Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 14
Found at i:1362434 original size:21 final size:20
Alignment explanation
Indices: 1362404--1362456 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
1362394 ATTTACTTAT
1362404 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
*
1362425 TCGCAATGCGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
1362446 TCGCATTGCGA
1 TCGCATTGCGA
1362457 TAGAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:1364209 original size:32 final size:31
Alignment explanation
Indices: 1364173--1364248 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1364163 GGGGCCGTGA
*
1364173 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
1364205 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
1364236 AGCCTACCTAAGA
1 GGCCTACCTAAGA
1364249 GTCACATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:1364231 original size:63 final size:63
Alignment explanation
Indices: 1364125--1364248 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
1364115 ACCTAAGGGA
* * *
1364125 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
* *
1364188 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
1364249 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 49 0.92
64 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:1365778 original size:18 final size:18
Alignment explanation
Indices: 1365755--1365789 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1365745 TTCCATCCGG
*
1365755 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
1365773 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
1365790 GTCATTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:1367131 original size:17 final size:18
Alignment explanation
Indices: 1367111--1367146 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1367101 CGGTCAACGT
*
1367111 TCAACGGGTGGGGT-GGG
1 TCAACGGGTCGGGTCGGG
1367128 TCAACGGGTCGGGTCGGG
1 TCAACGGGTCGGGTCGGG
1367146 T
1 T
1367147 TATGACCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.11, C:0.17, G:0.53, T:0.19
Consensus pattern (18 bp):
TCAACGGGTCGGGTCGGG
Found at i:1372589 original size:64 final size:65
Alignment explanation
Indices: 1372476--1372618 Score: 177
Period size: 64 Copynumber: 2.2 Consensus size: 65
1372466 TGCACTAAGA
* *
1372476 GTGCATCGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG-TAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGAT-T
1372540 -
65 G
** *
1372540 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTAATCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAAT-AGCC-TGAGTGCATCGATGCATGGAT
1372603 TG
64 TG
*
1372605 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1372619 CACTTTGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 6 0.09
64 47 0.68
65 16 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGATTG
Found at i:1379116 original size:13 final size:13
Alignment explanation
Indices: 1379092--1379125 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1379082 AGAAAATAAT
1379092 ATATATTATATGTA
1 ATATA-TATATGTA
1379106 ATATATATATGTA
1 ATATATATATGTA
*
1379119 ACATATA
1 ATATATA
1379126 GGCACAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (13 bp):
ATATATATATGTA
Found at i:1380406 original size:43 final size:43
Alignment explanation
Indices: 1380359--1380499 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
1380349 TTTTTTGTTA
*
1380359 GTGTTGAT-ATTTAGCGGTATTTTTCTCTA-AAACGCCGCAGTAG
1 GTGTTGATGTTTTA-CGGTATTTTTCTC-ACAAACGCCGCAGTAG
** * *
1380402 GTGTTGATGTTTTACGG-CGTTTTCCCACAAACGCCGCAATAG
1 GTGTTGATGTTTTACGGTATTTTTCTCACAAACGCCGCAGTAG
* *
1380444 GTTTTGATGTTTTACGGTGTTTTTCTCACAAACGCCGCAGTAG
1 GTGTTGATGTTTTACGGTATTTTTCTCACAAACGCCGCAGTAG
*
1380487 GTATTGATGTTTT
1 GTGTTGATGTTTT
1380500 GTGGCATTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 35 0.42
43 44 0.52
44 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (43 bp):
GTGTTGATGTTTTACGGTATTTTTCTCACAAACGCCGCAGTAG
Found at i:1380434 original size:42 final size:43
Alignment explanation
Indices: 1380388--1380499 Score: 172
Period size: 43 Copynumber: 2.6 Consensus size: 43
1380378 TTTTTCTCTA
*
1380388 AAACGCCGCAGTAGGTGTTGATGTTTTACGGCG-TTTTCCCAC
1 AAACGCCGCAGTAGGTATTGATGTTTTACGGCGTTTTTCCCAC
* * * *
1380430 AAACGCCGCAATAGGTTTTGATGTTTTACGGTGTTTTTCTCAC
1 AAACGCCGCAGTAGGTATTGATGTTTTACGGCGTTTTTCCCAC
1380473 AAACGCCGCAGTAGGTATTGATGTTTT
1 AAACGCCGCAGTAGGTATTGATGTTTT
1380500 GTGGCATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (43 bp):
AAACGCCGCAGTAGGTATTGATGTTTTACGGCGTTTTTCCCAC
Found at i:1380948 original size:21 final size:21
Alignment explanation
Indices: 1380924--1380969 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1380914 GCTTATATGT
*
1380924 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTCTGCTGCCGC
* *
1380945 TGCTTCTCTCTCTGCTTCCGT
1 TGCTTCTCTCTCTGCTGCCGC
1380966 TGCT
1 TGCT
1380970 GCTATGGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.20, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTGCCGC
Found at i:1390280 original size:42 final size:42
Alignment explanation
Indices: 1390233--1390348 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
1390223 AAGGGATATA
* *
1390233 CTATTGCGGCGTTTAT-TACAAAAAGGCCACTAAATTACAACT
1 CTATTGCGGCGTTTATGT-CAAAAACGCCACTAAAGTACAACT
1390275 CTATTGCGGCGTTTATGTCAAAAACGCCACTAAAGTACAACT
1 CTATTGCGGCGTTTATGTCAAAAACGCCACTAAAGTACAACT
* *
1390317 -TTTTAGCGGCGTTT-GGT-AACAAACGCCACTAA
1 CTATT-GCGGCGTTTATGTCAA-AAACGCCACTAA
1390349 TTTAAGAGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
40 2 0.03
41 17 0.25
42 47 0.70
43 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
CTATTGCGGCGTTTATGTCAAAAACGCCACTAAAGTACAACT
Found at i:1390411 original size:41 final size:41
Alignment explanation
Indices: 1390238--1390411 Score: 129
Period size: 41 Copynumber: 4.2 Consensus size: 41
1390228 ATATACTATT
* * *
1390238 GCGGCGTTTATTACAAAAAGGCCACTAAATTACAACTCTATT-
1 GCGGCGTTGATTA-AAAAACGCCACTAAAGTACAACTCT-TTA
* * *
1390280 GCGGCGTTTATGTCAAAAACGCCACTAAAGTACAACTTTTTA
1 GCGGCGTTGAT-TAAAAAACGCCACTAAAGTACAACTCTTTA
* * ** * * *
1390322 GCGGCGTTTG-GTAACAAACGCCACTAATTTA-AGAGTATTTT
1 GCGGCG-TTGATTAAAAAACGCCACTAAAGTACA-ACTCTTTA
* * **
1390363 GCAGCGTTGATTAAAAAATGCCACTAAAGTATTACTCTTTA
1 GCGGCGTTGATTAAAAAACGCCACTAAAGTACAACTCTTTA
1390404 GCGGCGTT
1 GCGGCGTT
1390412 TTTGGATACA
Statistics
Matches: 102, Mismatches: 24, Indels: 13
0.73 0.17 0.09
Matches are distributed among these distances:
40 4 0.04
41 56 0.55
42 39 0.38
43 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
GCGGCGTTGATTAAAAAACGCCACTAAAGTACAACTCTTTA
Found at i:1391713 original size:41 final size:41
Alignment explanation
Indices: 1391677--1391860 Score: 212
Period size: 41 Copynumber: 4.5 Consensus size: 41
1391667 GACTATATAT
* *
1391677 TTAACA-TTTTGCGGCGTTTATAAAAAAATGCCACTATTGA
1 TTAACACTATTGCGGCGTTTTTAAAAAAATGCCACTATTGA
*
1391717 TT-ACACTATTGTGGCGTTTGTTAAAAAAATGCCACTATTGA
1 TTAACACTATTGCGGCGTTT-TTAAAAAAATGCCACTATTGA
** *
1391758 TTGAA-ACTATTGCGGCGTTTTTCTAAAAACGCCACTATTGA
1 TT-AACACTATTGCGGCGTTTTTAAAAAAATGCCACTATTGA
* * ** * *
1391799 TTAACATTATTGCGGCGTTTGTCTAAAAATGACACTATTTA
1 TTAACACTATTGCGGCGTTTTTAAAAAAATGCCACTATTGA
*
1391840 TTATCACTATTGCGGCGTTTT
1 TTAACACTATTGCGGCGTTTT
1391861 AGGAATAAAC
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.02
40 15 0.12
41 91 0.73
42 14 0.11
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (41 bp):
TTAACACTATTGCGGCGTTTTTAAAAAAATGCCACTATTGA
Found at i:1391926 original size:82 final size:81
Alignment explanation
Indices: 1391840--1392025 Score: 223
Period size: 82 Copynumber: 2.3 Consensus size: 81
1391830 ACACTATTTA
**
1391840 TTATCA-CTATTGCGGCGTTTTAGGA-ATAAACGCCACTATATGTGTAATCTATTACGGCATTTG
1 TTATCATCTATTGCGGCGTTTT-GGATA-AAACGCCACTATATGT-TAATCTATTACAACATTTG
*
1391903 TGGTAGAAACTCCGCTAAT
63 TGGTAGAAACGCCGCTAAT
* * * *
1391922 TTATCGATCTATTGCGGCGTTTTGGCTAAAACGGCACTATATGTTAATCTATTGCAACGTTTGTG
1 TTATC-ATCTATTGCGGCGTTTTGGATAAAACGCCACTATATGTTAATCTATTACAACATTTGTG
*
1391987 GTATAAACGCCGCTAAT
65 GTAGAAACGCCGCTAAT
* *
1392004 TTACCACTCTATTGCGGTGTTT
1 TTATCA-TCTATTGCGGCGTTT
1392026 GTTAAAAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
81 1 0.01
82 55 0.61
83 18 0.20
84 16 0.18
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (81 bp):
TTATCATCTATTGCGGCGTTTTGGATAAAACGCCACTATATGTTAATCTATTACAACATTTGTGG
TAGAAACGCCGCTAAT
Found at i:1392026 original size:42 final size:39
Alignment explanation
Indices: 1391846--1392027 Score: 120
Period size: 42 Copynumber: 4.4 Consensus size: 39
1391836 TTTATTATCA
* *
1391846 CTATTGCGGCGTTT-TAGGAATAAACGCCACTATATGTGTA-AT
1 CTATTGCGGCGTTTGT-GGTA-AAACGCCGCTA-AT-T-TACAT
* * *
