Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 20 of 21
Found at i:4055346 original size:52 final size:52
Alignment explanation
Indices: 4055218--4055338 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
4055208 CACTGATCTT
*
4055218 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4055270 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
4055322 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
4055339 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4068037 original size:79 final size:79
Alignment explanation
Indices: 4067873--4068261 Score: 399
Period size: 79 Copynumber: 5.0 Consensus size: 79
4067863 TTATCCTTTT
** * * * * *
4067873 GAAAATAATGGGGTTGGAGTATCCCCGGCTGTGAAAAATCGATG-ATTGGAAATAAAATCGGGAT
1 GAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGT
* * *
4067937 TGGGGCATCCCCTT
66 TGGAGTATCCCCTC
* ** * * * * *
4067951 GGAAATAATATGGTTGAAATATCCCCGACTATAAAAAATTGATGTTTTAGAAATAAAACCGGGGT
1 GAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGT
4068016 TGGAGTATCCCCTC
66 TGGAGTATCCCCTC
* * * * * * * *
4068030 GAAAATAACGGGGTTGGGGTATCCTCGATTATGAGAAATTAATATTTCAGAAATAAAGTCGGGGT
1 GAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGT
*
4068095 TGGGGTATCCCCTC
66 TGGAGTATCCCCTC
* * * *
4068109 GAAAATAACGGGATTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGAGGT
1 GAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGT
*
4068171 TGGAGTATCCCCTT
66 TGGAGTATCCCCTC
* * * * *
4068185 GAAAATAATGGGGTTGGAGTATCCCTGATTGTGAAAAGTTGATGTTTTGGAAATAAAATCGGAGT
1 GAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGT
* *
4068250 CGGAATATCCCC
66 TGGAGTATCCCC
4068262 GATTGCGAAG
Statistics
Matches: 251, Mismatches: 56, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
76 64 0.25
78 35 0.14
79 152 0.61
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
GAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGT
TGGAGTATCCCCTC
Found at i:4068238 original size:155 final size:155
Alignment explanation
Indices: 4067871--4068246 Score: 445
Period size: 155 Copynumber: 2.4 Consensus size: 155
4067861 GCTTATCCTT
* ** * *
4067871 TTGAAAATAATGGGGTTGGAGTATCCCCGGCTGTGAAAAATCGATG-ATTGGAAATAAAATCGGG
1 TTGAAAATAATGGGGTTGGAGTATCCCTGATTGTG-AAAATTGATGTTTTGGAAATAAAATCGGG
* * *
4067935 ATTGGGGCATCCCCTTGGAAATAATATGGTTGAAATATCCCCGACTATAAAAAATTGATGTTTTA
65 ATTGGGGCATCCCCTCGAAAATAATAGGGTTGAAATATCCCCGA--ATAAAAAATTGATGTTTTA
*
4068000 GAAATAAAACCGGGGTTGGAGTATCCCC
128 GAAATAAAACCGAGGTTGGAGTATCCCC
* * * * * * ** *
4068028 TCGAAAATAACGGGGTTGGGGTAT-CCTCGATTATGAGAAATTAATATTTCAGAAATAAAGTCGG
1 TTGAAAATAATGGGGTTGGAGTATCCCT-GATTGTGA-AAATTGATGTTTTGGAAATAAAATCGG
* * * * * *
4068092 GGTTGGGGTATCCCCTCGAAAATAA-CGGGATTGGAGTATCCCCG-ATGAAAAATTGATGTTTTA
64 GATTGGGGCATCCCCTCGAAAATAATAGGG-TTGAAATATCCCCGAATAAAAAATTGATGTTTTA
4068155 GAAATAAAACCGAGGTTGGAGTATCCCC
128 GAAATAAAACCGAGGTTGGAGTATCCCC
4068183 TTGAAAATAATGGGGTTGGAGTATCCCTGATTGTGAAAAGTTGATGTTTTGGAAATAAAATCGG
1 TTGAAAATAATGGGGTTGGAGTATCCCTGATTGTGAAAA-TTGATGTTTTGGAAATAAAATCGG
4068247 AGTCGGAATA
Statistics
Matches: 180, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
154 3 0.02
155 92 0.51
156 6 0.03
157 33 0.18
158 46 0.26
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (155 bp):
TTGAAAATAATGGGGTTGGAGTATCCCTGATTGTGAAAATTGATGTTTTGGAAATAAAATCGGGA
TTGGGGCATCCCCTCGAAAATAATAGGGTTGAAATATCCCCGAATAAAAAATTGATGTTTTAGAA
ATAAAACCGAGGTTGGAGTATCCCC
Found at i:4068260 original size:51 final size:51
Alignment explanation
Indices: 4068204--4068312 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
4068194 GGGGTTGGAG
* * ** *
4068204 TATCCCTGATTGTGAA-AAGTTGATGTTTTGGAAATAAAATCGGAGTCGGAA
1 TATCCCCGATTGCGAAGAA-TTGATGTTTCAGAAATAAAACCGGAGTCGGAA
* * * *
4068255 TATCCCCGATTGCGAAGAATTGGTGTTTCAGAAATAAAACCGGGGTTGGAG
1 TATCCCCGATTGCGAAGAATTGATGTTTCAGAAATAAAACCGGAGTCGGAA
4068306 TATCCCC
1 TATCCCC
4068313 TCGAAAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (51 bp):
TATCCCCGATTGCGAAGAATTGATGTTTCAGAAATAAAACCGGAGTCGGAA
Found at i:4068393 original size:130 final size:127
Alignment explanation
Indices: 4068117--4068402 Score: 376
Period size: 130 Copynumber: 2.2 Consensus size: 127
4068107 TCGAAAATAA
*
4068117 CGGGATTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
1 CGGGATTGGAGTATCCCCGATGAAAAATTGATGTTTCAGAAATAAAACCGAGGTTGGAGTATCCC
* * * * * * *
4068182 CTTGAAAATAATGGGGTTGGAGTATCCCTGATTGTGAAAAGTTGATGTTTTGGAAATAAAAT
66 CTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAGTTGATGTTTTAGAAATAAAAC
* * * * *
4068244 C-GGAGTCGGAATATCCCCGATTGCGAAGAATTGGTGTTTCAGAAATAAAACCGGGGTTGGAGTA
1 CGGGA-TTGGAGTATCCCCGA-T--GAAAAATTGATGTTTCAGAAATAAAACCGAGGTTGGAGTA
*
4068308 TCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAGTTGATGTTTTAGAAATGAAA
62 TCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAGTTGATGTTTTAGAAATAAAA
4068373 C
127 C
*
4068374 CGGGATTGGAGTATTCCCGAGATGAAAAA
1 CGGGATTGGAGTA-TCCC-CGATGAAAAA
4068403 AAAAATTTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
126 3 0.02
127 14 0.10
128 1 0.01
129 5 0.04
130 101 0.75
131 8 0.06
132 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (127 bp):
CGGGATTGGAGTATCCCCGATGAAAAATTGATGTTTCAGAAATAAAACCGAGGTTGGAGTATCCC
CTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAGTTGATGTTTTAGAAATAAAAC
Found at i:4070751 original size:13 final size:13
Alignment explanation
