Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 39
Found at i:4196566 original size:13 final size:13
Alignment explanation
Indices: 4196544--4196573 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4196534 GGGGGAGTAA
4196544 TTTC-AAAATTAT
1 TTTCAAAAATTAT
4196556 TTTCAAAAATTAT
1 TTTCAAAAATTAT
4196569 TTTCA
1 TTTCA
4196574 TAGAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTCAAAAATTAT
Found at i:4197041 original size:65 final size:64
Alignment explanation
Indices: 4196924--4197072 Score: 147
Period size: 65 Copynumber: 2.3 Consensus size: 64
4196914 TTTCGAATAC
* * * * ***
4196924 AATTTATGCACCGATACACAACCATGCATCGATGCACTATGGATTTTATTAAAACATTGAATTG
1 AATTTATGCACCGATGCACAACCATGCATCGATGCACCACGGATTTTATTAAAACATCGAAGCA
* ** * *
4196988 AATTTGTGCACCGATGCACAAGTTATGCATCGATGCACCCCGG-TTATTTTTAAAACATCGAAGC
1 AATTTATGCACCGATGCACAA-CCATGCATCGATGCACCACGGATT-TTATTAAAACATCGAAGC
4197052 A
64 A
* *
4197053 AATTTTTGCACTGATGCACA
1 AATTTATGCACCGATGCACA
4197073 CCCTAGTGTA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
64 21 0.30
65 48 0.70
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (64 bp):
AATTTATGCACCGATGCACAACCATGCATCGATGCACCACGGATTTTATTAAAACATCGAAGCA
Found at i:4202333 original size:5 final size:5
Alignment explanation
Indices: 4202323--4202436 Score: 60
Period size: 5 Copynumber: 22.6 Consensus size: 5
4202313 AAAAAGAATA
* *
4202323 AAAAT AAAAT AAAA- AACAT -AAAT CAAAGAA AAAAT AAAA- AAATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAA-AT AAAAT AAAAT AAA-AT
* * * * *
4202368 TAAAT -AAAT AAAACA AAAGAC AAAAGT AAAAA AATAAA AAAAT AAAAT
1 AAAAT AAAAT AAAA-T AAA-AT AAAA-T AAAAT AA-AAT AAAAT AAAAT
4202416 -AAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAA
4202437 TTTAAGGGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
4 21 0.24
5 41 0.48
6 22 0.26
7 2 0.02
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:4202363 original size:9 final size:9
Alignment explanation
Indices: 4202312--4202475 Score: 70
Period size: 9 Copynumber: 17.9 Consensus size: 9
4202302 CAAAGGATGA
4202312 AAAAAAGAAT
1 AAAAAA-AAT
4202322 AAAAATAAAAT
1 -AAAA-AAAAT
*
4202333 AAAAAACAT
1 AAAAAAAAT
**
4202342 -AAATCAA-
1 AAAAAAAAT
*
4202349 AGAAAAAAT
1 AAAAAAAAT
4202358 AAAAAAATAT
1 AAAAAAA-AT
* *
4202368 TAAATAAAT
1 AAAAAAAAT
4202377 AAAACAAAA-
1 AAAA-AAAAT
* * *
4202386 GACAAAAGT
1 AAAAAAAAT
4202395 -AAAAAAAT
1 AAAAAAAAT
4202403 -AAAAAAAT
1 AAAAAAAAT
*
4202411 AAAATAAAT
1 AAAAAAAAT
*
4202420 AAAATAAAT
1 AAAAAAAAT
*
4202429 AAAATAAATTT
1 AAAA-AAA-AT
***
4202440 AAGGGAAAT
1 AAAAAAAAT
4202449 AAGATAAAAAT
1 AA-A-AAAAAT
4202460 -AAAAAAAT
1 AAAAAAAAT
4202468 AAAAAAAA
1 AAAAAAAA
4202476 AAGGGAAAAT
Statistics
Matches: 114, Mismatches: 27, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
8 31 0.27
9 48 0.42
10 19 0.17
11 14 0.12
12 2 0.02
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:4204835 original size:11 final size:11
Alignment explanation
Indices: 4204819--4204881 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
4204809 TGTATATAGA
4204819 ATTTTTAATAT
1 ATTTTTAATAT
4204830 ATTTTTAA-A-
1 ATTTTTAATAT
4204839 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
4204850 ATCAATAGTGT
1 ATTTTTAATAT
4204861 ATTTTTAATAT
1 ATTTTTAATAT
4204872 ATTTTTAATA
1 ATTTTTAATA
4204882 ATGTAATTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:4206044 original size:35 final size:34
Alignment explanation
Indices: 4206005--4206070 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
4205995 TATATATAAA
*
4206005 AAATATTTCCAAAAAACTATATA-TATATATTTTTT
1 AAATATTT--AAAAAACTATAAATTATATATTTTTT
*
4206040 AAATATTTTAAAAACTATAAATTATATATTT
1 AAATATTTAAAAAACTATAAATTATATATTT
4206071 AAAAAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 8 0.29
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (34 bp):
AAATATTTAAAAAACTATAAATTATATATTTTTT
Found at i:4206053 original size:34 final size:33
Alignment explanation
Indices: 4206016--4206309 Score: 162
Period size: 34 Copynumber: 8.8 Consensus size: 33
4206006 AATATTTCCA
*
4206016 AAAAACTATATATATATATTTTTTAAATATTTT
1 AAAAACTATATATATATATTTTTAAAATATTTT
* * *
4206049 AAAAACTATAAAT-TATATATTTAAAAAAAGTTTT
1 AAAAACTATATATATATAT-TTTTAAAATA-TTTT
* *
4206083 TAAAA-T-TATATATCATAGTTTTCAAAATATTTT
1 AAAAACTATATATAT-ATA-TTTTTAAAATATTTT
** *
4206116 -AAAA-T-TATAT-TATAGTTTCAAAAAATGTTTT
1 AAAAACTATATATATATA-TTT-TTAAAATATTTT
* * * *
4206147 TAAAACTATAT-TATAT-GTTTTCAAAT-GTTT
1 AAAAACTATATATATATATTTTTAAAATATTTT
* * * *
4206177 -CAAACTATATATTATATAAGTTTT-AAATGTTTC
1 AAAAACTATATA-TATAT-ATTTTTAAAATATTTT
* *
4206210 AAAAATTATATATTATATATATTTTCAAAATGTTTT
1 AAAAACTATATA-TATATAT-TTTT-AAAATATTTT
* *
4206246 CAAAAACTATATTACATATATATTTTCAAATATTTT
1 -AAAAACTATA-TATATATAT-TTTTAAAATATTTT
* *
4206282 CAAAACTATATATTATATATTTTCAAAA
1 AAAAACTATATA-TATATATTTTTAAAA
4206310 CTATATAATA
Statistics
Matches: 208, Mismatches: 31, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
29 9 0.04
30 10 0.05
31 19 0.09
32 29 0.14
33 35 0.17
34 52 0.25
35 16 0.08
36 16 0.08
37 20 0.10
38 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
AAAAACTATATATATATATTTTTAAAATATTTT
Found at i:4206131 original size:30 final size:31
Alignment explanation
Indices: 4206080--4206192 Score: 108
Period size: 32 Copynumber: 3.6 Consensus size: 31
4206070 TAAAAAAAGT
4206080 TTTTAAAATTATATATCATAGTTTTCAAAAT-A
1 TTTTAAAATTATAT-T-ATAGTTTTCAAAATGA
*
4206112 TTTTAAAATTATATTATAG-TTTCAAAAAATGT
1 TTTTAAAATTATATTATAGTTTTC--AAAATGA
*
4206144 TTTTAAAACTATATTATATGTTTTC-AAATG-
1 TTTTAAAATTATATTATA-GTTTTCAAAATGA
* *
4206174 TTTCAAACTATATATTATA
1 TTTTAAAAT-TATATTATA
4206193 TAAGTTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
29 4 0.06
30 10 0.14
31 20 0.29
32 31 0.44
33 1 0.01
34 4 0.06
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (31 bp):
TTTTAAAATTATATTATAGTTTTCAAAATGA
Found at i:4206189 original size:63 final size:65
Alignment explanation
Indices: 4206051--4206194 Score: 172
Period size: 64 Copynumber: 2.3 Consensus size: 65
4206041 AATATTTTAA
* * * *
4206051 AAACTATAAATTATATATTTAAAAAAAGTTTTTAAAATTATATATCATAGTTTTCAAAATATTTT
1 AAACTATATATTATATATTCAAAAAAAGTTTTTAAAACTATATATCATAGTTTTCAAAATATTTC
* * *
4206116 AAAAT-TATATTATAGT-TTCAAAAAATGTTTTTAAAACTATAT-T-ATATGTTTTC-AAATGTT
1 AAACTATATATTATA-TATTCAAAAAAAGTTTTTAAAACTATATATCATA-GTTTTCAAAATATT
4206176 TC
64 TC
4206178 AAACTATATATTATATA
1 AAACTATATATTATATA
4206195 AGTTTTAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
62 15 0.22
63 16 0.24
64 31 0.46
65 5 0.07
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (65 bp):
AAACTATATATTATATATTCAAAAAAAGTTTTTAAAACTATATATCATAGTTTTCAAAATATTTC
Found at i:4206257 original size:37 final size:34
Alignment explanation
Indices: 4206158--4206308 Score: 161
Period size: 37 Copynumber: 4.4 Consensus size: 34
4206148 AAAACTATAT
*
4206158 TATATGTTTTCAAATGTTTC-AAACTATATATTA
1 TATATATTTTCAAATGTTTCAAAACTATATATTA
*
4206191 TATA-AGTTTT-AAATGTTTCAAAAATTATATATTA
1 TATATA-TTTTCAAATGTTTC-AAAACTATATATTA
*
4206225 TATATATTTTCAAAATGTTTTCAAAAACTATAT-TACA
1 TATATATTTTC-AAATG-TTTC-AAAACTATATAT-TA
*
4206262 TATATATTTTCAAATATTTTCAAAACTATATA-T-
1 TATATATTTTCAAAT-GTTTCAAAACTATATATTA
4206295 TATATATTTTCAAA
1 TATATATTTTCAAA
4206309 ACTATATAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
32 9 0.09
33 22 0.22
34 20 0.20
35 11 0.11
36 14 0.14
37 26 0.25
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (34 bp):
TATATATTTTCAAATGTTTCAAAACTATATATTA
Found at i:4206265 original size:35 final size:34
Alignment explanation
Indices: 4206138--4206308 Score: 155
Period size: 33 Copynumber: 5.1 Consensus size: 34
4206128 TAGTTTCAAA
* *
4206138 AAATGTTTT-TAAAACTATA-T-TATATGTTTTC
1 AAATGTTTTCAAAAACTATATTATATATATTTTC
*
4206169 AAATG-TTTCAAACTA-TATATTATATA-AGTTTT-
1 AAATGTTTTCAAA-AACTATATTATATATA-TTTTC
*
4206201 AAATG-TTTCAAAAATTATATATTATATATATTTTC
1 AAATGTTTTCAAAAA--CTATATTATATATATTTTC
4206236 AAAATGTTTTCAAAAACTATATTACATATATATTTTC
1 -AAATGTTTTCAAAAACTATATT--ATATATATTTTC
*
4206273 AAATATTTTC-AAAACTATA-TATTATATATTTTC
1 AAATGTTTTCAAAAACTATATTA-TATATATTTTC
4206306 AAA
1 AAA
4206309 ACTATATAAT
Statistics
Matches: 119, Mismatches: 6, Indels: 28
0.78 0.04 0.18
Matches are distributed among these distances:
30 3 0.03
31 12 0.10
32 15 0.13
33 22 0.18
34 16 0.13
35 16 0.13
36 14 0.12
37 21 0.18
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (34 bp):
AAATGTTTTCAAAAACTATATTATATATATTTTC
Found at i:4206323 original size:25 final size:23
Alignment explanation
Indices: 4206275--4206323 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
4206265 ATATTTTCAA
4206275 ATATTTTCAAAACTATATATTAT
1 ATATTTTCAAAACTATATATTAT
*
4206298 ATATTTTCAAAACTATATAATAT
1 ATATTTTCAAAACTATATATTAT
4206321 ATA
1 ATA
4206324 CATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTTTCAAAACTATATATTAT
Found at i:4206328 original size:25 final size:23
Alignment explanation
Indices: 4206277--4206334 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
4206267 ATTTTCAAAT
*
4206277 ATTTTCAAAACTATATATTATAT