1391888 CTATTACGGCATTTGTGGTAGAAACTCCGCTAATTTATCGAT
1 CTATTGCGGCGTTTGTGGTA-AAACGCCGCTAATTTA-C-AT
* *
1391930 CTATTGCGGCGTTT-TGGCTAAAACGGCACTATATGTTA-AT
1 CTATTGCGGCGTTTGTGG-TAAAACGCCGCTA-AT-TTACAT
**
1391970 CTATTGCAACGTTTGTGGTATAAACGCCGCTAATTTACCACT
1 CTATTGCGGCGTTTGTGGTA-AAACGCCGCTAATTTA-CA-T
*
1392012 CTATTGCGGTGTTTGT
1 CTATTGCGGCGTTTGT
1392028 TAAAAAAACG
Statistics
Matches: 110, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
39 5 0.05
40 19 0.17
41 26 0.24
42 56 0.51
43 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (39 bp):
CTATTGCGGCGTTTGTGGTAAAACGCCGCTAATTTACAT
Found at i:1392076 original size:41 final size:42
Alignment explanation
Indices: 1391969--1392081 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 42
1391959 TATATGTTAA
** * * **
1391969 TCTATTGCAACGTTTGTGGTATAAACGCCGCTAATTTACCAC
1 TCTATTGCGGCGTTTGTTGTAAAAACGCCGCTAATAAACCAC
* **
1392011 TCTATTGCGGTGTTTGTTAAAAAAACGCCGC-AATAAACCAC
1 TCTATTGCGGCGTTTGTTGTAAAAACGCCGCTAATAAACCAC
* *
1392052 -CATATTGTGGCGTTTGTTGTAAAAATGCCG
1 TC-TATTGCGGCGTTTGTTGTAAAAACGCCG
1392082 TTATATGTCA
Statistics
Matches: 56, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
40 1 0.02
41 31 0.55
42 24 0.43
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (42 bp):
TCTATTGCGGCGTTTGTTGTAAAAACGCCGCTAATAAACCAC
Found at i:1394293 original size:45 final size:45
Alignment explanation
Indices: 1394201--1394294 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 45
1394191 TAGAACATTG
* * **
1394201 TTTAAAATTTTATTTTTTTACCGAAAATATTAATATCGGATGTTA
1 TTTAAAATATTATTTTTTTACCGAAAATATTAATATCGAATAATA
*
1394246 TTTAAAATATTATTATTTTTACTGAAAATATTAATATC-AATAATA
1 TTTAAAATATTATT-TTTTTACCGAAAATATTAATATCGAATAATA
1394291 TTTA
1 TTTA
1394295 TTTTTAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (45 bp):
TTTAAAATATTATTTTTTTACCGAAAATATTAATATCGAATAATA
Found at i:1395929 original size:18 final size:18
Alignment explanation
Indices: 1395890--1395931 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1395880 GTAAGAAAAT
*
1395890 ATTAAATTAATAAAAACG
1 ATTAAATTAATAAAAACA
*
1395908 ATTAAA-TAAGTAAAAGCA
1 ATTAAATTAA-TAAAAACA
1395926 ATTAAA
1 ATTAAA
1395932 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (18 bp):
ATTAAATTAATAAAAACA
Found at i:1400538 original size:13 final size:13
Alignment explanation
Indices: 1400520--1400544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1400510 CTTGATTGAA
1400520 TAAAAATAAAAAG
1 TAAAAATAAAAAG
1400533 TAAAAATAAAAA
1 TAAAAATAAAAA
1400545 TTTAACAGAA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAG
Found at i:1416707 original size:71 final size:72
Alignment explanation
Indices: 1416585--1416721 Score: 197
Period size: 71 Copynumber: 1.9 Consensus size: 72
1416575 AATAGGGCCC
* * * *
1416585 CACTAAATTACTATATTTTCGAGTTTTTTAAATAAAAAATGATGTTTAAAATA-TTTTTAATTAT
1 CACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATGATGTTTAAAATATTTTTTAATTAT
1416649 TGGGGCA
66 TGGGGCA
* *
1416656 CACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAGT-TTGTTTAAAAATATTTTTTAATTA
1 CACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATGATGTTT-AAAATATTTTTTAATTA
1416720 TT
65 TT
1416722 AAACTTAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 5 0.09
71 41 0.71
72 12 0.21
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (72 bp):
CACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATGATGTTTAAAATATTTTTTAATTAT
TGGGGCA
Found at i:1422261 original size:134 final size:134
Alignment explanation
Indices: 1422110--1422374 Score: 469
Period size: 134 Copynumber: 2.0 Consensus size: 134
1422100 CATTTAAAAC
* *
1422110 TCAATTAATAATTTAAGATCTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TT
1 TCAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTT
*
1422174 ATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAA
66 ATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTAATTAAA
1422239 AATAA
130 AATAA
1422244 TCAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTT
1 TCAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTT
* *
1422309 ATCTGAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTAATTAAAA
66 ATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTAATTAAAA
1422374 A
131 A
1422375 ACATTTAATT
Statistics
Matches: 125, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
134 75 0.60
135 50 0.40
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (134 bp):
TCAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTT
ATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTAATTAAAA
ATAA
Found at i:1423684 original size:29 final size:29
Alignment explanation
Indices: 1423651--1423764 Score: 183
Period size: 29 Copynumber: 3.9 Consensus size: 29
1423641 TCCCAACACA
*
1423651 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
*
1423680 TAGGTCGCCATGCACTCCAGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
* * *
1423709 TAGCTCGTCATGCACTCCGGGTGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
1423738 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
1423765 ACCCTCGCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.14, C:0.35, G:0.29, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:1423823 original size:14 final size:14
Alignment explanation
Indices: 1423801--1423833 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1423791 CCTCGCATAG
*
1423801 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
1423815 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
1423829 CTCGG
1 CTCGG
1423834 ATGCCCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:1424810 original size:22 final size:23
Alignment explanation
Indices: 1424782--1424824 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
1424772 AATTATAGAT
1424782 ATATAATTATA-TTT-ATTATTTA
1 ATATAATT-TACTTTAATTATTTA
1424804 ATATAATTTACTTTAATTATT
1 ATATAATTTACTTTAATTATT
1424825 ATGTTGTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 11 0.58
23 6 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATAATTTACTTTAATTATTTA
Found at i:1424951 original size:21 final size:21
Alignment explanation
Indices: 1424925--1424967 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1424915 ATATAAAAAA
1424925 TTATA-TTTTATTAAATATTTT
1 TTATATTTTTATTAAAT-TTTT
*
1424946 TTATATTTTTATTTAATTTTT
1 TTATATTTTTATTAAATTTTT
1424967 T
1 T
1424968 AAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTTT
Found at i:1427021 original size:29 final size:29
Alignment explanation
Indices: 1426963--1427020 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1426953 TGACGTGTCA
**
1426963 AGGGTCATATTGATTTTTTATTGAGTTTT
1 AGGGTCATATTGATTTTTTATAAAGTTTT
1426992 AGGGTCA-ATTGATTTTTTTTATAAAGTTT
1 AGGGTCATATTGA--TTTTTTATAAAGTTT
1427021 AAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 7 0.28
30 13 0.52
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.53
Consensus pattern (29 bp):
AGGGTCATATTGATTTTTTATAAAGTTTT
Found at i:1427074 original size:25 final size:27
Alignment explanation
Indices: 1427019--1427074 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 27
1427009 TTTATAAAGT
**
1427019 TTAAAAAATTATTTATCTATTTAAAAA
1 TTAAAAAATTATTTATAAATTTAAAAA
1427046 -TAAAAAA-TATTT-TAAATTTAAAAA
1 TTAAAAAATTATTTATAAATTTAAAAA
1427070 TTAAA
1 TTAAA
1427075 TAGTAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 10 0.38
25 9 0.35
26 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAAAAAATTATTTATAAATTTAAAAA
Found at i:1427086 original size:24 final size:23
Alignment explanation
Indices: 1427059--1427111 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
1427049 AAAATATTTT
*
1427059 AAATTTAAAAATTAAATAGTAAAC
1 AAATTAAAAAATTAAATA-TAAAC
1427083 AAATTAAAAAATTAAATAT-AA-
1 AAATTAAAAAATTAAATATAAAC
1427104 AAATTAAA
1 AAATTAAA
1427112 TTAAATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 8 0.29
22 2 0.07
23 1 0.04
24 17 0.61
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATTAAAAAATTAAATATAAAC
Found at i:1427232 original size:16 final size:15
Alignment explanation
Indices: 1427211--1427240 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1427201 ATTAAGAAAA
1427211 TAATATATATTATATG
1 TAATATATA-TATATG
1427227 TAATATATATATAT
1 TAATATATATATAT
1427241 AAACACAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAATATATATATATG
Found at i:1431916 original size:251 final size:251
Alignment explanation
Indices: 1431473--1431970 Score: 865
Period size: 251 Copynumber: 2.0 Consensus size: 251
1431463 CTACAGTATC
1431473 CATGCCAATGCATACATTTTAACTTCATCATCAGAGGCATCTGCGCTCAACTTCCAAAAATTGGC
1 CATGCCAATGCATACATTTTAACTTCATCATCAGAGGCATCTGCGCTCAACTTCCAAAAATTGGC
*
1431538 ATCTAACCAATTTAACGGTATCTGACCACCGTTAAAATTTTCCAGGACACATCCTAGACTAACCC