Indices: 4070733--4070758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4070723 ACAAAGATCG
4070733 ATGTATCGATACA
1 ATGTATCGATACA
4070746 ATGTATCGATACA
1 ATGTATCGATACA
4070759 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4070755 original size:33 final size:33
Alignment explanation
Indices: 4070713--4070778 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4070703 AACTTCCTAG
***
4070713 ATGTATCGATACAAAGATCGATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
*
4070746 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
4070779 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:4071711 original size:52 final size:52
Alignment explanation
Indices: 4071507--4071705 Score: 242
Period size: 52 Copynumber: 3.8 Consensus size: 52
4071497 GATGAGAAGA
* * * *
4071507 ATGATAAAGATGCTAATATGATGATTTAAGGATAGCGATATTGAGCTTAAAG
1 ATGACAAAGATGCTAATATGCTGATTCAAGGCTAGCGATATTGAGCTTAAAG
* * *
4071559 ATGACAAAGATGCAAATATGCTGATTCAAGGCTAGCGACATTGAGCTT-AGG
1 ATGACAAAGATGCTAATATGCTGATTCAAGGCTAGCGATATTGAGCTTAAAG
* *
4071610 AATGACAAAGATGCTAATA-GACTGATTCAAGGCCAGCGATA-TCAGACTTAAAG
1 -ATGACAAAGATGCTAATATG-CTGATTCAAGGCTAGCGATATTGAG-CTTAAAG
* * *
4071663 ATGACAAATATGCCAATATGCTGATTCAAGGCTAACGATATTG
1 ATGACAAAGATGCTAATATGCTGATTCAAGGCTAGCGATATTG
4071706 GACTTAGAGA
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
51 6 0.05
52 114 0.92
53 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (52 bp):
ATGACAAAGATGCTAATATGCTGATTCAAGGCTAGCGATATTGAGCTTAAAG
Found at i:4071712 original size:104 final size:104
Alignment explanation
Indices: 4071505--4071705 Score: 289
Period size: 104 Copynumber: 1.9 Consensus size: 104
4071495 AAGATGAGAA
* * * *
4071505 GAATGATAAAGATGCTAATATGATGATTTAAGGATAGCGATATTGAGCTTAAAGATGACAAAGAT
1 GAATGACAAAGATGCTAATATGATGATTCAAGGACAGCGATATAGAGCTTAAAGATGACAAAGAT
*
4071570 GCAAATATGCTGATTCAAGGCTAGCGACATTGAGCTTAG
66 GCAAATATGCTGATTCAAGGCTAACGACATTGAGCTTAG
* *
4071609 GAATGACAAAGATGCTAATA-GACTGATTCAAGGCCAGCGATATCAGA-CTTAAAGATGACAAAT
1 GAATGACAAAGATGCTAATATGA-TGATTCAAGGACAGCGATAT-AGAGCTTAAAGATGACAAAG
* *
4071672 ATGCCAATATGCTGATTCAAGGCTAACGATATTG
64 ATGCAAATATGCTGATTCAAGGCTAACGACATTG
4071706 GACTTAGAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
103 2 0.02
104 82 0.95
105 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (104 bp):
GAATGACAAAGATGCTAATATGATGATTCAAGGACAGCGATATAGAGCTTAAAGATGACAAAGAT
GCAAATATGCTGATTCAAGGCTAACGACATTGAGCTTAG
Found at i:4071794 original size:52 final size:52
Alignment explanation
Indices: 4071512--4071800 Score: 225
Period size: 52 Copynumber: 5.6 Consensus size: 52
4071502 GAAGAATGAT
* * **
4071512 AAAGATGCTAATATGATGATTTAAGGATAGCGATATTGAGCTTAAAGATG-AC
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGA-CTTAAAGATGAAC
* * * *
4071564 AAAGATGCAAATATGCTGATTCAAGGCTAGCGACATTGAGCTT-AGGAATG-AC
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGA-CTTAAAG-ATGAAC
*
4071616 AAAGATGCTAATA-GACTGATTCAAGGCCAGCGATATCAGACTTAAAGATG-AC
1 AAAGATGCTAATATG-CTGATTCAAGGCCAGCGATAT-TGACTTAAAGATGAAC
* * * * * **
4071668 AAATATGCCAATATGCTGATTCAAGGCTAACGATATTGGACTTAGAGAT-AGT
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAAGATGAAC
* * * * * * * *
4071720 GAAGGTAAC-AATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAAG
1 AAAGAT-GCTAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAAGATGAAC
*
4071773 AAAG-TGCTAATATGCTGATTCAGGGCCA
1 AAAGATGCTAATATGCTGATTCAAGGCCA
4071801 ACGGCATTAG
Statistics
Matches: 190, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
51 4 0.02
52 176 0.93
53 10 0.05
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (52 bp):
AAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGACTTAAAGATGAAC
Found at i:4071908 original size:58 final size:59
Alignment explanation
Indices: 4071777--4071925 Score: 165
Period size: 58 Copynumber: 2.5 Consensus size: 59
4071767 ATGAAGAAAG
* * * * * *
4071777 TGCTAATATGCTGATTCAGGGCCAACGGCATTAGACTTTGAAAAGGAAGATTTGACAAT
1 TGCTAATGTGTTGATTCAAGGCCAACGACATTAGACTTTGAAAAGGAAGATCTGACAAA
* ** * * * *
4071836 TGCCAATGTGTTGATTCTTGGCCAACGACATTAGTC-TTGAAAATGAAGGTCTGGCAAA
1 TGCTAATGTGTTGATTCAAGGCCAACGACATTAGACTTTGAAAAGGAAGATCTGACAAA
*
4071894 TGCTAATGTGTTGATTCAAGGCCAACAACATT
1 TGCTAATGTGTTGATTCAAGGCCAACGACATT
4071926 GGGTTTGGAA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
58 45 0.61
59 29 0.39
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (59 bp):
TGCTAATGTGTTGATTCAAGGCCAACGACATTAGACTTTGAAAAGGAAGATCTGACAAA
Found at i:4071971 original size:34 final size:31
Alignment explanation
Indices: 4071929--4071991 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
4071919 CAACATTGGG
4071929 TTTGGAAGGAGATGCCACCAACTTGTGTGGGAT
1 TTTGGAA-G-GATGCCACCAACTTGTGTGGGAT
* *
4071962 TTTGAGAAGGTTGCCACTAACTTGTGTGGG
1 TTTG-GAAGGATGCCACCAACTTGTGTGGG
4071992 CTTTGATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 19 0.70
33 5 0.19
34 3 0.11
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.30
Consensus pattern (31 bp):
TTTGGAAGGATGCCACCAACTTGTGTGGGAT
Found at i:4072115 original size:34 final size:34
Alignment explanation
Indices: 4072072--4072188 Score: 141
Period size: 34 Copynumber: 3.5 Consensus size: 34
4072062 TTCAAAAATG
4072072 TGCCACCGAC-TGTGTGGGTTTTTGAGAGAAAGGA
1 TGCCACCGACTTGTGTGGGTTTTT-AGAGAAAGGA
*
4072106 TGCCACCGAC-TGTGTGGATTTTTAAGAGAAAGGA
1 TGCCACCGACTTGTGTGGGTTTTT-AGAGAAAGGA
* ** *
4072140 TGCCATCGACTTGTGTGGGCATTT-GAGAAATGA