1 ATTTTCAAAACTATATATTATAC
4206300 ATTTTCAAAACTATATAATATATAC
1 ATTTTCAAAACTATAT-AT-TATAC
*
4206325 ATTTTTAAAA
1 ATTTTCAAAA
4206335 TTCATTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 16 0.52
24 2 0.06
25 13 0.42
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTTTCAAAACTATATATTATAC
Found at i:4207527 original size:58 final size:58
Alignment explanation
Indices: 4207439--4207555 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 58
4207429 TATGTACCCG
* **
4207439 AACTATAATCTCATTTTAAACGAGTCCTTAATTTTTTGAATATT-TCAATTTC-TTCCTA
1 AACTATAATCTCATTTTAAACGAATCCTTAAACTTTTG-ATATTCT-AATTTCATTCCTA
**
4207497 AACTATAACTCTCATTTTAAATTAAT-CTTAAACTTTTGATATTCTAATTTCATTCCTA
1 AACTATAA-TCTCATTTTAAACGAATCCTTAAACTTTTGATATTCTAATTTCATTCCTA
4207555 A
1 A
4207556 TTATGAGCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 11 0.22
58 26 0.51
59 14 0.27
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.46
Consensus pattern (58 bp):
AACTATAATCTCATTTTAAACGAATCCTTAAACTTTTGATATTCTAATTTCATTCCTA
Found at i:4208131 original size:20 final size:20
Alignment explanation
Indices: 4208090--4208136 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
4208080 AATTAAAATA
* *
4208090 TTTAAATGTTTAGGGATCAT
1 TTTAAATGTTTAGAGATAAT
4208110 TTTAAA-GTTTAGAGACTAAT
1 TTTAAATGTTTAGAGA-TAAT
*
4208130 TTAAAAT
1 TTTAAAT
4208137 TAAGGCCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (20 bp):
TTTAAATGTTTAGAGATAAT
Found at i:4208217 original size:7 final size:7
Alignment explanation
Indices: 4208205--4208242 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4208195 TTTTTCATCT
4208205 TAAACTC
1 TAAACTC
*
4208212 TAAACTT
1 TAAACTC
*
4208219 TAAATTC
1 TAAACTC
4208226 TAAA-TC
1 TAAACTC
4208232 TAAACTC
1 TAAACTC
4208239 TAAA
1 TAAA
4208243 TACTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (7 bp):
TAAACTC
Found at i:4208235 original size:20 final size:21
Alignment explanation
Indices: 4208205--4208243 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4208195 TTTTTCATCT
*
4208205 TAAACTCTAAACTTTAAATTC
1 TAAACTCTAAACTCTAAATTC
4208226 TAAA-TCTAAACTCTAAAT
1 TAAACTCTAAACTCTAAAT
4208244 ACTCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAACTCTAAACTCTAAATTC
Found at i:4217615 original size:43 final size:43
Alignment explanation
Indices: 4217563--4217773 Score: 140
Period size: 43 Copynumber: 4.9 Consensus size: 43
4217553 TTTTCAACAA
*
4217563 AAAAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTTGCAG
1 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTGCAG
* * * * * *
4217606 AAAAACGCCGCAATAGGTGTTGACATTTAACGACATTTGGCAG
1 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTGCAG
* *** * * * **
4217649 ACAAACTATGCAATAGGCATTGATGTTTAGCGGCGTTTTTCCT
1 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTGCAG
* * * * * *
4217692 ACAAAC-CCTGCAAAAGATGTTGATATTTAGCAGCATTTTAGTC-G
1 AAAAACGCC-GCAATAGGTATTGATATTTAGCGGCGTTTT-G-CAG
* * * *
4217736 -AAAACGCCGCAATATGTCTTGAGATTTCGCGGCGTTTT
1 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTT
4217774 TATCACAAAC
Statistics
Matches: 122, Mismatches: 42, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
43 119 0.98
44 2 0.02
45 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTGCAG
Found at i:4218190 original size:21 final size:21
Alignment explanation
Indices: 4218127--4218227 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 21
4218117 TGATATATTA
* * *
4218127 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * * * *
4218148 CCTCTCTTTGTGCTGCCACTG
1 CTTCTCTCTCTGCTTCCGCTG
4218169 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* **
4218190 CTGCTCTAGCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* *
4218211 CTGCACTCTCTGCTTCC
1 CTTCTCTCTCTGCTTCC
4218228 CTTGCTTTAT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.03, C:0.41, G:0.18, T:0.39
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:4226131 original size:41 final size:41
Alignment explanation
Indices: 4226042--4226267 Score: 205
Period size: 41 Copynumber: 5.5 Consensus size: 41
4226032 GATTATATAT
* * * * *
4226042 TTAACA-TTTTGCAGCGTTTATAAAAAAACGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTTAAAAAATGCCACTATTGA
*
4226082 TT-ACACTATTGTGGCGTTTGTTAAAAAATGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTTAAAAAATGCCACTATTGA
* * * *
4226122 TTAAAACTATTGTGGTGTTT-TTCTAAAAATGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTT-AAAAAATGCCACTATTGA
* * *
4226163 TTAACACTTTTGCGACGTTTGTCT-AAAAATGCCACTATTTA
1 TTAACACTATTGCGGCGTTTGT-TAAAAAATGCCACTATTGA
* *
4226204 TTATCACTATTGCGGCGTTT-TAAGAATAAATGCCACTATATG-
1 TTAACACTATTGCGGCGTTTGTTA-AA-AAATGCCACTAT-TGA
*
4226246 TGTAA-TCTATTGCGGCGTTTGT
1 T-TAACACTATTGCGGCGTTTGT
4226268 GGTATAAATA
Statistics
Matches: 153, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.02
40 35 0.23
41 82 0.54
42 28 0.18
43 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (41 bp):
TTAACACTATTGCGGCGTTTGTTAAAAAATGCCACTATTGA
Found at i:4226347 original size:40 final size:41
Alignment explanation
Indices: 4226210--4226391 Score: 144
Period size: 42 Copynumber: 4.4 Consensus size: 41
4226200 TTTATTATCA
* * *
4226210 CTATTGCGGCGTTT-TAAGAATAAATGCCACTATATGTGTAAT
1 CTATTGCGGCGTTTGT-GGTATAAACGCCACTATATGT-TAAT
** *
4226252 CTATTGCGGCGTTTGTGGTATAAATACCGCTA-AT-TTACCGAT
1 CTATTGCGGCGTTTGTGGTATAAACGCCACTATATGTTA---AT
*
4226294 CTATTGTGGCGTTT-TGGCTA-AAACGCCACTATATGTTAAT
1 CTATTGCGGCGTTTGTGG-TATAAACGCCACTATATGTTAAT
* * *
4226334 CTATTGCGACGTTTGTGGTATAAACGTCGCTA-AT-TTACCACT
1 CTATTGCGGCGTTTGTGGTATAAACGCCACTATATGTTA--A-T
4226376 CTATTGCGGCGTTTGT
1 CTATTGCGGCGTTTGT
4226392 TAAAAAACGC
Statistics
Matches: 115, Mismatches: 13, Indels: 24
0.76 0.09 0.16
Matches are distributed among these distances:
39 5 0.04
40 19 0.17
41 26 0.23
42 61 0.53
43 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
CTATTGCGGCGTTTGTGGTATAAACGCCACTATATGTTAAT
Found at i:4226349 original size:82 final size:83
Alignment explanation
Indices: 4226235--4226389 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 83
4226225 AAGAATAAAT
* *
4226235 GCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTATAAATACCGCTAATTTACCGA-TCTATT
1 GCCACTATATGTGTAATCTATTGCGACGTTTGTGGTATAAACACCGCTAATTTACC-ACTCTATT
*
4226299 GTGGCGTTTTGGCTAAAAC
65 GCGGCGTTTTGGCTAAAAC
**
4226318 GCCACTATATGT-TAATCTATTGCGACGTTTGTGGTATAAACGTCGCTAATTTACCACTCTATTG
1 GCCACTATATGTGTAATCTATTGCGACGTTTGTGGTATAAACACCGCTAATTTACCACTCTATTG
4226382 CGGCGTTT
66 CGGCGTTT
4226390 GTTAAAAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 1 0.02
82 53 0.80
83 12 0.18
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (83 bp):
GCCACTATATGTGTAATCTATTGCGACGTTTGTGGTATAAACACCGCTAATTTACCACTCTATTG
CGGCGTTTTGGCTAAAAC
Found at i:4226379 original size:42 final size:41
Alignment explanation
Indices: 4226250--4226391 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 41
4226240 TATATGTGTA
**
4226250 ATCTATTGCGGCGTTTGTGGTATAAATACCGCTAATTTACC
1 ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACC
* *
4226291 GATCTATTGTGGCGTTT-TGGCTA-AAACGCCACTATATGTTA--
1 -ATCTATTGCGGCGTTTGTGG-TATAAACGCCGCTA-AT-TTACC
* *
4226332 ATCTATTGCGACGTTTGTGGTATAAACGTCGCTAATTTACC
1 ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACC
4226373 ACTCTATTGCGGCGTTTGT
1 A-TCTATTGCGGCGTTTGT
4226392 TAAAAAACGC
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
39 3 0.04
40 18 0.22
41 24 0.29
42 35 0.42
43 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (41 bp):
ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACC
Found at i:4226399 original size:82 final size:83
Alignment explanation
Indices: 4226210--4226401 Score: 232
Period size: 82 Copynumber: 2.3 Consensus size: 83
4226200 TTTATTATCA
* * *
4226210 CTATTGCGGCGTTT-TAAGAATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTATA
1 CTATTGCGGCGTTTGTTA-AA-AAACGCCACTATATGTGTAATCTATTGCGACGTTTGTGGTATA
*
4226274 AATACCGCTAATTTACCGAT
64 AACACCGCTAATTTACCGAT
* *
4226294 CTATTGTGGCGTTTTGGCT--AAAACGCCACTATATGT-TAATCTATTGCGACGTTTGTGGTATA
1 CTATTGCGGCG-TTT-GTTAAAAAACGCCACTATATGTGTAATCTATTGCGACGTTTGTGGTATA
**
4226356 AACGTCGCTAATTTACC-ACT
64 AACACCGCTAATTTACCGA-T
4226376 CTATTGCGGCGTTTGTTAAAAAACGC
1 CTATTGCGGCGTTTGTTAAAAAACGC
4226402 TGTAATAAAC
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
80 2 0.02
81 4 0.04
82 57 0.62
83 15 0.16
84 11 0.12
85 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (83 bp):
CTATTGCGGCGTTTGTTAAAAAACGCCACTATATGTGTAATCTATTGCGACGTTTGTGGTATAAA
CACCGCTAATTTACCGAT
Found at i:4226462 original size:42 final size:41
Alignment explanation
Indices: 4226333--4226464 Score: 108
Period size: 42 Copynumber: 3.2 Consensus size: 41
4226323 TATATGTTAA
* * * * *
4226333 TCTATTGCGACGTTTGTGGTATAAACG-TCGCTAATTTACCAC
1 TCTATTGCGGCGTTTGTTGTAAAAACGCT-GCTAATGT-CAAC
* ** *
4226375 TCTATTGCGGCGTTTGTT-AAAAAACGCTG-TAATAAACCAC
1 TCTATTGCGGCGTTTGTTGTAAAAACGCTGCTAAT-GTCAAC
* *
4226415 CCTATTACGGCGTTTGTTGTAAAAACGCTGCTATATGTCAAC
1 TCTATTGCGGCGTTTGTTGTAAAAACGCTGCTA-ATGTCAAC
4226457 TCTATTGC
1 TCTATTGC