66 ATCTAACCAATTTAACAGTATCTGACCACCGTTAAAATTTTCCAGGACACATCCTAGACTAACCC
1431603 GGTACAAAGTAGTCCAAGAACCGGAAAATATCCATGATATCACACCTCCATCCACCGGAAGCCCC
131 GGTACAAAGTAGTCCAAGAACCGGAAAATATCCATGATATCACACCTCCATCCACCGGAAGCCCC
* *
1431668 AGGTGCATAGAAACATCCTCAAGTGTAATCGTGCTCTCTCCGCACGGAAGATTATG
196 AGGTGCATAGAAACATCCTCAAGTGTAATCGTGCACTCTCCGCACAGAAGATTATG
* * *
1431724 CATGCCAATGCATACATTTTAACTTCATCATCGGAGGCGTCTGCGCTCAACTTCCGAAAATTGGC
1 CATGCCAATGCATACATTTTAACTTCATCATCAGAGGCATCTGCGCTCAACTTCCAAAAATTGGC
* * *
1431789 ATCTAACCAATTTAACAGTATTTGACCACCGTTAAAATTTTCTAGGACACGTCCTAGACTAACCC
66 ATCTAACCAATTTAACAGTATCTGACCACCGTTAAAATTTTCCAGGACACATCCTAGACTAACCC
*
1431854 -GTCACAAAGTAGTCCAAGAACCGGAAGATATCTC-TGATATCACACCTCCATCCACCGGAAGCC
131 GGT-ACAAAGTAGTCCAAGAACCGGAAAATATC-CATGATATCACACCTCCATCCACCGGAAGCC
*
1431917 CTAGGTGCATAGAAACATCCTCAAGTGTAATCGTGCACTCTCCGCACAGAAGAT
194 CCAGGTGCATAGAAACATCCTCAAGTGTAATCGTGCACTCTCCGCACAGAAGAT
1431971 GAAATATGTG
Statistics
Matches: 234, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
250 2 0.01
251 231 0.99
252 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (251 bp):
CATGCCAATGCATACATTTTAACTTCATCATCAGAGGCATCTGCGCTCAACTTCCAAAAATTGGC
ATCTAACCAATTTAACAGTATCTGACCACCGTTAAAATTTTCCAGGACACATCCTAGACTAACCC
GGTACAAAGTAGTCCAAGAACCGGAAAATATCCATGATATCACACCTCCATCCACCGGAAGCCCC
AGGTGCATAGAAACATCCTCAAGTGTAATCGTGCACTCTCCGCACAGAAGATTATG
Found at i:1432374 original size:17 final size:16
Alignment explanation
Indices: 1432348--1432402 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
1432338 AATTAAATAT
*
1432348 AATATTAAATAATTTA
1 AATATTAAATAAATTA
1432364 AATACTTAAATAAATTA
1 AATA-TTAAATAAATTA
* *
1432381 AATGTTAAATATAATAA
1 AATATTAAATA-AATTA
1432398 AATAT
1 AATAT
1432403 ACCTTAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 11 0.33
17 22 0.67
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
AATATTAAATAAATTA
Found at i:1435056 original size:13 final size:14
Alignment explanation
Indices: 1435033--1435063 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1435023 GGTCAAAGGA
1435033 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
1435047 AGTC-ACGGTCAAC
1 AGTCAACGGTCAAC
1435060 AGTC
1 AGTC
1435064 GGGTCGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.32, C:0.29, G:0.23, T:0.16
Consensus pattern (14 bp):
AGTCAACGGTCAAC
Found at i:1435083 original size:19 final size:19
Alignment explanation
Indices: 1435059--1435099 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1435049 TCACGGTCAA
*
1435059 CAGTCGGGTCGGGTCGGGT
1 CAGTCGGGTCGGGACGGGT
1435078 CAGTCGGGTCGGGACGGGT
1 CAGTCGGGTCGGGACGGGT
1435097 CAG
1 CAG
1435100 ACCGGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.22, G:0.51, T:0.17
Consensus pattern (19 bp):
CAGTCGGGTCGGGACGGGT
Found at i:1435106 original size:19 final size:19
Alignment explanation
Indices: 1435065--1435106 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1435055 TCAACAGTCG
* * *
1435065 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGACGGGTCAGACC
1435084 GGTCGGGACGGGTCAGACC
1 GGTCGGGACGGGTCAGACC
1435103 GGTC
1 GGTC
1435107 AAACTGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.24, G:0.50, T:0.17
Consensus pattern (19 bp):
GGTCGGGACGGGTCAGACC
Found at i:1441279 original size:20 final size:20
Alignment explanation
Indices: 1441254--1441291 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1441244 TTTTTTATTA
1441254 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
1441274 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
1441292 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:1441323 original size:16 final size:18
Alignment explanation
Indices: 1441302--1441336 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1441292 TTTACTCATT
1441302 TATTTATC-TAT-TTTTA
1 TATTTATCTTATATTTTA
1441318 TATTTATCTTATATTTTA
1 TATTTATCTTATATTTTA
1441336 T
1 T
1441337 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTATCTTATATTTTA
Found at i:1443458 original size:13 final size:14
Alignment explanation
Indices: 1443424--1443456 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1443414 ACGGTCAACG
1443424 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
1443438 GTCGGGTC-GGTCA
1 GTCGGGTCGGGTCA
1443451 GATCGG
1 G-TCGG
1443457 TCAAATTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.09, C:0.21, G:0.48, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:1443486 original size:19 final size:19
Alignment explanation
Indices: 1443448--1443505 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
1443438 GTCGGGTCGG
**
1443448 TCAGATCGGTCAAATTGGT
1 TCAGATCGGTCAAACCGGT
1443467 TCAGATCGGTCAAACCGGT
1 TCAGATCGGTCAAACCGGT
*
1443486 TC-GAACCGGTCGAAACCGGT
1 TCAG-ATCGGTC-AAACCGGT
1443506 CAAACTGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 25 0.74
20 8 0.24
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (19 bp):
TCAGATCGGTCAAACCGGT
Found at i:1446766 original size:10 final size:10
Alignment explanation
Indices: 1446747--1446798 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
1446737 GCTGGGCATT
1446747 CGAGGCCATC
1 CGAGGCCATC
1446757 CGAGAG-CAT-
1 CGAG-GCCATC
1446766 CGAGGCCATC
1 CGAGGCCATC
*
1446776 AGAGAG-CATC
1 CGAG-GCCATC
1446786 CGAGGCCATC
1 CGAGGCCATC
1446796 CGA
1 CGA
1446799 CCGAGGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
8 1 0.03
9 8 0.23
10 24 0.69
11 2 0.06
ACGTcount: A:0.27, C:0.33, G:0.31, T:0.10
Consensus pattern (10 bp):
CGAGGCCATC
Found at i:1446770 original size:19 final size:19
Alignment explanation
Indices: 1446746--1446798 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
1446736 CGCTGGGCAT
1446746 TCGAGGCCATCCGAGAGCA
1 TCGAGGCCATCCGAGAGCA
*
1446765 TCGAGGCCATCAGAGAGCA
1 TCGAGGCCATCCGAGAGCA
1446784 TCCGAGGCCATCCGA
1 T-CGAGGCCATCCGA
1446799 CCGAGGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.26, C:0.32, G:0.30, T:0.11
Consensus pattern (19 bp):
TCGAGGCCATCCGAGAGCA
Found at i:1446901 original size:29 final size:29
Alignment explanation
Indices: 1446868--1446948 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
1446858 GAGGATAGGT
* *
1446868 CGCCCGGAGTGCATGGCGACCTACATGGC
1 CGCCCGGAGGGCATGGCGACCTACAAGGC
* *
1446897 CGCCCGGAGGGCATGACGACCTACAAGGT
1 CGCCCGGAGGGCATGGCGACCTACAAGGC
1446926 CGCCCGGAGGGCATGGCGACCTA
1 CGCCCGGAGGGCATGGCGACCTA
1446949 TGTGTTGGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.20, C:0.33, G:0.36, T:0.11
Consensus pattern (29 bp):
CGCCCGGAGGGCATGGCGACCTACAAGGC
Found at i:1447005 original size:40 final size:40
Alignment explanation
Indices: 1446950--1447029 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
1446940 GGCGACCTAT
* *
1446950 GTGTTGGGACGTGCATGTGCCATGCAACACGTTCATTCTC
1 GTGTTGGGACGTGCATATGCCATGCAACACATTCATTCTC
1446990 GTGTTGGGACGTGCATATGCCATGCAACACATTCATTCTC
1 GTGTTGGGACGTGCATATGCCATGCAACACATTCATTCTC
1447030 TCTGTTTGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (40 bp):
GTGTTGGGACGTGCATATGCCATGCAACACATTCATTCTC
Found at i:1447050 original size:12 final size:12
Alignment explanation
Indices: 1447033--1447058 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1447023 CATTCTCTCT
1447033 GTTTGAGCAAGG
1 GTTTGAGCAAGG
1447045 GTTTGAGCAAGG
1 GTTTGAGCAAGG
1447057 GT
1 GT
1447059 AGGTCGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.42, T:0.27
Consensus pattern (12 bp):
GTTTGAGCAAGG
Found at i:1447101 original size:29 final size:29
Alignment explanation
Indices: 1447069--1447144 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 29
1447059 AGGTCGCCCT
1447069 GAGTGCATGGCGACCTACAAGGTC-GTCTG
1 GAGTGCATGGCGACCTACAAGGTCGGTC-G
*
1447098 GAGTGTATGGCGACCTACAAGGTCGGTCG
1 GAGTGCATGGCGACCTACAAGGTCGGTCG
1447127 GAGTGCATGGCGACCTAC
1 GAGTGCATGGCGACCTAC
1447145 GGCCAACACT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.20
Consensus pattern (29 bp):
GAGTGCATGGCGACCTACAAGGTCGGTCG
Found at i:1449477 original size:31 final size:30
Alignment explanation
Indices: 1449442--1449528 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
1449432 TCGATAAAGT
1449442 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
1449473 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
1449504 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
1449529 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:1450308 original size:2 final size:2
Alignment explanation
Indices: 1450301--1450326 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1450291 ATTGAATTAA
1450301 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1450327 TACATAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1454795 original size:24 final size:21
Alignment explanation