1 TGCCACCGACTTGTGTGGGTTTTTAGAGAAAGGA
*
4072173 TGCCACCAACTTGTGT
1 TGCCACCGACTTGTGT
4072189 AGGCATAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
33 22 0.30
34 41 0.56
35 10 0.14
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (34 bp):
TGCCACCGACTTGTGTGGGTTTTTAGAGAAAGGA
Found at i:4072175 original size:33 final size:33
Alignment explanation
Indices: 4072097--4072194 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 33
4072087 GGGTTTTTGA
*
4072097 GAGAAAGGATGCCACCGAC-TGTGT-GG-ATTTTT
1 GAGAAAGGATGCCACCAACTTGTGTAGGCA--TTT
* * *
4072129 AAGAGAAAGGATGCCATCGACTTGTGTGGGCATTT
1 --GAGAAAGGATGCCACCAACTTGTGTAGGCATTT
*
4072164 GAGAAATGATGCCACCAACTTGTGTAGGCAT
1 GAGAAAGGATGCCACCAACTTGTGTAGGCAT
4072195 AAATGGATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
33 27 0.48
34 18 0.32
35 8 0.14
36 2 0.04
37 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (33 bp):
GAGAAAGGATGCCACCAACTTGTGTAGGCATTT
Found at i:4082052 original size:155 final size:155
Alignment explanation
Indices: 4081710--4082096 Score: 375
Period size: 155 Copynumber: 2.5 Consensus size: 155
4081700 GTTGTCACTG
* * * * * *
4081710 GGTCTGCTTTTATGCTGAAAGTTGGTATTTAGGCTAGGTTCATCCCATTTAAAATCCTTTTTAAG
1 GGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTAAAATTCTTTTTAAG
* * * *
4081775 TCCTTTAGGGATATCATATACTTTTACATAGAAGGCATCCCCTAAGGGCATTTTCAAAATTTTCC
66 TCCTTTAGGGATATCAGATAATTTTACATAGAAGACATCCCCTAAGGGCATTTTCAAAATTTTCA
* **
4081840 AAAAGCAACTCCTAGGTCATCATTA
131 AAAACCAACTCCTAGGTCATCACGA
* * * * *
4081865 GGTCCGTTTTTATGTCAAAGGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATTCTTTTTAAG
1 GGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTAAAATTCTTTTTAAG
** * * * * * ** *
4081930 TCCTTTA-GGAGTATTGGATAATTTTACGTCGAAGATATCCCCTAGGGGGATCTTTGTAATTTTT
66 TCCTTTAGGGA-TATCAGATAATTTTACATAGAAGACATCCCCTAAGGGCAT-TTTCAAAATTTT
* * **
4081994 CAAAAACCATCTCTTAGGTTGTCACCGA
129 CAAAAACCAACTCCTAGGTCATCA-CGA
* * * * *
4082022 -GTTCGCTTTTATGCCGAAGGTGGGTA-TTAGGATAGGTTCATCTCATCTATAATTTTTTTTATA
1 GGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTA-AAATTCTTTT-TA
4082085 AGTCCTTTAGGG
64 AGTCCTTTAGGG
4082097 TTACAGAGAT
Statistics
Matches: 184, Mismatches: 42, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
154 3 0.02
155 111 0.60
156 56 0.30
157 12 0.07
158 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (155 bp):
GGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTAAAATTCTTTTTAAG
TCCTTTAGGGATATCAGATAATTTTACATAGAAGACATCCCCTAAGGGCATTTTCAAAATTTTCA
AAAACCAACTCCTAGGTCATCACGA
Found at i:4084926 original size:13 final size:13
Alignment explanation
Indices: 4084908--4084934 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4084898 ACAATTTTTT
4084908 TTGTATCGATACA
1 TTGTATCGATACA
4084921 TTGTATCGATACA
1 TTGTATCGATACA
4084934 T
1 T
4084935 ACTTTGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4084950 original size:32 final size:33
Alignment explanation
Indices: 4084889--4084952 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
4084879 TACAAGCCAA
** *
4084889 TGTATCGATACAATTTTTTTTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
4084922 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
4084953 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:4087054 original size:21 final size:20
Alignment explanation
Indices: 4087025--4087067 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4087015 GACTAGTGTG
* *
4087025 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
4087046 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
4087066 GG
1 GG
4087068 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:4087504 original size:13 final size:13
Alignment explanation
Indices: 4087486--4087510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4087476 ATAATCCCCC
4087486 TGTATCGATACAG
1 TGTATCGATACAG
4087499 TGTATCGATACA
1 TGTATCGATACA
4087511 TTGAATTTCT
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4093309 original size:20 final size:20
Alignment explanation
Indices: 4093284--4093335 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4093274 TACAAGCCAA
**
4093284 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
4093304 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
4093323 TGTATCGATACAA
1 TGTATCGATACAA
4093336 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:4095327 original size:22 final size:22
Alignment explanation
Indices: 4095302--4095344 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4095292 CATGGATTTT
*
4095302 AAAAAAAAAAGCAAAAAGAAAC
1 AAAAAAAAAAGAAAAAAGAAAC
4095324 AAAAAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAGAAAAAAGAAA
4095345 ATTCAGATGC
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:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAAAAAAGAAAC
Found at i:4095338 original size:7 final size:7
Alignment explanation
Indices: 4095302--4095345 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
4095292 CATGGATTTT
4095302 AAAA-AA
1 AAAAGAA
*
4095308 AAAAGCA
1 AAAAGAA
4095315 AAAAGAA
1 AAAAGAA
*
4095322 ACAAAAAA
1 A-AAAGAA
4095330 AAAAGAA
1 AAAAGAA
4095337 AAAAGAA
1 AAAAGAA
4095344 AA
1 AA
4095346 TTCAGATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 4 0.12
7 22 0.69
8 6 0.19
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:4097097 original size:22 final size:22
Alignment explanation
Indices: 4097062--4097103 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4097052 CCCACTAGAT