4226465 AGCATTTTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
40 24 0.34
41 17 0.24
42 28 0.39
43 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (41 bp):
TCTATTGCGGCGTTTGTTGTAAAAACGCTGCTAATGTCAAC
Found at i:4228432 original size:16 final size:17
Alignment explanation
Indices: 4228413--4228444 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4228403 GGGGATGTTA
4228413 ATATT-ATTTTTAAATT
1 ATATTAATTTTTAAATT
4228429 ATATTAATTTTTAAAT
1 ATATTAATTTTTAAAT
4228445 ATTTGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTAATTTTTAAATT
Found at i:4231462 original size:20 final size:18
Alignment explanation
Indices: 4231433--4231478 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
4231423 TATTTATTTA
4231433 TTTGTAATTTGGTGTTCTGAT
1 TTTGT-ATTTGG-GTT-TGAT
*
4231454 TTTGTATTTGGGTTTGGT
1 TTTGTATTTGGGTTTGAT
4231472 TTTGTAT
1 TTTGTAT
4231479 GTAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 6 0.25
21 5 0.21
ACGTcount: A:0.11, C:0.02, G:0.26, T:0.61
Consensus pattern (18 bp):
TTTGTATTTGGGTTTGAT
Found at i:4231490 original size:3 final size:3
Alignment explanation
Indices: 4231482--4231529 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
4231472 TTTGTATGTA
* * * *
4231482 AAT AAT AAT AAT AAT AAT -TT ATT TAT AAT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4231529 A
1 A
4231530 TTAAAAATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:4236923 original size:7 final size:7
Alignment explanation
Indices: 4236911--4236936 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4236901 TTATAAATAA
4236911 TGCACGG
1 TGCACGG
4236918 TGCACGG
1 TGCACGG
4236925 TGCACGG
1 TGCACGG
4236932 TGCAC
1 TGCAC
4236937 TGTGTTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (7 bp):
TGCACGG
Found at i:4239680 original size:3 final size:3
Alignment explanation
Indices: 4239672--4239708 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4239662 ATATTAATTA
4239672 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4239709 TTTATAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4240197 original size:92 final size:92
Alignment explanation
Indices: 4240085--4240260 Score: 273
Period size: 92 Copynumber: 1.9 Consensus size: 92
4240075 GTGATAGATC
*
4240085 GAACAAGCTCTTCTCATTATGAACTTATTC-TCTCTCTTTCGGATGAGTTCTTCTCATTATGAAC
1 GAACAAGCTCTTCTCATTATGAACTTATTCTTC-CTCTGTCGGATGAGTTCTTCTCATTATGAAC
*
4240149 TCTCCATTGAAAATGTTGATGCGAAGTT
65 TCTCCACTGAAAATGTTGATGCGAAGTT
* * *
4240177 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTGTCGGATGAGTTCTTCTCATTATGAGCT
1 GAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* *
4240242 CTTCACTGTAAATGTTGAT
66 CTCCACTGAAAATGTTGAT
4240261 CCCTCAAGCG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
92 74 0.97
93 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (92 bp):
GAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCACTGAAAATGTTGATGCGAAGTT
Found at i:4241288 original size:17 final size:17
Alignment explanation
Indices: 4241268--4241345 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
4241258 CTCCTTTTTC
4241268 TCTTTTTATTTTTCATT
1 TCTTTTTATTTTTCATT
4241285 TCTTTTTTCATTTTTCATT
1 TC-TTTTT-ATTTTTCATT
* *
4241304 TTTTTTTCTTTTTCATT
1 TCTTTTTATTTTTCATT
*
4241321 T-TTTTCATTTTTCA--
1 TCTTTTTATTTTTCATT
4241335 TCTTTTTATTT
1 TCTTTTTATTT
4241346 GTTCCCTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
14 1 0.02
15 8 0.15
16 11 0.21
17 12 0.23
18 10 0.19
19 11 0.21
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTTATTTTTCATT
Found at i:4241299 original size:26 final size:25
Alignment explanation
Indices: 4241261--4241335 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
4241251 TCAAACCCTC
4241261 CTTTTTC-TCTTTTTATTTTTCATTT
1 CTTTTTCAT-TTTTTATTTTTCATTT
* *
4241286 CTTTTTTCATTTTTCATTTTT-TTTT
1 C-TTTTTCATTTTTTATTTTTCATTT
4241311 CTTTTTCATTTTTTTCATTTTTCAT
1 CTTTTTCA-TTTTTT-ATTTTTCAT
4241336 CTTTTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 7 0.17
25 10 0.24
26 22 0.54
27 2 0.05
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (25 bp):
CTTTTTCATTTTTTATTTTTCATTT
Found at i:4241299 original size:33 final size:34
Alignment explanation
Indices: 4241262--4241345 Score: 106
Period size: 33 Copynumber: 2.5 Consensus size: 34
4241252 CAAACCCTCC
4241262 TTTTTC-TCTTTTTATTT-TTCATTTC-TTTTTTCA
1 TTTTTCATCTTTTTATTTCTT--TTTCATTTTTTCA
4241295 TTTTTCAT-TTTTT-TTTCTTTTTCATTTTTTTCA
1 TTTTTCATCTTTTTATTTCTTTTTCA-TTTTTTCA
4241328 TTTTTCATCTTTTTATTT
1 TTTTTCATCTTTTTATTT
4241346 GTTCCCTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
31 4 0.09
32 3 0.07
33 29 0.64
34 6 0.13
35 3 0.07
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (34 bp):
TTTTTCATCTTTTTATTTCTTTTTCATTTTTTCA
Found at i:4241306 original size:16 final size:16
Alignment explanation
Indices: 4241287--4241345 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
4241277 TTTTCATTTC
4241287 TTTTTTCATTTTTCATTT
1 TTTTTTCATTTTTCA--T
4241305 TTTTTTC-TTTTTCAT
1 TTTTTTCATTTTTCAT
4241320 TTTTTTCATTTTTCAT
1 TTTTTTCATTTTTCAT
*
4241336 CTTTTT-ATTT
1 TTTTTTCATTT
4241346 GTTCCCTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 12 0.31
16 13 0.33
17 7 0.18
18 7 0.18
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCATTTTTCAT
Found at i:4241323 original size:24 final size:24
Alignment explanation
Indices: 4241261--4241362 Score: 75
Period size: 26 Copynumber: 4.1 Consensus size: 24
4241251 TCAAACCCTC
* *
4241261 CTTTTTC-TCTTTTTATTTTTCATTT
1 CTTTTTCAT-TTTTCATTTTT-TTTT
4241286 CTTTTTTCATTTTTCATTTTTTTTT
1 C-TTTTTCATTTTTCATTTTTTTTT
**
4241311 CTTTTTCATTTTTTTCA-TTTTTCAT
1 CTTTTTCA--TTTTTCATTTTTTTTT
**
4241336 CTTTTT-ATTTGTTCCCTTTTTTTT
1 CTTTTTCATTT-TTCATTTTTTTTT
4241360 CTT
1 CTT
4241363 CAAGCATAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
22 3 0.05
23 3 0.05
24 17 0.27
25 17 0.27
26 23 0.36
27 1 0.02
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.75
Consensus pattern (24 bp):
CTTTTTCATTTTTCATTTTTTTTT
Found at i:4241340 original size:9 final size:8
Alignment explanation
Indices: 4241283--4241345 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 8
4241273 TTATTTTTCA
4241283 TTTC-TTT
1 TTTCATTT
4241290 TTTCA-TT
1 TTTCATTT
4241297 TTTCATTT
1 TTTCATTT
**
4241305 TTTTTTCTT
1 TTTCAT-TT
4241314 TTTCATTTT
1 TTTCA-TTT
4241323 TTTCA-TT
1 TTTCATTT
4241330 TTTCATCTT
1 TTTCAT-TT
4241339 TTT-ATTT
1 TTTCATTT
4241346 GTTCCCTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 20 0.43
8 8 0.17
9 17 0.37
10 1 0.02
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTCATTT
Found at i:4241356 original size:33 final size:32
Alignment explanation
Indices: 4241262--4241358 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 32
4241252 CAAACCCTCC
4241262 TTTTTC-TCTTTTTATTTTT-CATTTCTTTTTTCA
1 TTTTTCATCTTTTTATTTTTCCA--T-TTTTTTCA
* * *
4241295 TTTTTCATTTTTTTTTCTTTTTCATTTTTTTCA
1 TTTTTCATCTTTTTAT-TTTTCCATTTTTTTCA
*
4241328 TTTTTCATCTTTTTATTTGTTCCCTTTTTTT
1 TTTTTCATCTTTTTATTT-TTCCATTTTTTT
4241359 TCTTCAAGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
32 2 0.04
33 38 0.70
34 8 0.15
35 4 0.07
36 2 0.04
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.76
Consensus pattern (32 bp):
TTTTTCATCTTTTTATTTTTCCATTTTTTTCA
Found at i:4254471 original size:3 final size:3
Alignment explanation
Indices: 4254463--4254487 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4254453 ATATTAATTA
4254463 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
4254488 TTTATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4268313 original size:2 final size:2
Alignment explanation
Indices: 4268306--4268332 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4268296 GATCTGAGCA
4268306 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4268333 CACGGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4269194 original size:69 final size:70
Alignment explanation
Indices: 4269085--4269334 Score: 461
Period size: 70 Copynumber: 3.6 Consensus size: 70
4269075 ATTTTTTTTA
4269085 AAAACAAT--CACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAG-AAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
4269147 AGAAC
66 AGAAC
4269152 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
4269217 AGAAC
66 AGAAC
* *
4269222 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAAAGTAAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
4269287 AGAAC
66 AGAAC
4269292 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
4269335 CTTACTTCTA
Statistics
Matches: 178, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
67 8 0.04
69 45 0.25
70 125 0.70
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.14
Consensus pattern (70 bp):
AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
AGAAC
Found at i:4271965 original size:14 final size:14
Alignment explanation
Indices: 4271945--4271986 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
4271935 ATGAAGTTTG
4271945 ATTTTAATGTATAT
1 ATTTTAATGTATAT
* *
4271959 GTTTTAATGTGTAT
1 ATTTTAATGTATAT
4271973 ATTTTAATGTATAT
1 ATTTTAATGTATAT
4271987 TAGGATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (14 bp):