Indices: 1454747--1454799 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
1454737 CCAAAAATTT
*
1454747 ATTTAAATTATATTTTTTCTC
1 ATTTAAATTATATTTTTTATC
*
1454768 ATTTAAGTGTATATTTTTTTATC
1 ATTTAAAT-TATA-TTTTTTATC
1454791 AATTTAAAT
1 -ATTTAAAT
1454800 ATCTAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 4 0.15
23 8 0.31
24 7 0.27
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTAAATTATATTTTTTATC
Found at i:1472351 original size:2 final size:2
Alignment explanation
Indices: 1472344--1472414 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
1472334 TATCTCTTAA
1472344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1472386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1472415 ACATGTATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1473551 original size:80 final size:83
Alignment explanation
Indices: 1473405--1473645 Score: 328
Period size: 80 Copynumber: 2.9 Consensus size: 83
1473395 TATTTACCCG
* * *
1473405 TACCGGAGACGTGTCTTCTTCTTCACTTCATATTCGCGTGGTCCACTCCAAGTTTTGGATGGCTA
1 TACCGGAGACG-ATCATCTTCTTCACTTCATATTCGCGTGGTCCACTCCAAGTTTTGGGTGGCTA
*
1473470 TTAGCCTTGAGTGTACACA
65 TTAGCCTTGAGTGTAAACA
* * * *
1473489 TACCGGAGAC-AT-ATCTTCTTCACTTCATGAAT-GCGAGATCCAGT-CAAGTTTTGGGTGGCTA
1 TACCGGAGACGATCATCTTCTTCACTTCAT-ATTCGCGTGGTCCACTCCAAGTTTTGGGTGGCTA
*
1473550 TTAGCCTGGAGTGTAAACA
65 TTAGCCTTGAGTGTAAACA
* *
1473569 TACCGGAGACGTGTCTTCTTCTTCACTTCATATTCGCGTGGTCCACTCCAAGTTTTGGGTGGCTA
1 TACCGGAGACG-ATCATCTTCTTCACTTCATATTCGCGTGGTCCACTCCAAGTTTTGGGTGGCTA
1473634 TTAGCCTTGAGT
65 TTAGCCTTGAGT
1473646 ATGTAAAGTG
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
80 43 0.32
81 24 0.18
82 6 0.04
83 24 0.18
84 38 0.28
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (83 bp):
TACCGGAGACGATCATCTTCTTCACTTCATATTCGCGTGGTCCACTCCAAGTTTTGGGTGGCTAT
TAGCCTTGAGTGTAAACA
Found at i:1475805 original size:16 final size:16
Alignment explanation
Indices: 1475786--1475816 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1475776 AACTGATCTG
*
1475786 ATATTTACCTTACTTA
1 ATATTTACCTGACTTA
1475802 ATATTTACCTGACTT
1 ATATTTACCTGACTT
1475817 GTAACACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTTACCTGACTTA
Found at i:1479467 original size:27 final size:24
Alignment explanation
Indices: 1479437--1479495 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 24
1479427 AGTTTCTATA
*
1479437 TTAATTATAATCCTTATATTATAAATT
1 TTAATTATAATCATTA-ATT-T-AATT
1479464 TTAATTATAATCATTAATTTAATT
1 TTAATTATAATCATTAATTTAATT
1479488 TT-ATTATA
1 TTAATTATA
1479496 TAATTTAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 1 0.03
26 3 0.10
27 15 0.48
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAATTATAATCATTAATTTAATT
Found at i:1479471 original size:18 final size:18
Alignment explanation
Indices: 1479450--1479501 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1479440 ATTATAATCC
1479450 TTATATTATAAATTTTAA
1 TTATATTATAAATTTTAA
* *
1479468 TTATAATCATTAA-TTTAA
1 TTAT-ATTATAAATTTTAA
*
1479486 TTTTATTATATAATTT
1 TTATATTATA-AATTT
1479502 AGTTATTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
17 4 0.15
18 14 0.54
19 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTATAAATTTTAA
Found at i:1479472 original size:13 final size:12
Alignment explanation
Indices: 1479437--1479501 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 12
1479427 AGTTTCTATA
*
1479437 TTAATTATAATCC
1 TTAATTATAAT-T
1479450 TTATATTATAAATT
1 TTA-ATTAT-AATT
*
1479464 TTAATTATAATCA
1 TTAATTATAAT-T
1479477 TTAATT-TAATT
1 TTAATTATAATT
*
1479488 TTATTATATAATT
1 TTAAT-TATAATT
1479501 T
1 T
1479502 AGTTATTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.09
12 8 0.19
13 20 0.47
14 8 0.19
15 3 0.07
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAATTATAATT
Found at i:1480469 original size:24 final size:24
Alignment explanation
Indices: 1480421--1480470 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1480411 CAGTTGAAAC
* * * *
1480421 TGTCGCGTAGAATTTGTACCGAAG
1 TGTCACGTAGAATATGCACCAAAG
1480445 TGTCACGTAGAATATGCACCAAAG
1 TGTCACGTAGAATATGCACCAAAG
1480469 TG
1 TG
1480471 CCACATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (24 bp):
TGTCACGTAGAATATGCACCAAAG
Found at i:1480518 original size:23 final size:23
Alignment explanation
Indices: 1480487--1480549 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1480477 ATATTTGTTT
* *
1480487 CGAATGACCGCGTAGAAATGTCC
1 CGAAGGACCGCGTAGAAATCTCC
* * *
1480510 CGAAGGACCACATAGAATTCTCC
1 CGAAGGACCGCGTAGAAATCTCC
*
1480533 CGAAGGACCGTGTAGAA
1 CGAAGGACCGCGTAGAA
1480550 CCCTCGACTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (23 bp):
CGAAGGACCGCGTAGAAATCTCC
Found at i:1480792 original size:57 final size:57
Alignment explanation
Indices: 1480639--1480836 Score: 238
Period size: 57 Copynumber: 3.5 Consensus size: 57
1480629 ATAGTGTTAT
* * * *
1480639 TCAAATTATCATTTGTTCATATA-AAACATATACTCATAACATTTCATATATCATTAC
1 TCAAATTATCATTTATTCACATAGAAA-ATATACTCATAGCATTTCATATAACATTAC
* * * * *
1480696 CCAAATTTATTATTTATTCTCATATGATAAT-TACTCATAGCATTTCATATAGCATTAC
1 TCAAA-TTATCATTTATTCACATA-GAAAATATACTCATAGCATTTCATATAACATTAC
* ** *
1480754 TCAACTTATCATTTATTCACATAGAAAATATACTCATAGTGTTTCATATAACATTAT
1 TCAAATTATCATTTATTCACATAGAAAATATACTCATAGCATTTCATATAACATTAC
1480811 TCAAATTATCATTTATTCACATAGAA
1 TCAAATTATCATTTATTCACATAGAA
1480837 TAGATTCACA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
56 5 0.04
57 68 0.57
58 42 0.35
59 2 0.02
60 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.41
Consensus pattern (57 bp):
TCAAATTATCATTTATTCACATAGAAAATATACTCATAGCATTTCATATAACATTAC
Found at i:1483463 original size:3 final size:3
Alignment explanation
Indices: 1483448--1483489 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
1483438 ATTCAACGAT
* *
1483448 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1483490 GTTACTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1483742 original size:20 final size:19
Alignment explanation
Indices: 1483704--1483742 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1483694 TAATTTTTGA
*
1483704 TTTTTCTAATTTTAAAGTT
1 TTTTTCTAATTTCAAAGTT
*
1483723 TTTTTTTAATTTCAATAGTT
1 TTTTTCTAATTTCAA-AGTT
1483743 AGAAAAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTTCTAATTTCAAAGTT
Found at i:1486591 original size:20 final size:20
Alignment explanation
Indices: 1486566--1486615 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1486556 ATCTATCTTG
1486566 TAATTTAATCTACTTCAATA
1 TAATTTAATCTACTTCAATA
* *
1486586 TAATTTAATCTACTTTAATC
1 TAATTTAATCTACTTCAATA
1486606 TAATTTAATC
1 TAATTTAATC
1486616 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATTTAATCTACTTCAATA
Found at i:1486604 original size:10 final size:10
Alignment explanation
Indices: 1486566--1486615 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
1486556 ATCTATCTTG
1486566 TAATTTAATC
1 TAATTTAATC
* * *
1486576 TACTTCAATA
1 TAATTTAATC
1486586 TAATTTAATC
1 TAATTTAATC
*
1486596 TACTTTAATC
1 TAATTTAATC
1486606 TAATTTAATC
1 TAATTTAATC
1486616 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATTTAATC
Found at i:1488357 original size:10 final size:10
Alignment explanation
Indices: 1488328--1488366 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1488318 ACATAAAAGT
1488328 ATAATAGAATA
1 ATAATA-AATA
* *
1488339 AAAAGAAATA
1 ATAATAAATA
1488349 ATAATAAATA
1 ATAATAAATA
1488359 ATAATAAA
1 ATAATAAA
1488367 AGGATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (10 bp):
ATAATAAATA
Found at i:1489455 original size:23 final size:23
Alignment explanation
Indices: 1489423--1489480 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1489413 TTTAAAAATA
*
1489423 ATAATAATATTTATACAATAT-AT
1 ATAATTATATTTATA-AATATAAT
* *
1489446 ATAATTATATATATATATATAAT
1 ATAATTATATTTATAAATATAAT
*
1489469 ATAAATATATTT
1 ATAATTATATTT
1489481 CGGTCATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAATTATATTTATAAATATAAT
Found at i:1490460 original size:95 final size:97
Alignment explanation
Indices: 1490293--1490585 Score: 290
Period size: 95 Copynumber: 2.9 Consensus size: 97
1490283 GGGAAATTGT
** * * * * * **
1490293 TTGTTGACAGTCAACCGCCCCTTCGTTGTGAAGTTGAGCTTGTGCTATCTCGAGTTTAATATCCT
1 TTGTTGACAG-CAGTCGCCCCTTTGTCGTGAAGTTGAGCTTGTGATGTCTTGAGTCCAATATCCT
* *
1490358 TCACTGTGAAGTTGAAATTGACTCTGAATT-AA
65 TCGCTGTGAAGTTGAAATTGGCTCTGAATTGAA
* * * *
1490390 -T-TTGACAATCAGTCGCCCCTTTGTCGTGGAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCCT
1 TTGTTGAC-AGCAGTCGCCCCTTTGTCGTGAAGTTGAGCTTGTGATGTCTTGAGTCCAATATCCT
1490453 TCGCTGTGAAGTTGAAATTGGCTCTGGAATTGGGAAA
65 TCGCTGTGAAGTTGAAATTGGCTCT-GAATT--G-AA
*
1490490 TTGTTTGTTGACAGCAGTCG-CCCTTTCG-CTGTGAAGTTAAGCTTGTGATGTCTTGAGTCCAAT