*
4097062 TATTTTTCTCAAAATTTTCAAA
1 TATTTTTCTCAAAAGTTTCAAA
4097084 TATTTTTC-CTAAAAGTTTCA
1 TATTTTTCTC-AAAAGTTTCA
4097104 TGAAATTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTTTTCTCAAAAGTTTCAAA
Found at i:4100211 original size:30 final size:30
Alignment explanation
Indices: 4100146--4100219 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
4100136 TGTGGTTAGG
*
4100146 TTTATTTA-TTTAAATTTAATTTAATTTAA
1 TTTATATATTTTAAATTTAATTTAATTTAA
** *
4100175 AATATATATTTTAAATTTTATTTAAATTT-A
1 TTTATATATTTTAAATTTAATTT-AATTTAA
*
4100205 TTTATAT-TTATAAAT
1 TTTATATATTTTAAAT
4100220 AAATAATTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 12 0.33
30 19 0.53
31 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTATATATTTTAAATTTAATTTAATTTAA
Found at i:4100215 original size:10 final size:10
Alignment explanation
Indices: 4100149--4100215 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 10
4100139 GGTTAGGTTT
4100149 ATTTATTTAA
1 ATTTATTTAA
4100159 ATTTAATTT-A
1 ATTT-ATTTAA
4100169 ATTTA---AA
1 ATTTATTTAA
4100176 ATATATATTTTAA
1 AT-T-TA-TTTAA
4100189 ATTTTATTTAA
1 A-TTTATTTAA
*
4100200 ATTTATTTAT
1 ATTTATTTAA
4100210 ATTTAT
1 ATTTAT
4100216 AAATAAATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 18
0.71 0.02 0.27
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 3 0.06
10 23 0.49
11 10 0.21
12 2 0.04
13 4 0.09
14 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTATTTAA
Found at i:4100230 original size:41 final size:41
Alignment explanation
Indices: 4100150--4100230 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
4100140 GTTAGGTTTA
* *
4100150 TTTATTTAAATTTAATTTAATTTAAAATATATATTTTAAAT
1 TTTATTTAAATTTAATTTAATTTAAAATAAATATATTAAAT
4100191 TTTATTTAAATTT-ATTTATATTTATAAATAAATA-ATTAAA
1 TTTATTTAAATTTAATTTA-ATTTA-AAATAAATATATTAAA
4100231 ATTCATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 5 0.14
41 23 0.64
42 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (41 bp):
TTTATTTAAATTTAATTTAATTTAAAATAAATATATTAAAT
Found at i:4100357 original size:14 final size:14
Alignment explanation
Indices: 4100338--4100378 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
4100328 TTTAATATTT
4100338 TTATAATATTTATA
1 TTATAATATTTATA
4100352 TTATAATATTATATA
1 TTATAATATT-TATA
4100367 TTA-AATAATTTA
1 TTATAAT-ATTTA
4100379 CATAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATATTTATA
Found at i:4100403 original size:17 final size:17
Alignment explanation
Indices: 4100383--4100415 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4100373 AATTTACATA
*
4100383 AATATATAAATAAAAAT
1 AATATAAAAATAAAAAT
4100400 AATATAAAAATAAAAA
1 AATATAAAAATAAAAA
4100416 ATAAGTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATAAAAATAAAAAT
Found at i:4100876 original size:19 final size:18
Alignment explanation
Indices: 4100839--4100883 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
4100829 AATCAATTTA
*
4100839 ATTAAAAATAATTTAAAT
1 ATTAAATATAATTTAAAT
*
4100857 ATTAAATATAAATTTTAAT
1 ATTAAATAT-AATTTAAAT
4100876 ATTAAATA
1 ATTAAATA
4100884 AATACTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAAATATAATTTAAAT
Found at i:4101197 original size:46 final size:46
Alignment explanation
Indices: 4101146--4101290 Score: 281
Period size: 46 Copynumber: 3.2 Consensus size: 46
4101136 ATCGTTTCTA
*
4101146 TTTTTTCTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
1 TTTTTTTTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
4101192 TTTTTTTTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
1 TTTTTTTTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
4101238 TTTTTTTTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
1 TTTTTTTTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
4101284 TTTTTTT
1 TTTTTTT
4101291 CCTCGATTTG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 98 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.54
Consensus pattern (46 bp):
TTTTTTTTTGTTTCTTTGAAAATATCAGTGCTTAAAATTGGAGGTT
Found at i:4101617 original size:22 final size:22
Alignment explanation
Indices: 4101570--4101618 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
4101560 TTCAAATTTG
***
4101570 ATTAA-TTAATTTGATCTTAAA
1 ATTAATTTAATTTGATAAAAAA
*
4101591 TTTAATTTAATTTGATAAAAAA
1 ATTAATTTAATTTGATAAAAAA
4101613 ATTAAT
1 ATTAAT
4101619 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTAATTTAATTTGATAAAAAA
Found at i:4101778 original size:16 final size:16
Alignment explanation
Indices: 4101646--4101796 Score: 119
Period size: 16 Copynumber: 9.4 Consensus size: 16
4101636 TCTGAATTTA
4101646 AAAATAATTTAAA-TC
1 AAAATAATTTAAATTC
4101661 TAAAATAATTTAAA-TC
1 -AAAATAATTTAAATTC
* *
4101677 AAGAATGATTTGAACTT-
1 AA-AATAATTT-AAATTC
* * * *
4101694 GAATTAACTTAAACTC
1 AAAATAATTTAAATTC
*
4101710 AAAATAATTTGAATTC
1 AAAATAATTTAAATTC
* *
4101726 AAAATAATTTGAACTC
1 AAAATAATTTAAATTC
*
4101742 AAAATAATTTAAATCC
1 AAAATAATTTAAATTC
*
4101758 AAAATAACTTAAATTC
1 AAAATAATTTAAATTC
* * * *
4101774 GAAATGATTGAAATTT
1 AAAATAATTTAAATTC
4101790 AAAATAA
1 AAAATAA
4101797 CTTGAACAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
15 5 0.05
16 96 0.91
17 3 0.03
18 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (16 bp):
AAAATAATTTAAATTC
Found at i:4101794 original size:48 final size:48
Alignment explanation
Indices: 4101646--4101796 Score: 164
Period size: 48 Copynumber: 3.1 Consensus size: 48