ATTTTAATGTATAT
Found at i:4273041 original size:64 final size:62
Alignment explanation
Indices: 4272971--4273180 Score: 221
Period size: 65 Copynumber: 3.3 Consensus size: 62
4272961 TGGACTCTCA
*
4272971 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGTCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA-TCAGAGTGCATCGATGCATGG-TG
** *
4273035 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAT-CAGAGTGCATCGATGCATGGT-
*
4273099 T
62 G
*
4273100 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA---AATATCA-GAGTGCATCGATGCATGG-
4273162 TTG
61 -TG
*
4273165 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
4273181 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 46 0.37
65 68 0.55
66 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCAGAGTGCATCGATGCATGGTG
Found at i:4277221 original size:30 final size:30
Alignment explanation
Indices: 4277187--4277266 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
4277177 CAAAATGGTT
4277187 TTTGGACTTGAATTGAATTTACAAAACGTA
1 TTTGGACTTGAATTGAATTTACAAAACGTA
*
4277217 TTTGGACTTGAATTGAATTTACAAAATGTA
1 TTTGGACTTGAATTGAATTTACAAAACGTA
4277247 TTTGGACTT-AATTGAATTTA
1 TTTGGACTTGAATTGAATTTA
4277267 TTCAAAATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 11 0.22
30 38 0.78
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (30 bp):
TTTGGACTTGAATTGAATTTACAAAACGTA
Found at i:4277356 original size:19 final size:19
Alignment explanation
Indices: 4277332--4277397 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
4277322 ATGTTTTTTA
*
4277332 TGAATAGTAATTTACTATT
1 TGAATAGTAAATTACTATT
4277351 TGAATAGTAAATTACTATT
1 TGAATAGTAAATTACTATT
* * *
4277370 TGAACAGTAAATCACTGTT
1 TGAATAGTAAATTACTATT
*
4277389 TGAACAGTA
1 TGAATAGTA
4277398 CCCCGAGGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
TGAATAGTAAATTACTATT
Found at i:4277530 original size:21 final size:21
Alignment explanation
Indices: 4277504--4277545 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4277494 ATTTGAATAT
*
4277504 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4277525 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4277546 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:4277868 original size:34 final size:32
Alignment explanation
Indices: 4277829--4277898 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4277819 TTTTGTAAAG
*
4277829 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
4277863 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4277895 GGGA
1 GGGA
4277899 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4282204 original size:18 final size:17
Alignment explanation
Indices: 4282150--4282198 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
4282140 TTGGACTCTC
* *
4282150 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
4282168 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
4282186 AGTGCATTCGATG
1 AGTGCA-TCGATG
4282199 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:4282267 original size:46 final size:45
Alignment explanation
Indices: 4282169--4282274 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 45
4282159 GTGCACTAAG
* *
4282169 AGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAC
* *
4282214 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTC
1 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCAC
*
4282260 AGTGCATCGGTGCAT
1 AGTGCATCGATGCAT
4282275 GGTATGTGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 29 0.54
46 22 0.41
47 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (45 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAC
Found at i:4282352 original size:65 final size:65
Alignment explanation
Indices: 4282215--4282340 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 65
4282205 AATAGCCAGA
* * **
4282215 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAATAAAATCATCAGTGCATCAATGCATGGTAT
* * * *
4282280 GTGCATCGATGCATGAAATGCATTCGATG-TTTAATTTAATTCAT-AGTGCGTCAATGCATGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAA-TAAAATCATCAGTGCATCAATGCATGG
4282341 ATTGGTGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
64 18 0.35
65 34 0.65
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTAATAAAATCATCAGTGCATCAATGCATGGTAT
Found at i:4283032 original size:21 final size:21
Alignment explanation
Indices: 4283008--4283047 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4282998 ATAAAACCCT
* *
4283008 GTGGGCTAGGCATGTAACCTG
1 GTGGGCTAAGAATGTAACCTG
4283029 GTGGGCTAAGAATGTAACC
1 GTGGGCTAAGAATGTAACC
4283048 CTGCAGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (21 bp):
GTGGGCTAAGAATGTAACCTG
Found at i:4283072 original size:42 final size:42
Alignment explanation
Indices: 4283026--4283119 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
4283016 GGCATGTAAC
4283026 CTGGTGGGCTAAGA-ATGTAACCCTGCA-GAGATGACATATAAA
1 CTGGTGGGCT-AGACATGTAACCCTG-AGGAGATGACATATAAA
* * * *
4283068 CTGGTGGGCTTGACATGTACCCCTGAGGAGATGGCATATGAA
1 CTGGTGGGCTAGACATGTAACCCTGAGGAGATGACATATAAA
*
4283110 CTGGAGGGCT
1 CTGGTGGGCT
4283120 GGGCATCATC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (42 bp):
CTGGTGGGCTAGACATGTAACCCTGAGGAGATGACATATAAA
Found at i:4283441 original size:24 final size:24
Alignment explanation
Indices: 4283408--4283464 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
4283398 TAAATTCGTT
4283408 ATAAAT-TTAA-ATTAAAAATAATA
1 ATAAATATTAACATTAAAAATAA-A
**
4283431 ATAAATATTAACATTAATTATAAA
1 ATAAATATTAACATTAAAAATAAA
*
4283455 AAAAATATTA
1 ATAAATATTA
4283465 CCATATCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 14 0.48
25 9 0.31
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAATATTAACATTAAAAATAAA
Found at i:4283654 original size:29 final size:31
Alignment explanation
Indices: 4283585--4283655 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 31
4283575 AATTAATAAT
*
4283585 TTAA-ATAAATAATAATTATAAAATATTATT
1 TTAATATAAATAATAATTATAAAATATTATA
* * *
4283615 TTAATAAAAATAATATTTAT-ATA-ATTATA
1 TTAATATAAATAATAATTATAAAATATTATA
*
4283644 TTACTATAAATA
1 TTAATATAAATA
4283656 TAAAAACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 15 0.44
30 6 0.18
31 13 0.38
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAATATAAATAATAATTATAAAATATTATA
Found at i:4287748 original size:133 final size:133
Alignment explanation
Indices: 4287343--4287823 Score: 638
Period size: 133 Copynumber: 3.6 Consensus size: 133
4287333 TTGTTAGATT
* * * *
4287343 GAACAAGTTCTTCGCATTATGAACTTCTTCTCTCT-TTTGGATGAGTTTTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
* * * ** * * *
4287407 TTCACTGAAAATGTTGATCCCTCAGTGAGGCATCCCTGACTCGAAATG-CTGTGAATCGAGTGAT
66 TCCATTGAAAATGTTGATCCCTCAGCGAGGTGTCACTGATTCG-AATGTC-ATGAATCGAGTGAT
4287471 AGGTC
129 AGGTC
* *
4287476 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAG---TTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
* *
4287538 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTCATGAATTGA--G-T
66 TCCATTGAAAATGTTGATCCCTC-AGCGAGGTGTCACTGATTC-GAATGTCATGAATCGAGTGAT
4287600 AGGTC
129 AGGTC
*
4287605 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTT-GGATGAGTTCTTCTCATTATGAACT
* ** *
4287670 CTCCATTG-GAATGTCAATTCCTCAGCGAGGTGTCACTGATTCGAATGTCATGAATCGAGTGATA
65 CTCCATTGAAAATGTTGATCCCTCAGCGAGGTGTCACTGATTCGAATGTCATGAATCGAGTGATA
4287734 GGTC
130 GGTC
*
4287738 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TTGGATGAGTTCTTCTCATTATGAACT
*
4287803 CTCCATTGAAAATGCTGATCC
65 CTCCATTGAAAATGTTGATCC
4287824 ACCTCTTTTT
Statistics
Matches: 304, Mismatches: 31, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
129 42 0.14
130 22 0.07
131 56 0.18
132 37 0.12
133 130 0.43
134 17 0.06
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (133 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
TCCATTGAAAATGTTGATCCCTCAGCGAGGTGTCACTGATTCGAATGTCATGAATCGAGTGATAG
GTC
Found at i:4287913 original size:16 final size:16
Alignment explanation
Indices: 4287863--4287914 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
4287853 GTTGAACAAT
*
4287863 TCTTCTTATTATGAAC
1 TCTTCTCATTATGAAC
* * **
4287879 T-TTCTCCTTACGAGT
1 TCTTCTCATTATGAAC
4287894 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
4287910 TCTTC
1 TCTTC
4287915 ACTGGAAATG
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:4288796 original size:23 final size:23
Alignment explanation
Indices: 4288769--4288819 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
4288759 CGAACCCTCA
*
4288769 TTCTTCATTTT-TTTTTCTTTTTT
1 TTCTTC-TTTTATTTTTCATTTTT
4288792 TTCTTCTTTTATTTTTCATTTTT
1 TTCTTCTTTTATTTTTCATTTTT
4288815 TTCTT
1 TTCTT
4288820 TAAGCATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (23 bp):
TTCTTCTTTTATTTTTCATTTTT
Found at i:4304521 original size:26 final size:24
Alignment explanation
Indices: 4304472--4304529 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
4304462 AAAAGTAAGA
*
4304472 ATTAAAATAATTATTTAACTAAAT
1 ATTAAAATAATTATTTAAATAAAT
4304496 ATTAAAA-AATTATTTTAAAATAAAAT
1 ATTAAAATAATTA-TTT-AAAT-AAAT
*
4304522 GTTAAAAT
1 ATTAAAAT