1 ----TTGTTGACAGCAGTCGCCCCTTT-GTC-GTGAAGTTGAGCTTGTGATGTCTTGAGTCCAAT
*
1490553 ATCCTTCGCTGTGAAGCTGAAATTGGCTCTGAA
60 ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
1490586 ATTGGGAAGC
Statistics
Matches: 162, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
95 71 0.44
96 7 0.04
100 2 0.01
104 10 0.06
105 67 0.41
106 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (97 bp):
TTGTTGACAGCAGTCGCCCCTTTGTCGTGAAGTTGAGCTTGTGATGTCTTGAGTCCAATATCCTT
CGCTGTGAAGTTGAAATTGGCTCTGAATTGAA
Found at i:1491717 original size:6 final size:6
Alignment explanation
Indices: 1491702--1491752 Score: 50
Period size: 7 Copynumber: 7.8 Consensus size: 6
1491692 ACCCACCTTA
1491702 TTTTTC -TTTTC TTTTTTC TTTTGTTC TTCTTCTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TT-TT-TC TTTTTC TTTTTC TTTTT
1491753 TCAATTTAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.12
6 13 0.32
7 14 0.35
8 8 0.20
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:1491742 original size:11 final size:11
Alignment explanation
Indices: 1491702--1491752 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
1491692 ACCCACCTTA
1491702 TTTTTCTTTTC
1 TTTTTCTTTTC
*
1491713 TTTTTTCTTTTG
1 -TTTTTCTTTTC
* *
1491725 TTCTTCTTCTC
1 TTTTTCTTTTC
1491736 TTTTTCTTTTTC
1 TTTTTC-TTTTC
1491748 TTTTT
1 TTTTT
1491753 TCAATTTAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 13 0.41
12 19 0.59
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:1491746 original size:23 final size:20
Alignment explanation
Indices: 1491705--1491745 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
1491695 CACCTTATTT
1491705 TTCTTTTCTTTTTTCTTTTG
1 TTCTTTTCTTTTTTCTTTTG
1491725 TTCTTCTTCTCTTTTTCTTTT
1 TTCTT-TTCT-TTTTTCTTTT
1491746 TCTTTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (20 bp):
TTCTTTTCTTTTTTCTTTTG
Found at i:1491817 original size:23 final size:24
Alignment explanation
Indices: 1491791--1491843 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
1491781 ACCCTAAACG
1491791 TTTTTCTCTTTTT-TATTTTTT-T
1 TTTTTCTCTTTTTCTATTTTTTCT
*
1491813 ATTTTTCTCTTTTTCTCTTTTTTCT
1 -TTTTTCTCTTTTTCTATTTTTTCT
1491838 TTTTTC
1 TTTTTC
1491844 AACTTAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 13 0.48
24 13 0.48
25 1 0.04
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTCTCTTTTTCTATTTTTTCT
Found at i:1491825 original size:8 final size:8
Alignment explanation
Indices: 1491791--1491841 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
1491781 ACCCTAAACG
1491791 TTTTTCTC
1 TTTTTCTC
*
1491799 TTTTT-TA
1 TTTTTCTC
* *
1491806 TTTTTTTA
1 TTTTTCTC
1491814 TTTTTCTC
1 TTTTTCTC
1491822 TTTTTCTC
1 TTTTTCTC
1491830 TTTTT-TC
1 TTTTTCTC
1491837 TTTTT
1 TTTTT
1491842 TCAACTTAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
7 13 0.33
8 26 0.67
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTC
Found at i:1491843 original size:89 final size:86
Alignment explanation
Indices: 1491711--1491876 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 86
1491701 ATTTTTCTTT
* * * * *
1491711 TCTTTTTTCTTTTGTTCTTCTTCTCTTTTTCTTTTTCTTTTTTCAATTTAGGGCGCCCTTTCGGG
1 TCTTTTTTATTTTGTTATTCTTCTCTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGG
1491776 TTTACACCCTAAACGTTTTTC
66 TTTACACCCTAAACGTTTTTC
* * *
1491797 TCTTTTTTATTTTTTTATTTTTCTCTTTTTCTCTTTTTTCTTTTTTCAACTTAGGATGCCCTCTC
1 TCTTTTTTATTTTGTTATTCTTCTC-TTTT-TC-TTTTTCTTTTTTCAACTTAGGACGCCCTCTC
* *
1491862 GGGTTTTCATCCTAA
63 GGGTTTACACCCTAA
1491877 TCGAGGTACT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 21 0.31
87 4 0.06
88 2 0.03
89 40 0.60
ACGTcount: A:0.10, C:0.22, G:0.09, T:0.59
Consensus pattern (86 bp):
TCTTTTTTATTTTGTTATTCTTCTCTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGG
TTTACACCCTAAACGTTTTTC
Found at i:1503743 original size:20 final size:20
Alignment explanation
Indices: 1503693--1503743 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
1503683 GACCAACAAA
*
1503693 ATCGCAATGCGATCTCTAAT
1 ATCGCAATGCGATCTCCAAT
* *
1503713 -TCGCATTGCGATCTCCACT
1 ATCGCAATGCGATCTCCAAT
*
1503732 ATCGCAACGCGA
1 ATCGCAATGCGA
1503744 AATGCAACGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATCTCCAAT
Found at i:1503832 original size:21 final size:21
Alignment explanation
Indices: 1503767--1503832 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
1503757 TTGTGATTTT
1503767 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * ** *
1503788 GAA-AATCGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATG
1503808 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
1503829 CAAC
1 CAAC
1503833 GCGAATTTGC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:1503845 original size:41 final size:40
Alignment explanation
Indices: 1503729--1503845 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 40
1503719 TGCGATCTCC
*
1503729 ACTATCGCAACGCGAAATGCAACGCGAATTGTGATTTTCA
1 ACTATCGCAACGCGAAATGCAACGCGAATTGCGATTTTCA
* *
1503769 ACTATCGCAACGCGAAATGGAAAATCGC-AA-CGCGATTTTCA
1 ACTATCGCAACGCGAAAT-G-CAA-CGCGAATTGCGATTTTCA
1503810 ACTATCGCAACGCGAAATGCAACGCGAATTTGCGAT
1 ACTATCGCAACGCGAAATGCAACGCGAA-TTGCGAT
1503846 AGTGGAGATC
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
38 3 0.05
39 4 0.06
40 19 0.29
41 33 0.50
42 4 0.06
43 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (40 bp):
ACTATCGCAACGCGAAATGCAACGCGAATTGCGATTTTCA
Found at i:1504015 original size:22 final size:23
Alignment explanation
Indices: 1503984--1504034 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
1503974 AAAATTTATA
*
1503984 TAAAT-TATATTTTTTCTC-ATT
1 TAAATATATATTTTTTATCAATT
1504005 TAAATATATATTTTTTATCAATT
1 TAAATATATATTTTTTATCAATT
1504028 TAAATAT
1 TAAATAT
1504035 CTAACATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 5 0.19
22 12 0.44
23 10 0.37
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TAAATATATATTTTTTATCAATT
Found at i:1510770 original size:14 final size:14
Alignment explanation
Indices: 1510751--1510799 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
1510741 TAGATATTAA
1510751 TTTTAATATTAATT
1 TTTTAATATTAATT
1510765 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
1510775 ATTAAATATTAATT
1 TTTTAATATTAATT
1510789 TTTTAATATTA
1 TTTTAATATTA
1510800 TATTATAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.15
11 1 0.04
12 6 0.22
13 1 0.04
14 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:1510849 original size:64 final size:65
Alignment explanation
Indices: 1510716--1510835 Score: 156
Period size: 65 Copynumber: 1.9 Consensus size: 65
1510706 TCACATGTAT
* ** *
1510716 TATTAATTTTATAAGTTTTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAA
1 TATTAATTTTATAAGTATTATATTATAGATATTAATTTTAATATTAATCATATAAATAAATTAAA
* *
1510781 TATTAATTTTTTAA-TATTATATTATAGATATTTAATTTT-ATA-TCATCATATAAAT
1 TATTAATTTTATAAGTATTATATTATAGATA-TTAATTTTAATATTAATCATATAAAT
1510836 TATTTTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 9 0.19
64 18 0.38
65 21 0.44
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (65 bp):
TATTAATTTTATAAGTATTATATTATAGATATTAATTTTAATATTAATCATATAAATAAATTAAA
Found at i:1510874 original size:17 final size:18
Alignment explanation
Indices: 1510814--1510868 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
1510804 ATAGATATTT
*
1510814 AATTTTATATCATCATATAA
1 AATTTTATAT-ATTAT-TAA
1510834 ATTATTTTATATATTATTAA
1 A--ATTTTATATATTATTAA
1510854 AATTTTATAT-TTATT
1 AATTTTATATATTATT
1510869 TTAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.16
18 9 0.28
20 5 0.16
21 4 0.12
22 9 0.28
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTATATATTATTAA
Found at i:1510878 original size:20 final size:19
Alignment explanation
Indices: 1510833--1510879 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
1510823 TCATCATATA
1510833 AATTATTTTATATATTATT
1 AATTATTTTATATATTATT
*
1510852 AA-AATTTTATAT-TTATTTT
1 AATTATTTTATATATTA--TT
1510871 AATTATTTT
1 AATTATTTT
1510880 GATTTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 3 0.13
18 9 0.39
19 6 0.26
20 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTATTTTATATATTATT
Found at i:1511119 original size:13 final size:13
Alignment explanation
Indices: 1511103--1511127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1511093 TTTGATAAAT
1511103 TAAAAATATTTTC
1 TAAAAATATTTTC
1511116 TAAAAATATTTT
1 TAAAAATATTTT
1511128 ATAATTATAA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAAATATTTTC
Found at i:1511949 original size:31 final size:31
Alignment explanation
Indices: 1511912--1511972 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1511902 TAGTTGTATG
* *
1511912 AATTATTTAAATTTCTGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTGCAAAACTAA
1511943 AATTATTTAAATTTCAGTATTGCAAAACTA
