATAAATAAAA
1 AATATATAAATAAAA
4330207 AAT
1 AAT
4330210 GTTGGAAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
11 1 0.02
12 10 0.15
13 11 0.17
14 11 0.17
15 19 0.29
16 9 0.14
17 4 0.06
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
AATATATAAATAAAA
Found at i:4330242 original size:23 final size:23
Alignment explanation
Indices: 4330216--4330260 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4330206 AAATGTTGGA
*
4330216 AAAAATAAAAAAAAGAAATAAAC
1 AAAAAGAAAAAAAAGAAATAAAC
* * *
4330239 AAAAGGAAGAAAAAGTAATAAA
1 AAAAAGAAAAAAAAGAAATAAA
4330261 AAATATATAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAAAGAAAAAAAAGAAATAAAC
Found at i:4332839 original size:116 final size:116
Alignment explanation
Indices: 4332635--4332866 Score: 464
Period size: 116 Copynumber: 2.0 Consensus size: 116
4332625 ATAGATTTGT
4332635 TAATTCATTCGTACAATAAATGATAATCTCACAATTTATTATTTGGTAGTACTTTCGTGTTACGG
1 TAATTCATTCGTACAATAAATGATAATCTCACAATTTATTATTTGGTAGTACTTTCGTGTTACGG
4332700 TTATCACATTTTGTTACTTGATATTTTTTAATATTAATCTAGAATAAATAC
66 TTATCACATTTTGTTACTTGATATTTTTTAATATTAATCTAGAATAAATAC
4332751 TAATTCATTCGTACAATAAATGATAATCTCACAATTTATTATTTGGTAGTACTTTCGTGTTACGG
1 TAATTCATTCGTACAATAAATGATAATCTCACAATTTATTATTTGGTAGTACTTTCGTGTTACGG
4332816 TTATCACATTTTGTTACTTGATATTTTTTAATATTAATCTAGAATAAATAC
66 TTATCACATTTTGTTACTTGATATTTTTTAATATTAATCTAGAATAAATAC
4332867 AAAGAAATAT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (116 bp):
TAATTCATTCGTACAATAAATGATAATCTCACAATTTATTATTTGGTAGTACTTTCGTGTTACGG
TTATCACATTTTGTTACTTGATATTTTTTAATATTAATCTAGAATAAATAC
Found at i:4343226 original size:24 final size:24
Alignment explanation
Indices: 4343199--4343249 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
4343189 TACAATTTTT
*
4343199 TGAATATCATGCGCCTCGCCTTTG
1 TGAATATCACGCGCCTCGCCTTTG
*
4343223 TG-A-ATCCCGCGCCTCGCCTTTG
1 TGAATATCACGCGCCTCGCCTTTG
4343245 TGAAT
1 TGAAT
4343250 CCCGCACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 19 0.83
23 2 0.09
24 2 0.09
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (24 bp):
TGAATATCACGCGCCTCGCCTTTG
Found at i:4343251 original size:22 final size:22
Alignment explanation
Indices: 4343209--4343254 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4343199 TGAATATCAT
4343209 GCGCCTCGCCTTTGTGAATCCC
1 GCGCCTCGCCTTTGTGAATCCC
4343231 GCGCCTCGCCTTTGTGAATCCC
1 GCGCCTCGCCTTTGTGAATCCC
4343253 GC
1 GC
4343255 ACCTTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.09, C:0.41, G:0.24, T:0.26
Consensus pattern (22 bp):
GCGCCTCGCCTTTGTGAATCCC
Found at i:4348650 original size:22 final size:22
Alignment explanation
Indices: 4348620--4348669 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
4348610 TGTAGCATGG
*
4348620 TGAACATTATGGCAGCTCCTTA
1 TGAAAATTATGGCAGCTCCTTA
*
4348642 TGAAAATTATGGCAGCTCCTTG
1 TGAAAATTATGGCAGCTCCTTA
4348664 TGAAAA
1 TGAAAA
4348670 AGTATCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (22 bp):
TGAAAATTATGGCAGCTCCTTA
Found at i:4358484 original size:22 final size:22
Alignment explanation
Indices: 4358456--4358502 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
4358446 CTTTTTTCGC
4358456 CGGCAGTCACAGCCTCCATCGT
1 CGGCAGTCACAGCCTCCATCGT
*
4358478 CGGCAGTCACAGCTTCCATCGT
1 CGGCAGTCACAGCCTCCATCGT
4358500 CGG
1 CGG
4358503 GCGCTAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.38, G:0.26, T:0.19
Consensus pattern (22 bp):
CGGCAGTCACAGCCTCCATCGT
Done.