4304530 TTAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 3 0.11
26 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAAAATAATTATTTAAATAAAT
Found at i:4312651 original size:70 final size:69
Alignment explanation
Indices: 4312567--4312748 Score: 328
Period size: 70 Copynumber: 2.6 Consensus size: 69
4312557 TAGAAATCAG
*
4312567 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTTTTTA
1 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
4312632 GACTT
66 GAC-T
*
4312637 TTGTGGTGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
1 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
4312702 GACT
66 GACT
*
4312706 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTTTTTT
1 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTT
4312749 AAATTAACTA
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
69 42 0.39
70 66 0.61
ACGTcount: A:0.15, C:0.14, G:0.17, T:0.54
Consensus pattern (69 bp):
TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
GACT
Found at i:4313201 original size:30 final size:29
Alignment explanation
Indices: 4313167--4313224 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4313157 CAAGTATATC
4313167 ACCGGTGAACAGTATATTTCCCGATCTAAT
1 ACCGGT-AACAGTATATTTCCCGATCTAAT
* * *
4313197 ACCGGTCAGATTATATTTCCCGATCTAA
1 ACCGGTAACAGTATATTTCCCGATCTAA
4313225 CACCCTTAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (29 bp):
ACCGGTAACAGTATATTTCCCGATCTAAT
Found at i:4313358 original size:29 final size:29
Alignment explanation
Indices: 4313320--4313394 Score: 150
Period size: 29 Copynumber: 2.6 Consensus size: 29
4313310 CGGTGAACAG
4313320 TATATTTCCCGATCTAATACCGGTCAGAT
1 TATATTTCCCGATCTAATACCGGTCAGAT
4313349 TATATTTCCCGATCTAATACCGGTCAGAT
1 TATATTTCCCGATCTAATACCGGTCAGAT
4313378 TATATTTCCCGATCTAA
1 TATATTTCCCGATCTAA
4313395 CACCTTTAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (29 bp):
TATATTTCCCGATCTAATACCGGTCAGAT
Found at i:4313486 original size:51 final size:50
Alignment explanation
Indices: 4313410--4313539 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 50
4313400 TTAGCAGTAA
* * *
4313410 AGCGCGCCCCCTGCACCTCGCTATACGCTGATTTGGC-GCCACGTGGGGTAT
1 AGCGCG-CCCCTGCACCGCGCTATACGCTGATCTGGCAGACACGT-GGGTAT
* *
4313461 AGCGCGCCCCATGCACCGCGCTATACGGTGATCTGGCATACACGTGGGTAT
1 AGCGCGCCCC-TGCACCGCGCTATACGCTGATCTGGCAGACACGTGGGTAT
* *
4313512 AGTGCGGCCCCTGCAGCGCGCTATACGC
1 AGCGC-GCCCCTGCACCGCGCTATACGC
4313540 CACGTAAGGG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
50 4 0.06
51 54 0.79
52 10 0.15
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCTGCACCGCGCTATACGCTGATCTGGCAGACACGTGGGTAT
Found at i:4317800 original size:18 final size:18
Alignment explanation
Indices: 4317777--4317816 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4317767 AAAGGCGATG
*
4317777 GCGGCATCATATATGGCT
1 GCGGCATCATATATGACT
4317795 GCGGCATCATATATGACT
1 GCGGCATCATATATGACT
4317813 GCGG
1 GCGG
4317817 TGGCTGCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (18 bp):
GCGGCATCATATATGACT
Found at i:4319508 original size:104 final size:107
Alignment explanation
Indices: 4319336--4319526 Score: 343
Period size: 104 Copynumber: 1.8 Consensus size: 107
4319326 TTCTTAATCT
*
4319336 ATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTAAATTAAACGTTAAAA
1 ATAATCATGCATTAAATGAATCAACTAAATATTACTAATAATTTAAATTAAATTAAACGTTAAAA
*
4319401 TGTTACCGTATCAGCAAAGTGTCGATATATCTAATTCTTCTA
66 TGTTACCGTATCAACAAAGTGTCGATATATCTAATTCTTCTA
4319443 ATAATCATGCATTAAAT-AAT-AACTAAATATTACTAATAATTT-AATTAAATTAAACGTTAAAA
1 ATAATCATGCATTAAATGAATCAACTAAATATTACTAATAATTTAAATTAAATTAAACGTTAAAA
4319505 TGTTACCGTATCAACAAAGTGT
66 TGTTACCGTATCAACAAAGTGT
4319527 TGAGATATAT
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
104 41 0.50
105 21 0.26
106 3 0.04
107 17 0.21
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.36
Consensus pattern (107 bp):
ATAATCATGCATTAAATGAATCAACTAAATATTACTAATAATTTAAATTAAATTAAACGTTAAAA
TGTTACCGTATCAACAAAGTGTCGATATATCTAATTCTTCTA
Found at i:4319856 original size:51 final size:51
Alignment explanation
Indices: 4319798--4319920 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
4319788 AGATATCTAG
* * * * * * *
4319798 GTATAGCGCGCTGTAGGGGTCGCACTATAC-CCATGTGTATGCCAGATCACC
1 GTATAGCGCGGTGCAGGGGGCGCACTATACTCCACGTG-ACGCCAAAACACC
*
4319849 GTATAGCGCGGTGCAGGGGGCGCACTATACTCCACGTGACGCCAAAACATC
1 GTATAGCGCGGTGCAGGGGGCGCACTATACTCCACGTGACGCCAAAACACC
4319900 GTATAGCGCGGTGCAGGGGGC
1 GTATAGCGCGGTGCAGGGGGC
4319921 ACGCTTTACT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 57 0.90
52 6 0.10
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.19
Consensus pattern (51 bp):
GTATAGCGCGGTGCAGGGGGCGCACTATACTCCACGTGACGCCAAAACACC
Found at i:4320008 original size:30 final size:29
Alignment explanation
Indices: 4319937--4320012 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
4319927 TACTGCTAAA
*
4319937 GGTGTTAGATCGAGAAATATAATCTGACC
1 GGTGATAGATCGAGAAATATAATCTGACC
* * * *
4319966 GGTGTTAGATCGAGAAATATACTGTTTACC
1 GGTGATAGATCGAGAAATATAAT-CTGACC
*
4319996 GGTGATATATCGAGAAA
1 GGTGATAGATCGAGAAA
4320013 ATCACCAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (29 bp):
GGTGATAGATCGAGAAATATAATCTGACC
Found at i:4321520 original size:14 final size:14
Alignment explanation
Indices: 4321501--4321537 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
4321491 CCCCAAGTTT
4321501 TCACATATCTGTAA
1 TCACATATCTGTAA
4321515 TCACATATCTGTAA
1 TCACATATCTGTAA
4321529 TCACA-ATCT
1 TCACATATCT
4321538 CTTTGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (14 bp):
TCACATATCTGTAA
Found at i:4327941 original size:24 final size:24
Alignment explanation
Indices: 4327914--4327962 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
4327904 CACCGAAGTG
4327914 CACGTAGAATTTG-TCCAGAAGGAC
1 CACGTAGAATTTGTTCCA-AAGGAC
4327938 CACGTAGAATTTGTTCCAAAGGAC
1 CACGTAGAATTTGTTCCAAAGGAC
4327962 C
1 C
4327963 GCATAGAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (24 bp):
CACGTAGAATTTGTTCCAAAGGAC
Found at i:4327969 original size:24 final size:24
Alignment explanation
Indices: 4327918--4327970 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4327908 GAAGTGCACG
*
4327918 TAGAATTTGTCCAGAAGGACCACG
1 TAGAATTTGTCCAGAAGGACCACA
*
4327942 TAGAATTTGTTCCA-AAGGACCGCA
1 TAGAATTTG-TCCAGAAGGACCACA
4327966 TAGAA
1 TAGAA
4327971 CCCTTGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
TAGAATTTGTCCAGAAGGACCACA
Found at i:4335094 original size:19 final size:19
Alignment explanation
Indices: 4335058--4335096 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4335048 TGAAAATGTT
* *
4335058 TTGATTTTGAAAGCCAAAA
1 TTGATTTTAAAAACCAAAA
*
4335077 TTGATTTTAAAAATCAAAA
1 TTGATTTTAAAAACCAAAA
4335096 T
1 T
4335097 GAAATTTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (19 bp):
TTGATTTTAAAAACCAAAA
Found at i:4337831 original size:22 final size:22
Alignment explanation
Indices: 4337803--4337845 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4337793 TATGTCCCGA
*
4337803 AGGACCACTGTATACGTCTCGT
1 AGGACCACTGGATACGTCTCGT
4337825 AGGACCACTGGATACGTCTCG
1 AGGACCACTGGATACGTCTCG
4337846 AATGACTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (22 bp):
AGGACCACTGGATACGTCTCGT
Found at i:4338196 original size:14 final size:14
Alignment explanation
Indices: 4338179--4338213 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4338169 TCACATATGG
4338179 CATATCACATAGCA
1 CATATCACATAGCA
*
4338193 CATAGCACATAGCA
1 CATATCACATAGCA
4338207 CATATCA
1 CATATCA
4338214 GTTCATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.29, G:0.09, T:0.20
Consensus pattern (14 bp):
CATATCACATAGCA
Found at i:4343735 original size:18 final size:17
Alignment explanation
Indices: 4343708--4343742 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4343698 ATTTGTTCAG
4343708 TATTTGTCCCGAAGGAC
1 TATTTGTCCCGAAGGAC
4343725 TATTATGTCCCGAAGGAC
1 TATT-TGTCCCGAAGGAC
4343743 CACTGTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (17 bp):
TATTTGTCCCGAAGGAC
Found at i:4343785 original size:22 final size:22
Alignment explanation
Indices: 4343731--4343786 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
4343721 GGACTATTAT
*
4343731 GTCCCGAAGGACCACTGTATAC
1 GTCCCGAAGGACCACTGGATAC
* *
4343753 GTCTCGTAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
4343775 GTCCCAAAGGAC
1 GTCCCGAAGGAC
4343787 TACTATACCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:4351483 original size:22 final size:22
Alignment explanation
Indices: 4351432--4351477 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4351422 ATCATCTCCA
4351432 ACACTTCAAATCTCTTAGTTGG
1 ACACTTCAAATCTCTTAGTTGG
4351454 ACACTTCAAATCTCTTAGTTGG
1 ACACTTCAAATCTCTTAGTTGG
4351476 AC
1 AC
4351478 CTTTCACAAG
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:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (22 bp):
ACACTTCAAATCTCTTAGTTGG
Found at i:4354734 original size:24 final size:25
Alignment explanation
Indices: 4354692--4354738 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4354682 GACTCATTTC
*
4354692 TATAACATAATAATTAATATAAATA