4101636 TCTGAATTTA
*
4101646 AAAATAATTTAAATCTAAAATAATTTAAA-TCAAGAATGATTTGAACTT
1 AAAATAATTTAAATCCAAAATAATTTAAATTCAA-AATGATTTGAACTT
* * * * * *
4101694 GAATTAACTTAAA-CTCAAAATAATTTGAATTCAAAATAATTTGAACTC
1 AAAATAATTTAAATC-CAAAATAATTTAAATTCAAAATGATTTGAACTT
* * *
4101742 AAAATAATTTAAATCCAAAATAACTTAAATTCGAAATGA-TTGAAATTT
1 AAAATAATTTAAATCCAAAATAATTTAAATTCAAAATGATTTG-AACTT
4101790 AAAATAA
1 AAAATAA
4101797 CTTGAACAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
47 4 0.05
48 74 0.89
49 5 0.06
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (48 bp):
AAAATAATTTAAATCCAAAATAATTTAAATTCAAAATGATTTGAACTT
Found at i:4105041 original size:43 final size:42
Alignment explanation
Indices: 4104994--4105324 Score: 218
Period size: 41 Copynumber: 7.8 Consensus size: 42
4104984 TAAGAAGCCT
* * *
4104994 ACCGGGGACAAAGCCGACAAGTAAAAAAGGGTGAGAAAGGCTG
1 ACCGGGGACAAAGCCGACAGGTAACAAAGAGT-AGAAAGGCTG
* * * * *
4105037 ACCGGGGACAAAGCCGACAGGTCACCAAGAGTA-AAAAGTTT
1 ACCGGGGACAAAGCCGACAGGTAACAAAGAGTAGAAAGGCTG
* * * *
4105078 ACCGGGGACATAGCCGATAGGGAAACAAAGTGTAAGAAAGGCTG
1 ACCGGGGACAAAGCCGACA-GGTAACAAAGAGT-AGAAAGGCTG
* * * * * * *
4105122 ATCGGGAACAAAGCCGACAGGTCACTAAGAGTA-AAAAGTTT
1 ACCGGGGACAAAGCCGACAGGTAACAAAGAGTAGAAAGGCTG
* * * *
4105163 ACCAGGGACAGAGCCGACAGATAAGCAAAGTGTAAGAAAGGCTG
1 ACCGGGGACAAAGCCGACAGGTAA-CAAAGAGT-AGAAAGGCTG
* * * * * *
4105207 ATCGGGGACAAAGCCGACAGGTCACCAAGAGTA-AAAAGTTT
1 ACCGGGGACAAAGCCGACAGGTAACAAAGAGTAGAAAGGCTG
*** * * * * *
4105248 ATTAGAGACATAGCCAACAGGTAAACAAAGTGTAAAAAAGGCTG
1 ACCGGGGACAAAGCCGACAGGT-AACAAAGAGT-AGAAAGGCTG
* * *
4105292 ACCGGGGACAAAGCCGATAGGTCACCAAGAGTA
1 ACCGGGGACAAAGCCGACAGGTAACAAAGAGTA
4105325 ATGAAGCCTC
Statistics
Matches: 209, Mismatches: 70, Indels: 19
0.70 0.23 0.06
Matches are distributed among these distances:
41 67 0.32
42 26 0.12
43 52 0.25
44 64 0.31
ACGTcount: A:0.41, C:0.18, G:0.29, T:0.12
Consensus pattern (42 bp):
ACCGGGGACAAAGCCGACAGGTAACAAAGAGTAGAAAGGCTG
Found at i:4105094 original size:41 final size:42
Alignment explanation
Indices: 4104994--4105325 Score: 247
Period size: 43 Copynumber: 7.8 Consensus size: 42
4104984 TAAGAAGCCT
* * * * *
4104994 ACCGGGGACAAAGCCGACAAGTAAAAAAGGGTGAGAAAGGCTG
1 ACCGGGGACAAAGCCGACAGGTCACAAAGAGT-AAAAAGGCTG
* * *
4105037 ACCGGGGACAAAGCCGACAGGTCACCAAGAGTAAAAA-GTTT
1 ACCGGGGACAAAGCCGACAGGTCACAAAGAGTAAAAAGGCTG
* * ** *
4105078 ACCGGGGACATAGCCGATAGGGAAACAAAGTGTAAGAAAGGCTG
1 ACCGGGGACAAAGCCGACA-GGTCACAAAGAGTAA-AAAGGCTG
* * * * *
4105122 ATCGGGAACAAAGCCGACAGGTCACTAAGAGTAAAAA-GTTT
1 ACCGGGGACAAAGCCGACAGGTCACAAAGAGTAAAAAGGCTG
* * * * *
4105163 ACCAGGGACAGAGCCGACAGATAAGCAAAGTGTAAGAAAGGCTG
1 ACCGGGGACAAAGCCGACAGGTCA-CAAAGAGTAA-AAAGGCTG
* * * *
4105207 ATCGGGGACAAAGCCGACAGGTCACCAAGAGTAAAAA-GTTT
1 ACCGGGGACAAAGCCGACAGGTCACAAAGAGTAAAAAGGCTG
*** * * * * *
4105248 ATTAGAGACATAGCCAACAGGTAAACAAAGTGTAAAAAAGGCTG
1 ACCGGGGACAAAGCCGACAGGT-CACAAAGAGT-AAAAAGGCTG
* *
4105292 ACCGGGGACAAAGCCGATAGGTCACCAAGAGTAA
1 ACCGGGGACAAAGCCGACAGGTCACAAAGAGTAA
4105326 TGAAGCCTCT
Statistics
Matches: 215, Mismatches: 65, Indels: 19
0.72 0.22 0.06
Matches are distributed among these distances:
41 58 0.27
42 38 0.18
43 64 0.30
44 55 0.26
ACGTcount: A:0.41, C:0.18, G:0.29, T:0.12
Consensus pattern (42 bp):
ACCGGGGACAAAGCCGACAGGTCACAAAGAGTAAAAAGGCTG
Found at i:4105134 original size:85 final size:85
Alignment explanation
Indices: 4104993--4105325 Score: 470
Period size: 85 Copynumber: 3.9 Consensus size: 85
4104983 GTAAGAAGCC
* * * * *
4104993 TACCGGGGACAAAGCCGACAAGTAAA-AAAGGGTGAGAAAGGCTGACCGGGGACAAAGCCGACAG
1 TACCAGGGACATAGCCGACAGGTAAACAAAGTGTAAGAAAGGCTGACCGGGGACAAAGCCGACAG
4105057 GTCACCAAGAGTAAAAAGTT
66 GTCACCAAGAGTAAAAAGTT
* * * * *
4105077 TACCGGGGACATAGCCGATAGGGAAACAAAGTGTAAGAAAGGCTGATCGGGAACAAAGCCGACAG
1 TACCAGGGACATAGCCGACAGGTAAACAAAGTGTAAGAAAGGCTGACCGGGGACAAAGCCGACAG
*
4105142 GTCACTAAGAGTAAAAAGTT
66 GTCACCAAGAGTAAAAAGTT
* * * *
4105162 TACCAGGGACAGAGCCGACAGATAAGCAAAGTGTAAGAAAGGCTGATCGGGGACAAAGCCGACAG
1 TACCAGGGACATAGCCGACAGGTAAACAAAGTGTAAGAAAGGCTGACCGGGGACAAAGCCGACAG
4105227 GTCACCAAGAGTAAAAAGTT
66 GTCACCAAGAGTAAAAAGTT
** * * * *
4105247 TATTAGAGACATAGCCAACAGGTAAACAAAGTGTAAAAAAGGCTGACCGGGGACAAAGCCGATAG
1 TACCAGGGACATAGCCGACAGGTAAACAAAGTGTAAGAAAGGCTGACCGGGGACAAAGCCGACAG
4105312 GTCACCAAGAGTAA
66 GTCACCAAGAGTAA
4105326 TGAAGCCTCT
Statistics
Matches: 221, Mismatches: 27, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
84 22 0.10
85 199 0.90
ACGTcount: A:0.41, C:0.18, G:0.29, T:0.12
Consensus pattern (85 bp):
TACCAGGGACATAGCCGACAGGTAAACAAAGTGTAAGAAAGGCTGACCGGGGACAAAGCCGACAG
GTCACCAAGAGTAAAAAGTT
Found at i:4105385 original size:42 final size:42
Alignment explanation
Indices: 4105338--4105528 Score: 197
Period size: 42 Copynumber: 4.5 Consensus size: 42
4105328 AAGCCTCTAG
* * *
4105338 GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTGCAA
1 GGTCAAAGCTGATAGGCAGACTGAGGATAAGAAAGTCTCCAA
* * *
4105380 GGTCAAAG-TGGATAGGTAGACTGAAGGATAGGAAAGTCTCCAG
1 GGTCAAAGCT-GATAGGCAGACTG-AGGATAAGAAAGTCTCCAA
* * * * **
4105423 GGTCAAAGCCGATAGGTAGACTTTA-GATGAGGTAGTCTCCAA
1 GGTCAAAGCTGATAGGCAGAC-TGAGGATAAGAAAGTCTCCAA
* * *
4105465 GGTCAAAGCCGATAGGCAGACTGAGGGTAGGAAAGTCTCCAA
1 GGTCAAAGCTGATAGGCAGACTGAGGATAAGAAAGTCTCCAA
*
4105507 GGTCAAAACTGATAGGCAGACT
1 GGTCAAAGCTGATAGGCAGACT
4105529 TTAGATAAGG
Statistics
Matches: 122, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