1 AATTATTTAAATTTCAGTATTGCAAAACTA
1511973 TTTTAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTGCAAAACTAA
Found at i:1519041 original size:2 final size:2
Alignment explanation
Indices: 1519034--1519095 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1519024 CCGTTTCCTT
1519034 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
1519076 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1519096 AAGAAAACCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1520824 original size:26 final size:26
Alignment explanation
Indices: 1520793--1520842 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
1520783 TGCATAGCTT
*
1520793 GTGCATCGATGCATCAAATGCATTGA
1 GTGCATCGATGCATAAAATGCATTGA
1520819 GTGCATCGATGCATAAAATGCATT
1 GTGCATCGATGCATAAAATGCATT
1520843 CGATGTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (26 bp):
GTGCATCGATGCATAAAATGCATTGA
Found at i:1522208 original size:22 final size:22
Alignment explanation
Indices: 1522182--1522232 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
1522172 TTACTAAGAA
1522182 GACATGTATAAAATAATGTTTC
1 GACATGTATAAAATAATGTTTC
1522204 GACATGTATAAAATAATGTTTC
1 GACATGTATAAAATAATGTTTC
1522226 GACATGT
1 GACATGT
1522233 TTTGAAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (22 bp):
GACATGTATAAAATAATGTTTC
Found at i:1525746 original size:15 final size:15
Alignment explanation
Indices: 1525726--1525758 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1525716 TACATCATCA
1525726 TTCAAACAAAAATCC
1 TTCAAACAAAAATCC
1525741 TTCAAACAAAAATCC
1 TTCAAACAAAAATCC
1525756 TTC
1 TTC
1525759 CTTGGAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCAAACAAAAATCC
Found at i:1527438 original size:42 final size:42
Alignment explanation
Indices: 1527379--1527471 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
1527369 GAAAGTAAAT
1527379 TTTGCAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGA
1 TTTGCAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGA
1527421 TTTGCAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGA
1 TTTGCAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGA
1527463 TTTGCAAAT
1 TTTGCAAAT
1527472 TTTTTATTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (42 bp):
TTTGCAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGA
Found at i:1534813 original size:90 final size:91
Alignment explanation
Indices: 1534707--1534879 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 91
1534697 GGTGCACTAA
1534707 GAGTACATCGATGCATAAAATGCATTCGATGTTTCAAAATA-GCCA-GAGTGCATCGATGCATAG
1 GAGTACATCGATGCATAAAATGCATTCGATG-TTCAAAATATGCCATG-GTGCATCGATGCATAG
*
1534770 -TTTGTGCATCGATGCATCAAATGCATT
64 ATTGGTGCATCGATGCATCAAATGCATT
* * ** * *
1534797 GAGTGCATCGATGCATAAAATGGATTCGATGTTCAATTTATTCCATGGTGCATCGATGCATGGAT
1 GAGTACATCGATGCATAAAATGCATTCGATGTTCAAAATATGCCATGGTGCATCGATGCATAGAT
*
1534862 TGGTGCATCGGTGCATCA
66 TGGTGCATCGATGCATCA
1534880 CTTTGAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 7 0.10
90 47 0.65
91 18 0.25
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (91 bp):
GAGTACATCGATGCATAAAATGCATTCGATGTTCAAAATATGCCATGGTGCATCGATGCATAGAT
TGGTGCATCGATGCATCAAATGCATT
Found at i:1535508 original size:41 final size:42
Alignment explanation
Indices: 1535453--1535568 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 42
1535443 ATTCAATTTC
1535453 TTTTT-TCTTTTCTTTTCTCTTTTCTCTCTTTCCT-TTTCTT
1 TTTTTCTCTTTTCTTTTCTCTTTTCTCTCTTTCCTCTTTCTT
* * * **
1535493 TTTTTCTCTTTTCTTTTTTTTTTTCT-TTTTTTTTCTTTCTT
1 TTTTTCTCTTTTCTTTTCTCTTTTCTCTCTTTCCTCTTTCTT
* *
1535534 TTTTTCTCTTTCTTTTTTTCTCTTTTTTCTTCTTT
1 TTTTTCTC-TT-TTCTTTTCTCTTTTCTC-TCTTT
1535569 TTTCTGATGG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 10 0.17
41 32 0.53
42 2 0.03
43 12 0.20
45 4 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (42 bp):
TTTTTCTCTTTTCTTTTCTCTTTTCTCTCTTTCCTCTTTCTT
Found at i:1535509 original size:14 final size:13
Alignment explanation
Indices: 1535449--1535569 Score: 115
Period size: 14 Copynumber: 9.2 Consensus size: 13
1535439 CTTGATTCAA
1535449 TTTC-TTTTTTCT
1 TTTCTTTTTTTCT
*
1535461 TTTC-TTTTCTCT
1 TTTCTTTTTTTCT
* *
1535473 TTTCTCTCTTTCCT
1 TTTCT-TTTTTTCT
1535487 TTTCTTTTTTTCTCT
1 TTTC-TTTTTT-TCT
1535502 TTTCTTTTTTT-T
1 TTTCTTTTTTTCT
*
1535514 TTTCTTTTTTTTT
1 TTTCTTTTTTTCT
1535527 CTTTCTTTTTTTCT
1 -TTTCTTTTTTTCT
1535541 CTTTCTTTTTTTCT
1 -TTTCTTTTTTTCT
* *
1535555 CTT-TTTTCTTCT
1 TTTCTTTTTTTCT
1535567 TTT
1 TTT
1535570 TTCTGATGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
12 37 0.40
13 4 0.04
14 45 0.48
15 7 0.08
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:1535547 original size:55 final size:58
Alignment explanation
Indices: 1535454--1535573 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 58
1535444 TTCAATTTCT
*
1535454 TTTTTCTTTTCTTTTCTCTTTTCTCTCTTTCCTTTTCTTTTTTTCTCTTTTCTT-TTTT
1 TTTTTCTTTTCTTTTCTCTTTTCTCTCTTTCCTTTTCTTTTTTTCTCTTTT-TTCTTCT
* *
1535512 TTTTTCTTTT-TTTT-TC-TTTCT-TTTTTTCTCTTTCTTTTTTTCTCTTTTTTCTTCT
1 TTTTTCTTTTCTTTTCTCTTTTCTCTCTTTCCT-TTTCTTTTTTTCTCTTTTTTCTTCT
1535567 TTTTTCT
1 TTTTTCT
1535574 GATGGATGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
54 8 0.14
55 33 0.58
56 2 0.04
57 4 0.07
58 10 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (58 bp):
TTTTTCTTTTCTTTTCTCTTTTCTCTCTTTCCTTTTCTTTTTTTCTCTTTTTTCTTCT
Found at i:1538072 original size:8 final size:8
Alignment explanation
Indices: 1538061--1538093 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1538051 AATGTACTGC
*
1538061 AAATGCAA
1 AAATGCAG
1538069 AAATGCAG
1 AAATGCAG
1538077 AAATGCAG
1 AAATGCAG
1538085 AAATG-AG
1 AAATGCAG
1538092 AA
1 AA
1538094 TGAAATTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.58, C:0.09, G:0.21, T:0.12
Consensus pattern (8 bp):
AAATGCAG
Found at i:1541067 original size:22 final size:22
Alignment explanation
Indices: 1541021--1541068 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1541011 CCACCACGGT
*
1541021 CACCGTCGGGCACTATTCCGGC
1 CACCGTCGGGCACTATTCCGAC
** *
1541043 CACCGTCGGTTACTATTCTGAC
1 CACCGTCGGGCACTATTCCGAC
1541065 CACC
1 CACC
1541069 AGAAAATATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.40, G:0.21, T:0.23
Consensus pattern (22 bp):
CACCGTCGGGCACTATTCCGAC
Found at i:1541793 original size:3 final size:3
Alignment explanation
Indices: 1541787--1541816 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1541777 GTATTATTTG
1541787 TAA TAA TAA TAA TAA TAA TAA TATA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA
1541817 TATATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1544610 original size:30 final size:31
Alignment explanation
Indices: 1544571--1544637 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
1544561 GGAGGACCTA
* *
1544571 TCCAGAGGTCATAAAGAACCTCGGT-AACTG
1 TCCATAGGTCATAAAGAACCTAGGTAAACTG
* *
1544601 TCCATAGGTCCTGAAGAACCTAGGTAAACTG
1 TCCATAGGTCATAAAGAACCTAGGTAAACTG
1544632 TCCATA
1 TCCATA
1544638 TGTTCCTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (31 bp):
TCCATAGGTCATAAAGAACCTAGGTAAACTG
Found at i:1544634 original size:31 final size:30
Alignment explanation
Indices: 1544584--1544673 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 30
1544574 AGAGGTCATA
*
1544584 AAGAACCTCGGT-AACTGTCCATAGGTCCT
1 AAGAACCTAGGTAAACTGTCCATAGGTCCT
*
1544613 GAAGAACCTAGGTAAACTGTCCATATGTTCCT
1 -AAGAACCTAGGTAAACTGTCCATA-GGTCCT
* * * * *
1544645 TAGAACATAGGTATATTGTCCATATGTCC
1 AAGAACCTAGGTAAACTGTCCATAGGTCC
1544674 CGAAAGGCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 14 0.28
31 31 0.62
32 5 0.10
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (30 bp):
AAGAACCTAGGTAAACTGTCCATAGGTCCT
Found at i:1544717 original size:32 final size:32
Alignment explanation
Indices: 1544615--1544721 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 32
1544605 TAGGTCCTGA
* * *
1544615 AGAACCTAGGTAA-ACTGTCCATATGTTCCTT
1 AGAACATAGGTAATATTGTCCATATGTTCCAT
* *
1544646 AGAACATAGGT-ATATTGTCCATATGTCCCGAA
1 AGAACATAGGTAATATTGTCCATATGTTCC-AT
*
1544678 AG-GCATAGGTAAT-TATGTCCATATGTTCCAT
1 AGAACATAGGTAATAT-TGTCCATATGTTCCAT
1544709 AGAACATAGGTAA
1 AGAACATAGGTAA
1544722 ACCCTCGACT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 35 0.56
32 26 0.42
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (32 bp):
AGAACATAGGTAATATTGTCCATATGTTCCAT
Found at i:1548858 original size:2 final size:2
Alignment explanation
Indices: 1548851--1548890 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1548841 GTTGTGGATG
1548851 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
1548891 GGAAAAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1556597 original size:5 final size:4
Alignment explanation
Indices: 1556589--1557007 Score: 193