1 TATAACATAATAATCAATATAAATA
*
4354717 TATAA-ATATTAATCAATATAAA
1 TATAACATAATAATCAATATAAA
4354739 ATTATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TATAACATAATAATCAATATAAATA
Found at i:4354736 original size:18 final size:18
Alignment explanation
Indices: 4354713--4354747 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4354703 AATTAATATA
4354713 AATATATAAA-TATTAATC
1 AATATA-AAATTATTAATC
4354731 AATATAAAATTATTAAT
1 AATATAAAATTATTAAT
4354748 TTATGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAAAATTATTAATC
Found at i:4359566 original size:21 final size:21
Alignment explanation
Indices: 4359542--4359585 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4359532 CGTTGCGATT
4359542 GCGTTGCGATTTTCCCAATTC
1 GCGTTGCGATTTTCCCAATTC
4359563 GCGTTGCGATTTTCCCAATTC
1 GCGTTGCGATTTTCCCAATTC
4359584 GC
1 GC
4359586 AATGCGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.30, G:0.20, T:0.36
Consensus pattern (21 bp):
GCGTTGCGATTTTCCCAATTC
Found at i:4359591 original size:21 final size:21
Alignment explanation
Indices: 4359546--4359592 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4359536 GCGATTGCGT
**
4359546 TGCGATTTTCCCAATTCGCGT
1 TGCGATTTTCCCAATTCGCAA
4359567 TGCGATTTTCCCAATTCGCAA
1 TGCGATTTTCCCAATTCGCAA
4359588 TGCGA
1 TGCGA
4359593 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCGATTTTCCCAATTCGCAA
Found at i:4359612 original size:41 final size:41
Alignment explanation
Indices: 4359567--4359667 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
4359557 CAATTCGCGT
* * * *
4359567 TGCGATTTTCCCAATTCGCAATGCGAA-TAAGTAAATCGCAA
1 TGCGAATTTCCAAAATCGCAATGCGAATTAA-AAAATCGCAA
**
4359608 TGCGAATTTGGAAAATCGCAATGCGAATTTAAAAAATCGCAA
1 TGCGAATTTCCAAAATCGCAATGCGAA-TTAAAAAATCGCAA
**
4359650 TGCGAATTTGGAAAATCG
1 TGCGAATTTCCAAAATCG
4359668 TAACACGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 22 0.42
42 27 0.52
43 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (41 bp):
TGCGAATTTCCAAAATCGCAATGCGAATTAAAAAATCGCAA
Found at i:4359625 original size:21 final size:21
Alignment explanation
Indices: 4359582--4359667 Score: 120
Period size: 21 Copynumber: 4.1 Consensus size: 21
4359572 TTTTCCCAAT
* *
4359582 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTAGAAAA
*
4359602 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
*
4359623 TCGCAATGCGAATTTAAAAAA
1 TCGCAATGCGAATTTAGAAAA
*
4359644 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
4359665 TCG
1 TCG
4359668 TAACACGGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 12 0.21
21 46 0.79
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGAAAA
Found at i:4359653 original size:42 final size:41
Alignment explanation
Indices: 4359582--4359667 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 41
4359572 TTTTCCCAAT
*
4359582 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATAAGAAAATCGCAATGCGAATTTGGAAAA
4359623 TCGCAATGCGAATTTAA-AAAATCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA--TAAGAAAATCGCAATGCGAATTTGGAAAA
4359665 TCG
1 TCG
4359668 TAACACGGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 12 0.29
42 27 0.64
43 3 0.07
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (41 bp):
TCGCAATGCGAATAAGAAAATCGCAATGCGAATTTGGAAAA
Found at i:4359706 original size:41 final size:41
Alignment explanation
Indices: 4359661--4359792 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
4359651 GCGAATTTGG
* *
4359661 AAAATCGTAACACGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACACGATACTGACTATCGCAACGCGATAATAC
* * * * *
4359702 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACACGATACTGACTATCGCAACGCGATAATAC
** * * * *
4359742 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACACGATACTGACTATCGCAACGCGATAATAC
*
4359783 ATAATCGCAA
1 AAAATCGCAA
4359793 TGCGATTTTC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.44
41 40 0.56
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACACGATACTGACTATCGCAACGCGATAATAC
Found at i:4359731 original size:20 final size:20
Alignment explanation
Indices: 4359706--4359778 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
4359696 TAATACAAAA
4359706 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* * *
4359726 TCGCAACTCGATACTTAATT
1 TCGCAACGCGATACTGACTT
* *
4359746 TCGCAACTCAATACTGACTT
1 TCGCAACGCGATACTGACTT
*
4359766 TCGCAACGAGATA
1 TCGCAACGCGATA
4359779 ATACATAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:4359994 original size:22 final size:22
Alignment explanation
Indices: 4359966--4360009 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4359956 ACTCTCTCAC
4359966 CCATCTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
*
4359988 CCATCTCCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
4360010 ATCTCCATCT
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:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCT
Found at i:4360323 original size:20 final size:20
Alignment explanation
Indices: 4360265--4360314 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4360255 TTTATTCTCT
* **
4360265 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
4360285 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
*
4360305 TGTTGCGATT
1 CGTTGCGATT
4360315 TTTATTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:4360512 original size:25 final size:24
Alignment explanation
Indices: 4360458--4360512 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
4360448 TGTTTATTAT
* *
4360458 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
4360482 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
4360508 TGTTT
1 TGTTT
4360513 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:4362299 original size:19 final size:20
Alignment explanation
Indices: 4362275--4362319 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4362265 GAGTTTACTT
4362275 TCGCAACAC-GAAATGACTA
1 TCGCAACACGGAAATGACTA
* *
4362294 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTA
4362314 TCGCAA
1 TCGCAA
4362320 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.16
Consensus pattern (20 bp):
TCGCAACACGGAAATGACTA
Found at i:4362335 original size:19 final size:19
Alignment explanation
Indices: 4362313--4362395 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
4362303 GGAAATGGCT
*
4362313 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
4362332 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
4362346 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4362365 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4362384 ATCGCAATGCGA
1 ATCGCAATGCGA
4362396 TTTGTGTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 39 0.71
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4362452 original size:31 final size:33
Alignment explanation
Indices: 4362402--4362478 Score: 115
Period size: 31 Copynumber: 2.4 Consensus size: 33
4362392 GCGATTTGTG
*
4362402 TTTCGCGTTGCG-TTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
4362433 -TTCGCATTGCGATTTTGTCGTTGCGATTTTTA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
4362465 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
4362479 AGCCATTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 10 0.24
31 14 0.34
32 4 0.10
33 13 0.32
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:4362458 original size:14 final size:14
Alignment explanation
Indices: 4362407--4362462 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
4362397 TTGTGTTTCG
4362407 CGTTGCG-TTTTGT
1 CGTTGCGATTTTGT
4362420 CGTTGCGATTTCAT-T
1 CGTTGCGATTT--TGT
4362435 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
4362451 CGTTGCGATTTT
1 CGTTGCGATTTT
4362463 TATTTCGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.19
14 13 0.35
15 4 0.11
16 4 0.11
17 9 0.24
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4362512 original size:20 final size:19
Alignment explanation
Indices: 4362464--4362514 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
4362454 TGCGATTTTT
*
4362464 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGATAGCC
*
4362483 ATTT--CGTTGCGATAGTC
1 ATTTCGCGTTGCGATAGCC
4362500 ATTTTCGCGTTGCGA
1 A-TTTCGCGTTGCGA
4362515 AAGTAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.44
18 3 0.11
19 4 0.15
20 8 0.30
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGCC
Found at i:4362525 original size:20 final size:18
Alignment explanation
Indices: 4362484--4362539 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
4362474 GCGATAGCCA
* * *
4362484 TTTCGTTGCGATAGTCAT
1 TTTCGTTGCGAAAGTAAG
4362502 TTTCGCGTTGCGAAAGTAAG
1 TTT--CGTTGCGAAAGTAAG
4362522 TTTCGTATGCGAAAGTAA
1 TTTCGT-TGCGAAAGTAA
4362540 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 15 0.47
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (18 bp):
TTTCGTTGCGAAAGTAAG
Found at i:4364362 original size:14 final size:14
Alignment explanation
Indices: 4364328--4364366 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4364318 TTGATTGTTT
4364328 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
4364342 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