41 3 0.02
42 83 0.68
43 35 0.29
44 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (42 bp):
GGTCAAAGCTGATAGGCAGACTGAGGATAAGAAAGTCTCCAA
Found at i:4105460 original size:85 final size:85
Alignment explanation
Indices: 4105371--4105585 Score: 283
Period size: 84 Copynumber: 2.5 Consensus size: 85
4105361 AGGGTAAGAA
* * * *
4105371 AGTCTGCAAGGTCAAAGTGGATAGGTAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAT
1 AGTCTCCAAGGTCAAAGTCGATAGGTAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAACCGAT
* * *
4105436 AGGTAGACTTTAGATGAGGT
66 AGGCAGACTTTAGATAAGGC
* * * *
4105456 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTG-AGGGTAGGAAAGTCTCCAAGGTCAAAACTGAT
1 AGTCTCCAAGGTCAAAGTCGATAGGTAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAACCGAT
4105520 AGGCAGACTTTAGATAAGGC
66 AGGCAGACTTTAGATAAGGC
4105540 AG-CTTCC-AGAGTCAAAGTCGATAGGTAGACTGAAGGATAGTGAAAG
1 AGTC-TCCAAG-GTCAAAGTCGATAGGTAGACTGAAGGATAG-GAAAG
4105586 CTCAATGATT
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
83 3 0.03
84 70 0.62
85 34 0.30
86 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (85 bp):
AGTCTCCAAGGTCAAAGTCGATAGGTAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAACCGAT
AGGCAGACTTTAGATAAGGC
Found at i:4105521 original size:127 final size:126
Alignment explanation
Indices: 4105338--4105570 Score: 310
Period size: 127 Copynumber: 1.8 Consensus size: 126
4105328 AAGCCTCTAG
* * * *
4105338 GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTGCAAGGTCAAAGTGGATAGGTAGACTG
1 GGTCAAAGCCGACAGGCAGACTGAGGGTAAGAAAGTCTCCAAGGTCAAACTGGATAGGCAGACTG
*
4105403 AAGGAT-AGGAAAG-TCTCCAGGGTCAAAGCCGATAGGTAGACTTTAGATGAGGTAGTCTCCAA
66 AA-GATAAGG-AAGCT-TCCAGAGTCAAAGCCGATAGGTAGACTTTAGATGAGGTAGTCTCCAA
* *
4105465 GGTCAAAGCCGATAGGCAGACTGAGGGTAGGAAAGTCTCCAAGGTCAAAACT-GATAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTGAGGGTAAGAAAGTCTCCAAGGTC-AAACTGGATAGGCAGACT
** * *
4105529 TTAGATAAGGCAGCTTCCAGAGTCAAAGTCGATAGGTAGACT
65 GAAGATAAGGAAGCTTCCAGAGTCAAAGCCGATAGGTAGACT
4105571 GAAGGATAGT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
126 30 0.33
127 58 0.63
128 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (126 bp):
GGTCAAAGCCGACAGGCAGACTGAGGGTAAGAAAGTCTCCAAGGTCAAACTGGATAGGCAGACTG
AAGATAAGGAAGCTTCCAGAGTCAAAGCCGATAGGTAGACTTTAGATGAGGTAGTCTCCAA
Found at i:4106488 original size:13 final size:13
Alignment explanation
Indices: 4106457--4106482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4106447 TACATTTGGT
4106457 AATGTATCGATAC
1 AATGTATCGATAC
4106470 AATGTATCGATAC
1 AATGTATCGATAC
4106483 TGTGTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4108489 original size:21 final size:21
Alignment explanation
Indices: 4108458--4108509 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
4108448 GCTGCTAGTG
*
4108458 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
4108480 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCGCGACC
4108500 TGGTGGGTGC
1 TGG-GGGTGC
4108510 TGCCTAGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 14 0.52
21 7 0.26
22 6 0.22
ACGTcount: A:0.04, C:0.27, G:0.50, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:4108800 original size:20 final size:21
Alignment explanation
Indices: 4108771--4108811 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4108761 TGTTTTTGTT
4108771 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
4108790 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
4108812 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:4110490 original size:140 final size:140
Alignment explanation
Indices: 4110237--4110520 Score: 550
Period size: 140 Copynumber: 2.0 Consensus size: 140
4110227 ATTAACTTAG
*
4110237 AAAATTCTTGACACAAGGATTCATTAGTAGCACCAAAAATAATGTCTTCAACATAAATTTGTACA
1 AAAATTCTTGACACAAGGATTCATTAGTAGCACCAAAAATAATGTCATCAACATAAATTTGTACA
*
4110302 ATCAAAATGTCTTTTTCTTTTGATTTAATGAAAAGAGTTTTATTCACATTTCCTCTATTAAAACC
66 ATCAAAATGTCTTTTTCTTTTGATTTAATGAAAAGAGTTTTATCCACATTTCCTCTATTAAAACC
4110367 TTTTTCAGTC
131 TTTTTCAGTC
4110377 AAAATTCTTGACACAAGGATTCATTAGTAGCACCAAAAATAATGTCATCAACATAAATTTGTACA
1 AAAATTCTTGACACAAGGATTCATTAGTAGCACCAAAAATAATGTCATCAACATAAATTTGTACA
4110442 ATCAAAATGTCTTTTTCTTTTGATTTAATGAAAAGAGTTTTATCCACATTTCCTCTATTAAAACC
66 ATCAAAATGTCTTTTTCTTTTGATTTAATGAAAAGAGTTTTATCCACATTTCCTCTATTAAAACC
4110507 TTTTTCAGTC
131 TTTTTCAGTC
4110517 AAAA
1 AAAA
4110521 ACTTTGAAAG
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 142 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (140 bp):
AAAATTCTTGACACAAGGATTCATTAGTAGCACCAAAAATAATGTCATCAACATAAATTTGTACA
ATCAAAATGTCTTTTTCTTTTGATTTAATGAAAAGAGTTTTATCCACATTTCCTCTATTAAAACC
TTTTTCAGTC
Found at i:4115215 original size:13 final size:13
Alignment explanation
Indices: 4115197--4115223 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4115187 TACATTTTTG
4115197 AATGTATCGATAC
1 AATGTATCGATAC
4115210 AATGTATCGATAC
1 AATGTATCGATAC
4115223 A
1 A
4115224 TAATGTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4115242 original size:32 final size:32
Alignment explanation
Indices: 4115176--4115267 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 32
4115166 CGTTACAAGC
* *
4115176 CAATGTATCGATACAT-TTTTGAATGTATCGATA
1 CAATGTATCGATACATAATTTG--TGTATCAATA
*
4115209 CAATGTATCGATACATAATGTGTGTATCAATA
1 CAATGTATCGATACATAATTTGTGTATCAATA
*
4115241 CAACGTATCGATACATAATTTGTGTAT
1 CAATGTATCGATACATAATTTGTGTAT