Period size: 3 Copynumber: 113.8 Consensus size: 4
1556579 TCATTTATGT
1556589 TATA GTATA -ATA TATA T-TA TAGTA GTATA TAGTA TAT- TATA TAT-
1 TATA -TATA TATA TATA TATA TA-TA -TATA TA-TA TATA TATA TATA
* * *
1556633 TGTA TA-A TATA TGT- TATA TATA GTATA TATA T-TA TATGG TATA T-TA
1 TATA TATA TATA TATA TATA TATA -TATA TATA TATA TAT-A TATA TATA
*
1556679 T-TA TTTA CTATA GTATA -ATA T-TA TATA T-TA TATA T-TA TATA T-TA
1 TATA TATA -TATA -TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
1556723 TATA T-TA TAT- TAT- TGT- TATA GTAT- TATA T-TA TATA GTATA TAT-
1 TATA TATA TATA TATA TATA TATA -TATA TATA TATA TATA -TATA TATA
*
1556766 TAT- TATA T-TA TATA TAT- TATA -ATA T-TA TATG T-TA TATA T-TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
1556807 TAGTA TATA TTTA T-TA TAT- TAT- TAT- TGTA TATA T-TG TAGTA -ATA
1 TA-TA TATA TATA TATA TATA TATA TATA TATA TATA TATA TA-TA TATA
* * *
1556851 TATG T-TA TATT TATA T-TA TATA TATA TAT- TATA TACTA TA-A TATT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TA-TA TATA TATA
* *
1556896 TAT- TATA TAGTA TATA TTTA T-TA TA-A T-TA TAT- TATA TATA CATA
1 TATA TATA TA-TA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
1556940 TATA TATT TAT- TATA T-TA TATA T-TA TAGCA TATA T-TA TATA T-TA
1 TATA TATA TATA TATA TATA TATA TATA TA-TA TATA TATA TATA TATA
*
1556984 TATA T-TA TATA T-TT TAT- TATA TAT
1 TATA TATA TATA TATA TATA TATA TAT
1557008 TATTTTTTAT
Statistics
Matches: 327, Mismatches: 29, Indels: 117
0.69 0.06 0.25
Matches are distributed among these distances:
3 141 0.43
4 135 0.41
5 49 0.15
6 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (4 bp):
TATA
Found at i:1556605 original size:2 final size:2
Alignment explanation
Indices: 1556589--1557007 Score: 193
Period size: 2 Copynumber: 227.5 Consensus size: 2
1556579 TCATTTATGT
1556589 TA TA GTA TA -A TA TA TA T- TA TA GTA GTA TA TA GTA TA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA -TA TA TA -TA TA TA TA TA
* *
1556630 TA T- TG TA TA -A TA TA TG T- TA TA TA TA GTA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
1556669 TGG TA TA T- TA T- TA TT TA CTA TA GTA TA -A TA T- TA TA TA T-
1 T-A TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA
*
1556707 TA TA TA T- TA TA TA T- TA TA TA T- TA TA T- TA T- TG T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1556743 GTA T- TA TA T- TA TA TA GTA TA TA T- TA T- TA TA T- 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
* *
1556782 T- TA TA -A TA T- TA TA TG T- TA TA TA T- TA TA GTA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
1556820 T- TA TA T- TA T- TA T- TG TA TA TA T- TG TA GTA -A TA TA TG T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
1556856 TA TA TT TA TA T- TA TA TA TA TA TA T- TA TA TA CTA TA -A TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
1556896 TA T- TA TA TA GTA TA TA TT TA T- TA TA -A T- TA TA T- 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
* * *
1556934 TA CA TA TA TA TA TT TA T- TA TA T- TA TA TA T- TA TA GCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
1556974 T- TA TA TA T- TA TA TA T- TA TA TA T- TT TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1557008 TATTTTTTAT
Statistics
Matches: 327, Mismatches: 25, Indels: 130
0.68 0.05 0.27
Matches are distributed among these distances:
1 51 0.16
2 247 0.76
3 29 0.09
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1556609 original size:7 final size:7
Alignment explanation
Indices: 1556594--1557027 Score: 286
Period size: 7 Copynumber: 62.0 Consensus size: 7
1556584 TATGTTATAG
*
1556594 TATAATA
1 TATATTA
1556601 TATATTA
1 TATATTA
*
1556608 TAGTAGTA
1 TA-TATTA
*
1556616 TATA--G
1 TATATTA
1556621 TATATTA
1 TATATTA
*
1556628 TATATTG
1 TATATTA
*
1556635 TATAATA
1 TATATTA
*
1556642 TATGTTA
1 TATATTA
1556649 TATA-TA
1 TATATTA
1556655 GTATATATA
1 -TATAT-TA
**
1556664 TTATATGG
1 -TATATTA
1556672 TATATTA
1 TATATTA
1556679 T-TATTTA
1 TATA-TTA
*
1556686 CTATAGTA
1 -TATATTA
1556694 TAATATTA
1 T-ATATTA
1556702 TATATTA
1 TATATTA
1556709 TATATTA
1 TATATTA
1556716 TATATTA
1 TATATTA
1556723 TATATTA
1 TATATTA
*
1556730 TATTATTGT
1 TA-TATT-A
*
1556739 TATAGTA
1 TATATTA
1556746 TTATATTA
1 -TATATTA
*
1556754 TATAGTA
1 TATATTA
1556761 TATATTA
1 TATATTA
1556768 TTATATTATA
1 -TATA-T-TA
1556778 TATATTA
1 TATATTA
1556785 TAATATTA
1 T-ATATTA
*
1556793 TATGTTA
1 TATATTA
1556800 TATATTA
1 TATATTA
1556807 TAGTA-TA
1 TA-TATTA
1556814 TAT-TTA
1 TATATTA
1556820 TTATATTA
1 -TATATTA
1556828 T-TATTGTA
1 TATA-T-TA
*
1556836 TATATTG
1 TATATTA
1556843 TAGTA--A
1 TA-TATTA
1556849 TATATGT-
1 TATAT-TA
1556856 TATATT-
1 TATATTA
1556862 TATATTA
1 TATATTA
1556869 TATA-TA
1 TATATTA
1556875 TATATTA
1 TATATTA
*
1556882 TATACTA
1 TATATTA
1556889 TA-A-TA
1 TATATTA
*
1556894 TTTATTA
1 TATATTA
*
1556901 TATAGTA
1 TATATTA
1556908 TATATT-
1 TATATTA
*
1556914 TATTATAA
1 TA-TATTA
1556922 TTATATTA
1 -TATATTA
1556930 TATA-TA
1 TATATTA
*
1556936 CATA-TA
1 TATATTA
1556942 TATATTTA
1 TATA-TTA
1556950 TTATATTA
1 -TATATTA
1556958 TATA-T-
1 TATATTA
**
1556963 TATAGCA
1 TATATTA
1556970 TATATTA
1 TATATTA
1556977 TATATTA
1 TATATTA
1556984 TATATTA
1 TATATTA
1556991 TATATT-
1 TATATTA
1556997 T-TATTA
1 TATATTA
1557003 TATATTA
1 TATATTA
*
1557010 T-T-TTT
1 TATATTA
1557015 TATATTA
1 TATATTA
1557022 T-TATTA
1 TATATTA
1557028 AAACATTTTT
Statistics
Matches: 342, Mismatches: 41, Indels: 89
0.72 0.09 0.19
Matches are distributed among these distances:
5 20 0.06
6 48 0.14
7 188 0.55
8 60 0.18
9 24 0.07
10 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (7 bp):
TATATTA
Found at i:1561624 original size:21 final size:21
Alignment explanation
Indices: 1561580--1561624 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1561570 GTCTCTTAAA
*
1561580 TAATATATAAAAATTAAAATT
1 TAATATATAAAAATAAAAATT
*
1561601 TAATAT-TATAAATAAAAATAT
1 TAATATATAAAAATAAAAAT-T
1561622 TAA
1 TAA
1561625 AACTATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATATAAAAATAAAAATT
Found at i:1563327 original size:32 final size:32
Alignment explanation
Indices: 1563291--1563389 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 32
1563281 GGGTCAACCT
* *
1563291 AAGGGATTATCTTGGGGCCTAAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
* *
1563323 AAGGGAATACCTTTGGGCCTTAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
* * * *
1563355 AAGGAAATACCTTGGGGCCTCATAGTCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
1563387 AAG
1 AAG
1563390 TGTCACCTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.21
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
Found at i:1565112 original size:32 final size:32
Alignment explanation
Indices: 1565076--1565174 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 32
1565066 GGGCCAACCT
* *
1565076 AAGGGATTATCTTGGGGCCTAAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
* *
1565108 AAGGGAATACCTTTGGGCCTTAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
* * * *
1565140 AAGGAAATACCTTGGGGCCTCATAGTCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
1565172 AAG
1 AAG
1565175 TGTCACCTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.21
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
Found at i:1566899 original size:32 final size:31
Alignment explanation
Indices: 1566862--1566945 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
1566852 GGGCCAACCT
*
1566862 AAGGGATTATCTTGGGGCCTAAGAACCTACCC
1 AAGGGAATA-CTTGGGGCCTAAGAACCTACCC
* * *
1566894 AAGGGAATACTTTTGGGCCTTAGAGCCTACCC
1 AAGGGAATAC-TTGGGGCCTAAGAACCTACCC
*
1566926 AAGGAAATACCTTGGGGCCT
1 AAGGGAATA-CTTGGGGCCT
1566946 CATAGTCTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
31 1 0.02
32 42 0.95
33 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (31 bp):
AAGGGAATACTTGGGGCCTAAGAACCTACCC
Found at i:1566956 original size:32 final size:32
Alignment explanation
Indices: 1566872--1566960 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
1566862 AAGGGATTAT
* * *
1566872 CTTGGGGCCTAAGAACCTACCCAAGGGAATAC
1 CTTGGGGCCTCAGAGCCTACCCAAGGAAATAC
* * *
1566904 TTTTGGGCCTTAGAGCCTACCCAAGGAAATAC
1 CTTGGGGCCTCAGAGCCTACCCAAGGAAATAC
* *
1566936 CTTGGGGCCTCATAGTCTACCCAAG
1 CTTGGGGCCTCAGAGCCTACCCAAG
1566961 TGTCACCTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (32 bp):
CTTGGGGCCTCAGAGCCTACCCAAGGAAATAC
Found at i:1574821 original size:31 final size:31
Alignment explanation
Indices: 1574783--1574857 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
1574773 TACTTATCAG
1574783 GTCCCTTTATTTTACGGACCAGTTTAAATTA
1 GTCCCTTTATTTTACGGACCAGTTTAAATTA
1574814 GTCCCTTTATTTTACGGACCAGTTTAAATTA
1 GTCCCTTTATTTTACGGACCAGTTTAAATTA
1574845 GTCCCTTTATTTT