4364356 TGTTGATTTGT
1 AATTGATTTGT
4364367 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:4364523 original size:19 final size:19
Alignment explanation
Indices: 4364501--4364587 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
4364491 ATCGCAACGA
*
4364501 GAAAATCGCAATGCAAAAT
1 GAAAATCGCAATGCGAAAT
4364520 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
4364539 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4364558 GAAAATCGCAA--CG-AA-
1 GAAAATCGCAATGCGAAAT
4364573 -AAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4364588 TTTTCATTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.16
16 4 0.06
17 2 0.03
19 46 0.74
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4364645 original size:52 final size:55
Alignment explanation
Indices: 4364583--4364701 Score: 154
Period size: 52 Copynumber: 2.1 Consensus size: 55
4364573 AAAATCGCAA
* *
4364583 TGCGATTTTCATTTCGCATTGC-G-ATTTTCTAGTTGCGATAGCC-TTTTCGCGT
1 TGCGATTTTCATTTCGAATTGCAGCATTTTCGAGTTGCGATAGCCATTTTCGCGT
*
4364635 TGCGATTTTCATTTCGAATTGCGATAGCCATTTTCGCGTTGCGATAGCCATTTTCGCGT
1 TGCGATTTTCATTTCGAATTGC---AG-CATTTTCGAGTTGCGATAGCCATTTTCGCGT
4364694 TGCGATTT
1 TGCGATTT
4364702 CCCGTTGCGA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
52 21 0.37
56 1 0.02
58 18 0.32
59 17 0.30
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.42
Consensus pattern (55 bp):
TGCGATTTTCATTTCGAATTGCAGCATTTTCGAGTTGCGATAGCCATTTTCGCGT
Found at i:4364676 original size:20 final size:20
Alignment explanation
Indices: 4364614--4364699 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
4364604 CGATTTTCTA
4364614 GTTGCGATAGCC-TTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
4364633 GTTGCGATTTTCA-TTTCGA
1 GTTGCGATAGCCATTTTCGC
*
4364652 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
4364672 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
4364692 GTTGCGAT
1 GTTGCGAT
4364700 TTCCCGTTGC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
19 23 0.42
20 32 0.58
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:4365025 original size:20 final size:21
Alignment explanation
Indices: 4364981--4365032 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4364971 ATAGTCAGTA
*
4364981 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
4365002 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
4365022 TCGCATTGCGA
1 TCGCATTGCGA
4365033 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:4365848 original size:24 final size:24
Alignment explanation
Indices: 4365814--4365867 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4365804 GTATTCGAAA
*
4365814 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATATTGGTCAATACTCGGAC
*
4365838 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
4365862 TTTGAT
1 TTTGAT
4365868 GATGCTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:4366055 original size:12 final size:12
Alignment explanation
Indices: 4366038--4366062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4366028 CATATAATCT
4366038 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4366050 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4366062 G
1 G
4366063 TCTCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4368366 original size:19 final size:19
Alignment explanation
Indices: 4368344--4368474 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
4368334 GTAAATTACT
*
4368344 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
4368363 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4368377 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4368396 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
* *
4368410 TTCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
4368429 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
4368443 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4368462 ATCGCAACGCGAA
1 ATCGCAATGCGAA
4368475 TTTAGTTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 26 0.31
15 5 0.06
16 4 0.05
17 3 0.04
18 5 0.06
19 40 0.48
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4368386 original size:33 final size:33
Alignment explanation
Indices: 4368344--4368470 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
4368334 GTAAATTACT
*
4368344 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4368377 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
4368409 TTTCGCAATGTGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4368443 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4368471 CGAATTTAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4368451 original size:66 final size:66
Alignment explanation
Indices: 4368345--4368477 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
4368335 TAAATTACTA
4368345 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
4368410 T
66 T
* * *
4368411 TCGCAATGTGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
4368476 T
66 T
4368477 T
1 T
4368478 AGTTTCGTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:4368509 original size:19 final size:19
Alignment explanation
Indices: 4368470--4368528 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
4368460 AAATCGCAAC
*
4368470 GCGAATTTAGTTTCG--TT
1 GCGATTTTAGTTTCGCATT
4368487 GCGATTTTAGTTTCGCATT
1 GCGATTTTAGTTTCGCATT
4368506 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCATT
4368525 GCGA
1 GCGA
4368529 AATTCGCGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
17 14 0.37
19 23 0.61
20 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:4368669 original size:14 final size:14
Alignment explanation
Indices: 4368650--4368685 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4368640 CATCAATTAA
4368650 ACAAATCAACATTT
1 ACAAATCAACATTT
*
4368664 ACAAATC-ACCTTT
1 ACAAATCAACATTT
4368677 ACAAATCAA
1 ACAAATCAA
4368686 TTAAACAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4370538 original size:78 final size:79
Alignment explanation
Indices: 4370391--4370544 Score: 231
Period size: 78 Copynumber: 1.9 Consensus size: 79
4370381 AACGACAAAA
*
4370391 AAAAGACAAATACTAACTTTACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGAAGCAACCGA
1 AAAAGACAAATACTAACTTCACAGTGTTAAAGAAT--A-AGTTTAGCAGAATTGGAAGCAACCGA
4370456 ATAAATTTACTTCAACC
63 ATAAATTTACTTCAACC
* *
4370473 AAAAGACAAATACTAACTTCACAGTGTTAATA-AAT-AGTTTAGCAGTATTGGCAGCAACCGAAT
1 AAAAGACAAATACTAACTTCACAGTGTTAA-AGAATAAGTTTAGCAGAATTGGAAGCAACCGAAT
4370536 AAATTTACT
65 AAATTTACT
4370545 AAGCGATCTA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
78 35 0.51
82 32 0.47
83 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (79 bp):
AAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAGTTTAGCAGAATTGGAAGCAACCGAATA
AATTTACTTCAACC
Found at i:4372260 original size:20 final size:19
Alignment explanation
Indices: 4372229--4372288 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
4372219 TCTTTTGGTT
4372229 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
4372248 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGA
**
4372268 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
4372287 GA
1 GA
4372289 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:4372280 original size:19 final size:19
Alignment explanation
Indices: 4372238--4372318 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
4372228 TGAAATGAAA
* **
4372238 ATCGCAACGAGATAATGAGA
1 ATCGCAACGCGA-AATGACT
4372258 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
4372277 ATCGCAA--CGAGA-GA--
1 ATCGCAACGCGAAATGACT
4372291 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
4372310 ATCGTAACG
1 ATCGCAACG
4372319 AGAGAATCGC
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 7 0.14
16 6 0.12
17 6 0.12
19 20 0.40
20 11 0.22
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:4372296 original size:33 final size:33
Alignment explanation
Indices: 4372254--4372348 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
4372244 ACGAGATAAT
4372254 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
*
4372287 GAGAATCGCAACGCGAAATGACTATCGTAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
4372320 GAGAATCGCAACGC-AAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
4372349 TGTGATTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 12 0.21
33 46 0.79
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:4372973 original size:20 final size:20
Alignment explanation
Indices: 4372948--4373059 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
4372938 GCTATGTAAA
4372948 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
4372968 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
4372988 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
4373009 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
4373029 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
*
4373049 TCGTATTGCGA
1 TCGCATTGCGA
4373060 ATTATGAAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 3 0.04
20 57 0.73
21 18 0.23
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:4373018 original size:41 final size:40
Alignment explanation