4115268 TGATACAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 34 0.64
33 16 0.30
34 3 0.06
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATAATTTGTGTATCAATA
Found at i:4115363 original size:20 final size:21
Alignment explanation
Indices: 4115316--4115368 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4115306 GCCAATGACC
*
4115316 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
4115337 AGTATCGATACATT-TAGT-CA
1 TGTATCGATACATTCT-GTACA
4115357 TGTATCGATACA
1 TGTATCGATACA
4115369 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:4115374 original size:13 final size:13
Alignment explanation
Indices: 4115356--4115380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4115346 ACATTTAGTC
4115356 ATGTATCGATACA
1 ATGTATCGATACA
4115369 ATGTATCGATAC
1 ATGTATCGATAC
4115381 TGTATGATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4115394 original size:20 final size:19
Alignment explanation
Indices: 4115369--4115423 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
4115359 TATCGATACA
4115369 ATGTATCGATACTGTATG-AT
1 ATGTATCGATACT-T-TGAAT
*
4115389 ATGTATCAATACATTTGAAT
1 ATGTATCGATAC-TTTGAAT
*
4115409 GTGTATCGATACTTT
1 ATGTATCGATACTTT
4115424 TTAGGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 5 0.17
20 24 0.80
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACTTTGAAT
Found at i:4115784 original size:42 final size:42
Alignment explanation
Indices: 4115681--4115784 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
4115671 GTCTTTAGGG
* * * *
4115681 TCAAAGCCAACAGGCAGATTTTAGATGAGACAGTTTCCAAGG
1 TCAAAGCCAACAGGCAGACTTTAGATAAGACAGTCTCCAAGA
* * *
4115723 TCAAAGCCAACAAGCAGACTTTAGATAAGGCAGTCTGCAAGA
1 TCAAAGCCAACAGGCAGACTTTAGATAAGACAGTCTCCAAGA
* *
4115765 TCAAAGCCGACAGGTAGACT
1 TCAAAGCCAACAGGCAGACT
4115785 GAGGGGTAGG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (42 bp):
TCAAAGCCAACAGGCAGACTTTAGATAAGACAGTCTCCAAGA
Found at i:4129119 original size:16 final size:16
Alignment explanation
Indices: 4129098--4129135 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
4129088 AAAGAAACAT
4129098 ATCAATAATCTTTCAA
1 ATCAATAATCTTTCAA
4129114 ATCAATAATCTTTCAA
1 ATCAATAATCTTTCAA
4129130 ATCAAT
1 ATCAAT
4129136 CTTAAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (16 bp):
ATCAATAATCTTTCAA
Found at i:4130093 original size:27 final size:26
Alignment explanation
Indices: 4130045--4130098 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
4130035 ATTTATTTAC
4130045 TTTTATTTTTTATATATTTAAAATAT
1 TTTTATTTTTTATATATTTAAAATAT
*
4130071 TTTTA-TTTTTATAT-TTTAATAAAAT
1 TTTTATTTTTTATATATTTAA-AATAT
4130096 TTT
1 TTT
4130099 AATTAAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTATTTTTTATATATTTAAAATAT
Found at i:4130124 original size:166 final size:167
Alignment explanation
Indices: 4129807--4130132 Score: 494
Period size: 166 Copynumber: 2.0 Consensus size: 167
4129797 ATATTTTTAA
* ** * *
4129807 TTTCATTGTTGCAATTTATAATTTTGAAATCCATTAAAAATTATTATAATATAATATCTTGATCT
1 TTTCATTGTTGCAACTTATAATTTCAAAATCCATTAAAAATTATCATAACATAATATCTTGATCT
* * * *
4129872 GTTTACTTTTCTTTTTCTCTATATTTAATATATTTTTATTTTTATATTTCAATAAAATTTTAATT
66 ATTTACTTTTATTTTTCTATATATTTAAAATATTTTTATTTTTATATTTCAATAAAATTTTAATT
4129937 AAATATGACTCGAACAAATAATTTATTTAACTTCTAC
131 AAATATGACTCGAACAAATAATTTATTTAACTTCTAC
* * * *
4129974 TTTCATTGTTGCAACTTATAATTTCAAAATCCATTAGAAATTATCCTAACATATTATCTTGATTT
1 TTTCATTGTTGCAACTTATAATTTCAAAATCCATTAAAAATTATCATAACATAATATCTTGATCT
*
4130039 ATTTACTTTTATTTTT-TATATATTTAAAATATTTTTATTTTTATATTTTAATAAAATTTTAATT
66 ATTTACTTTTATTTTTCTATATATTTAAAATATTTTTATTTTTATATTTCAATAAAATTTTAATT
*
4130103 AAATGTGACTCGAGA-AAATAATTTATTTAA
131 AAATATGACTCGA-ACAAATAATTTATTTAA
4130133 ATTTAATTTG
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
166 72 0.50
167 71 0.50
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.51
Consensus pattern (167 bp):
TTTCATTGTTGCAACTTATAATTTCAAAATCCATTAAAAATTATCATAACATAATATCTTGATCT
ATTTACTTTTATTTTTCTATATATTTAAAATATTTTTATTTTTATATTTCAATAAAATTTTAATT
AAATATGACTCGAACAAATAATTTATTTAACTTCTAC
Found at i:4130329 original size:54 final size:53
Alignment explanation
Indices: 4130271--4130374 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
4130261 AACCAAACCT
* * * *
4130271 AAAATGACTTGAATTTGATTTAACCCGAGTGTTAAA-CTTGATTGACTCAAATTC
1 AAAATGACTCGAACTCGA-TTAACCCAAGTGTTAAATC-TGATTGACTCAAATTC
**
4130325 AAAATGACTCGAACTCGATTAACTTAAGTGTTAAATCTGATTGACTCAAA
1 AAAATGACTCGAACTCGATTAACCCAAGTGTTAAATCTGATTGACTCAAA
4130375 CCCTAAACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
53 27 0.63
54 16 0.37
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (53 bp):
AAAATGACTCGAACTCGATTAACCCAAGTGTTAAATCTGATTGACTCAAATTC
Found at i:4130421 original size:16 final size:15
Alignment explanation
Indices: 4130392--4130434 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
4130382 CATCTTAAAT
*
4130392 TTGAAATAACTCAAAA
1 TTGAAATGACTC-AAA
*
4130408 TTGAAATGATTCAAA
1 TTGAAATGACTCAAA
4130423 TCTGAAATGACT
1 T-TGAAATGACT
4130435 TAAAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (15 bp):
TTGAAATGACTCAAA
Found at i:4133160 original size:2 final size:2
Alignment explanation
Indices: 4133153--4133195 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4133143 TACCCATAAT
4133153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4133194 TA
1 TA