1 GTCCCTTTATTTT
1574858 GGTAGAGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (31 bp):
GTCCCTTTATTTTACGGACCAGTTTAAATTA
Found at i:1575801 original size:34 final size:35
Alignment explanation
Indices: 1575736--1575810 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 35
1575726 AATTGAATTG
* *
1575736 AATTGAATTATTTTAGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATGA
*
1575771 AATTGAATTACTTTGGAAATT-GGGTTTAGAATGA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATGA
1575805 AATTGA
1 AATTGA
1575811 GGAATGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 19 0.51
35 18 0.49
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.40
Consensus pattern (35 bp):
AATTGAATTACTTTAGAAATTAGGGTTTAGAATGA
Found at i:1576511 original size:23 final size:24
Alignment explanation
Indices: 1576461--1576513 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1576451 TTTTGATACC
* *
1576461 TTTTAAAATTTTTAATCTAATTACA
1 TTTT-AAATTTATAATCAAATTACA
*
1576486 TTTTAAATTTAT-ATCAAATTATA
1 TTTTAAATTTATAATCAAATTACA
1576509 TTTTA
1 TTTTA
1576514 TCATTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
24 7 0.28
25 4 0.16
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTAAATTTATAATCAAATTACA
Found at i:1580108 original size:2 final size:2
Alignment explanation
Indices: 1580101--1580133 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1580091 TTTCTTTGGG
1580101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1580134 TTGCTTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1586700 original size:31 final size:31
Alignment explanation
Indices: 1586662--1586815 Score: 247
Period size: 31 Copynumber: 5.0 Consensus size: 31
1586652 CCCGAAGGAC
* * *
1586662 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
1586693 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1586724 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1586755 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1586786 TAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
1586816 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1590981 original size:31 final size:31
Alignment explanation
Indices: 1590943--1591096 Score: 238
Period size: 31 Copynumber: 5.0 Consensus size: 31
1590933 CCCGAAGGAC
* * *
1590943 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
1590974 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1591005 CAGTCCATATGTCCCGAAGATCATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1591036 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1591067 CAGTCCATATGTCCCGAAGAGCATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
1591097 CCCTCGACCC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1593378 original size:31 final size:31
Alignment explanation
Indices: 1593342--1593400 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1593332 AACTTAAAAG
*
1593342 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1593373 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1593401 CTATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1593476 original size:22 final size:22
Alignment explanation
Indices: 1593427--1593475 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1593417 ATAAATTATT
**
1593427 TAAAATAAATCAATCGATATTT
1 TAAAATAAATCAATCGATATAA
*
1593449 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCGATA-TAA
1593472 TAAA
1 TAAA
1593476 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCGATATAA
Found at i:1593485 original size:32 final size:31
Alignment explanation
Indices: 1593447--1593613 Score: 235
Period size: 32 Copynumber: 5.5 Consensus size: 31
1593437 CAATCGATAT
1593447 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
1593479 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
1593511 TTTAAAATAAATCAATC---C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
1593533 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
1593565 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
1593597 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
1593614 CATATTTTAT
Statistics
Matches: 124, Mismatches: 1, Indels: 21
0.85 0.01 0.14
Matches are distributed among these distances:
22 16 0.13
23 2 0.02
24 1 0.01
26 3 0.02
28 3 0.02
30 1 0.01
31 2 0.02
32 96 0.77
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:1593489 original size:14 final size:14
Alignment explanation
Indices: 1593470--1593522 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1593460 AATCTATACT
1593470 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1593484 AATAAATCAATCTATACT
1 AATAAAT-TAT-T-TA-A
1593502 AATAAATTATTTAA
1 AATAAATTATTTAA
1593516 AATAAAT
1 AATAAAT
1593523 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 4 0.13
16 2 0.06
17 4 0.13
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1593511 original size:86 final size:86
Alignment explanation
Indices: 1593413--1593628 Score: 389
Period size: 86 Copynumber: 2.5 Consensus size: 86
1593403 ATACAACTAC
* *
1593413 ACTAATAAATTATTTAAAATAAATCAATCGATATTTTAAAATAAATCAATCTATACTAATAAATT
1 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1593478 ATTTAAAATAAATCAAT-CTAT
66 ATTTAAAATAAATCAATAC-AT
1593499 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1593564 ATTTAAAATAAATCAATACAT
66 ATTTAAAATAAATCAATACAT
*
1593585 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAA
1 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1593629 TTTATTTTAA
Statistics
Matches: 126, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
86 125 0.99
87 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (86 bp):
ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
ATTTAAAATAAATCAATACAT
Found at i:1593537 original size:22 final size:22
Alignment explanation
Indices: 1593511--1593553 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1593501 TAATAAATTA
1593511 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1593533 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1593554 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1593537 original size:54 final size:54
Alignment explanation
Indices: 1593479--1593585 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
1593469 TAATAAATTA
* *
1593479 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
1593533 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATA
1593586 CTAATAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
Found at i:1593562 original size:22 final size:22
Alignment explanation
Indices: 1593513--1593561 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1593503 ATAAATTATT
**
1593513 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1593535 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1593558 TAAA
1 TAAA
1593562 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1593636 original size:15 final size:15
Alignment explanation
Indices: 1593616--1593710 Score: 122
Period size: 15 Copynumber: 6.5 Consensus size: 15
1593606 AATCAATCCA
*
1593616 TATTTTATAATAATT
1 TATTTTATAATAAAT
*
1593631 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1593646 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
1593661 TATTTTATAGTAAAT
1 TATTTTATAATAAAT
*
1593676 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
* *
1593691 AACTTTAT--TAAAT
1 TATTTTATAATAAAT
1593704 TATTTTA
1 TATTTTA
1593711 ATAAATAACC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
13 10 0.14
15 59 0.86
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:1593680 original size:45 final size:43
Alignment explanation
Indices: 1593616--1593710 Score: 136
Period size: 45 Copynumber: 2.2 Consensus size: 43
1593606 AATCAATCCA
* * *
1593616 TATTTTATAATAATTTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATAACTTTAT--TAAAT
*
1593661 TATTTTATAGTAAATTATTTTAAAATAAATAACTTTATTAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATAACTTTATTAAAT
1593704 TATTTTA
1 TATTTTA
1593711 ATAAATAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 12 0.26
45 34 0.74
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (43 bp):
TATTTTATAATAAATTATTTTAAAATAAATAACTTTATTAAAT
Found at i:1593698 original size:30 final size:27
Alignment explanation
Indices: 1593641--1593719 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 27
1593631 TATTTTAAAA
* *
1593641 TAAATTATTTTATAATAAATTATTTTAT
1 TAAATTATTTTA-AATAAATAACTTTAT
1593669 AGTAAATTATTTTAAAATAAATAACTTTAT
1 --TAAATTATTTT-AAATAAATAACTTTAT
1593699 TAAATTATTTT-AATAAATAAC
1 TAAATTATTTTAAATAAATAAC
1593720 CGTATTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.22
28 11 0.24
30 24 0.52
31 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (27 bp):
TAAATTATTTTAAATAAATAACTTTAT
Done.