Indices: 4372966--4373182 Score: 125
Period size: 41 Copynumber: 5.3 Consensus size: 40
4372956 CGATAGTAAG
* *
4372966 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * *
4373006 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * * * ** * *
4373047 ATTCGTATTGCGAATTATGAAAATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTACCT
* * * * * * * *
4373087 AAATCGCAATGCGAATTAGGAAAATTGCATTGCGATAGT-CAGT
1 -ATTCGCATTGCGATTTACG-TAATCGCATTGCGAT-TTAC-CT
* ** *
4373130 A-TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACCT
4373170 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4373183 ATTGGGAAAA
Statistics
Matches: 138, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
40 26 0.19
41 107 0.78
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:4373082 original size:21 final size:21
Alignment explanation
Indices: 4373056--4373111 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
4373046 TATTCGTATT
*
4373056 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
4373077 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
4373097 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
4373112 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:4373120 original size:21 final size:21
Alignment explanation
Indices: 4373055--4373121 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
4373045 GTATTCGTAT
*
4373055 TGCGAATTATGAAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* *
4373076 CGCGAA-TACGTAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* * *
4373096 TGCGAATTAGGAAAATTGCAT
1 TGCGAATTACGAAAATCGCAA
4373117 TGCGA
1 TGCGA
4373122 TAGTCAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TGCGAATTACGAAAATCGCAA
Found at i:4373175 original size:20 final size:21
Alignment explanation
Indices: 4373131--4373182 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4373121 ATAGTCAGTA
*
4373131 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
4373152 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
4373172 TCGCATTGCGA
1 TCGCATTGCGA
4373183 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:4377675 original size:54 final size:54
Alignment explanation
Indices: 4377605--4377923 Score: 413
Period size: 54 Copynumber: 5.9 Consensus size: 54
4377595 CTGAGCAGCA
* * * * * * *
4377605 TTGTTCTCGTTCTGACCTGCATTTTCATTGTTGCCACTGTTGCTTTGAGTGACC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAGTGGCC
* * * **
4377659 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTAAGTGTTGCTTTGAGTGAAC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAGTGGCC
* *
4377713 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCGGTGTTGCTCTGAATGGCC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAGTGGCC
* * *
4377767 TTGTTCTCGTTTTGACCTGCATTGTCACTGCCGTCAGTGTTGCTCTGATTGGCC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAGTGGCC
* * *
4377821 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCGGTGTTACTCTGAGTGGTC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAGTGGCC
* * * * *
4377875 TTGTTCTCGTTCTGACCTGCATTTTCATTGTTTTCGGTGTTGCTCTGAG
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAG
4377924 CAGCATTTTC
Statistics
Matches: 237, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 237 1.00
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (54 bp):
TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCAGTGTTGCTCTGAGTGGCC
Found at i:4379160 original size:9 final size:9
Alignment explanation
Indices: 4379146--4379183 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
4379136 CATTCTTGCT
4379146 CTCTTCCTC
1 CTCTTCCTC
4379155 CTCTTCCTC
1 CTCTTCCTC
4379164 CTCTTCCTC
1 CTCTTCCTC
4379173 CTCTTCCTC
1 CTCTTCCTC
4379182 CT
1 CT
4379184 TGTTCCGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (9 bp):
CTCTTCCTC
Found at i:4382831 original size:182 final size:182
Alignment explanation
Indices: 4382452--4383113 Score: 943
Period size: 182 Copynumber: 3.6 Consensus size: 182
4382442 TATCGATACA
* * **
4382452 AAAATATATATCGATCCATAACAGTATAACAGGTAAAAATATGATC-AAACCGGTTTCA-TTATG
1 AAAA-ATATATCGATCCATAACAATATAACAGGTAAAAATATGA-CAAAACCGGTCT-AGAAATG
* * * * * *
4382515 AAAAAACCTGTAAAGCGCTACCTAATATGTTTAAAGTATCGATTCCATTGAA-ATAAATATCGAC
63 ACAAAACCGGTAAAGCGCTACCTAATATGTTGAAAGTGTCGA-TAC-TTTAATATAAATATCGAC
* * *
4382579 ACTTATGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCAATACTTTAT
126 ACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
4382636 AAAAATGTATCGATCCATAAAAATATAACAAGTAAAAATATGACAAAACCGGTCTAGAAATGACA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTAGAAATGACA
* * * *
4382701 AAACCGGTAAAGCGTTACCTAATATGTTGAAAATGTCGATACTTTAATATAAATATAGACATTTT
66 AAACCGGTAAAGCGCTACCTAATATGTTGAAAGTGTCGATACTTTAATATAAATATCGACACTTT
* * *
4382766 TGGAATTTAAAAGAGAAGTAATAATAGCGCCTATAAAGTATCGATATTTTAT
131 TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
4382818 AAAAATATATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTAGAAATGACA
* * * * *
4382883 AAACCGGTAAAGTGTTACCTAATATCTTGAAAGTGTCGATACTTTAATTTAAGTATCGACACTTT
66 AAACCGGTAAAGCGCTACCTAATATGTTGAAAGTGTCGATACTTTAATATAAATATCGACACTTT
4382948 TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
131 TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
4383000 AAAAATACATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTAGAAATGACA
**
4383065 AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAAGCGCTACCTAATATGTTGAAAGTGTCGATACTTTAATA
4383114 AGTACGCATA
Statistics
Matches: 428, Mismatches: 47, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
181 4 0.01
182 337 0.79
183 83 0.19
184 4 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTAGAAATGACA
AAACCGGTAAAGCGCTACCTAATATGTTGAAAGTGTCGATACTTTAATATAAATATCGACACTTT
TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:4385118 original size:22 final size:23
Alignment explanation
Indices: 4385067--4385120 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4385057 ACGTTTTTGT
4385067 TTTA-TATATAAAATGATAGTATA
1 TTTATTATATAAAATGATAG-ATA
4385090 TTTATTATATAAAATGATA-A-A
1 TTTATTATATAAAATGATAGATA
4385111 TTTAATTATA
1 TTT-ATTATA
4385121 AATGTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.14
22 7 0.24
23 4 0.14
24 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (23 bp):
TTTATTATATAAAATGATAGATA
Found at i:4387441 original size:66 final size:66
Alignment explanation
Indices: 4387353--4387596 Score: 407
Period size: 66 Copynumber: 3.7 Consensus size: 66
4387343 TTGTATCTGA
* * * *
4387353 ATGTAATTATGTTTGAGGTGAGAAAAATTAACAATAGGTTGTTGTACATGTTTCTTATACATGTT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGATTGTTGTACATGTTTCTTATACATGTT
4387418 G
66 G
* *
4387419 ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTTTCTTATAAATGTT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGATTGTTGTACATGTTTCTTATACATGTT
4387484 G
66 G
* *
4387485 ATGTAATTATGTATGAGATGATAAAAGTTAACAATAGGTTGTTGTACATGTTTCTTATACATGTT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGATTGTTGTACATGTTTCTTATACATGTT
4387550 G
66 G
*
4387551 ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTA
1 ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGATTGTTGTA
4387597 TCTGAATGTA
Statistics
Matches: 165, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 165 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (66 bp):
ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGATTGTTGTACATGTTTCTTATACATGTT
G
Found at i:4387590 original size:132 final size:123
Alignment explanation
Indices: 4387348--4387721 Score: 474
Period size: 132 Copynumber: 3.0 Consensus size: 123
4387338 TAATTTTGTA
* * *
4387348 TCTGAATGTAATTATGTTTGAGGTGAGAAAAATTAACAATAGGTTGTTGTACATGTTTCTTATAC
1 TCTGAATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGTTGTTGTACATGTTTCTTATAC
4387413 ATGTTGATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTT
66 ATGTTGATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTT
* *
4387471 TCTTATAAATGTTGATGTAATTATGTATGAGATGATAAAAGTTAACAATAGGTTGTTGTACATGT
1 TC-------TG--AATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGTTGTTGTACATGT
4387536 TTCTTATACATGTTGATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGT--A--
57 TTCTTATACATGTTGATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATG
4387597 --
122 TT
* * * * *
4387597 TCTGAATGTAATTATGTGTGAGATGAGAAAAGTTAGCAGTAGGGTGTTCTACATGTTTCTTATAC
1 TCTGAATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGTTGTTGTACATGTTTCTTATAC
** * *
4387662 ATAAT-AGTAGTAATTATGTATGAGATGAGAAAAGATAGCAATAGGTTGTTGTACATGTT
66 ATGTTGA-T-GTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTT
4387721 T
1 T
4387722 ATTACATTTA
Statistics
Matches: 218, Mismatches: 16, Indels: 33
0.82 0.06 0.12
Matches are distributed among these distances:
116 1 0.00
117 58 0.27
118 41 0.19
119 2 0.01
120 1 0.00
123 2 0.01
124 1 0.00
126 2 0.01
130 3 0.01
132 107 0.49
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (123 bp):
TCTGAATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGTTGTTGTACATGTTTCTTATAC
ATGTTGATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTT
Done.