4133196 AGATGGCCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4134287 original size:16 final size:16
Alignment explanation
Indices: 4134266--4134296 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4134256 TATATATATA
4134266 TATATATATTTAAATT
1 TATATATATTTAAATT
4134282 TATATATATTTAAAT
1 TATATATATTTAAAT
4134297 AATAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATATTTAAATT
Found at i:4134306 original size:8 final size:8
Alignment explanation
Indices: 4134293--4134322 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
4134283 ATATATATTT
4134293 AAATAATA
1 AAATAATA
4134301 AAATAATA
1 AAATAATA
4134309 AAATAATA
1 AAATAATA
4134317 AAATAA
1 AAATAA
4134323 ACAAATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:4134798 original size:24 final size:24
Alignment explanation
Indices: 4134771--4134817 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4134761 TCATATTTAA
* *
4134771 AATTAATCTTCAAACTT-CAAAATC
1 AATTAAACCTCAAA-TTACAAAATC
4134795 AATTAAACCTCAAATTACAAAAT
1 AATTAAACCTCAAATTACAAAAT
4134818 TTAGTATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (24 bp):
AATTAAACCTCAAATTACAAAATC
Found at i:4135813 original size:19 final size:19
Alignment explanation
Indices: 4135791--4135830 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4135781 AATAAATATT
*
4135791 TTATATGTTTATAAATTAA
1 TTATATGTTTACAAATTAA
* *
4135810 TTATATTTTTGCAAATTAA
1 TTATATGTTTACAAATTAA
4135829 TT
1 TT
4135831 CAGATTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATATGTTTACAAATTAA
Found at i:4137428 original size:32 final size:32
Alignment explanation
Indices: 4137383--4137473 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 32
4137373 CAACACTATC
4137383 TTTCAA-GGCTAAGATAGAAACCTCCCTATC-T
1 TTTCAAGGGCTAAGATAG-AACCTCCCTATCTT
* *
4137414 TTTCACGGGCTAAGATAGAACTTTTCTCTCTATCTT
1 TTTCAAGGGCTAAGATAGAAC----CTCCCTATCTT
4137450 TTTCAAGGGCTAAGATAGAACCTC
1 TTTCAAGGGCTAAGATAGAACCTC
4137474 ACAATCACTT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
31 8 0.16
32 14 0.27
35 8 0.16
36 21 0.41
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (32 bp):
TTTCAAGGGCTAAGATAGAACCTCCCTATCTT
Found at i:4137942 original size:13 final size:13
Alignment explanation
Indices: 4137924--4137950 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4137914 TACTATTCAT
4137924 AATGTATCGATAC
1 AATGTATCGATAC
4137937 AATGTATCGATAC
1 AATGTATCGATAC
4137950 A
1 A
4137951 TGAACAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4138073 original size:20 final size:20
Alignment explanation
Indices: 4138037--4138086 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4138027 GTATCGATAC
4138037 ATGAATAGT-ACGAACAGTG
1 ATGAATAGTGACGAACAGTG
*
4138056 ATGAATAGTGATGAACAGTG
1 ATGAATAGTGACGAACAGTG
**
4138076 AAAAATAGTGA
1 ATGAATAGTGA
4138087 AAAATGAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.46, C:0.06, G:0.26, T:0.22
Consensus pattern (20 bp):
ATGAATAGTGACGAACAGTG
Found at i:4138132 original size:13 final size:13
Alignment explanation
Indices: 4138114--4138138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4138104 CTGCCAGTTT
4138114 ATGTATCGATACA
1 ATGTATCGATACA
4138127 ATGTATCGATAC
1 ATGTATCGATAC
4138139 TAAGCAAAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4139042 original size:30 final size:31
Alignment explanation
Indices: 4138986--4139053 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
4138976 TTCATGCAAC
* *
4138986 TAATACCAAAAGTTTATGCAAGCTCTCCCCCT
1 TAATA-CAAAAGTTTATACAAACTCTCCCCCT
4139018 TAATACAAAA-TTTATACAAACTCTCCCCCT
1 TAATACAAAAGTTTATACAAACTCTCCCCCT
4139048 TAATAC
1 TAATAC
4139054 GTTGTCACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 24 0.71
31 5 0.15
32 5 0.15
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.29
Consensus pattern (31 bp):
TAATACAAAAGTTTATACAAACTCTCCCCCT
Found at i:4141619 original size:21 final size:21
Alignment explanation
Indices: 4141595--4141635 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4141585 TTTTCTCCTC
* *
4141595 TAATTCATTTATTTTCTTTTT
1 TAATTCACTTAATTTCTTTTT
4141616 TAATTCACTTAATTTCTTTT
1 TAATTCACTTAATTTCTTTT
4141636 CAAGAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (21 bp):
TAATTCACTTAATTTCTTTTT
Found at i:4143756 original size:13 final size:13
Alignment explanation
Indices: 4143738--4143762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4143728 CTATTCATAA
4143738 TGTATCGATACAC
1 TGTATCGATACAC
4143751 TGTATCGATACA
1 TGTATCGATACA
4143763 TGAACAACAA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4147524 original size:20 final size:20
Alignment explanation
Indices: 4147493--4147567 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
4147483 AAAAAGACAT
*
4147493 AATGTTTCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* * *
4147513 AATATATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
4147533 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
4147553 AATGTATCGATACAT
1 AATGTATCGATACAT
4147568 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:4147554 original size:40 final size:39
Alignment explanation
Indices: 4147490--4147567 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
4147480 GGTAAAAAGA
*
4147490 CATAATGTTTCGATACATTGAAAAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4147529 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4147568 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4148264 original size:28 final size:28
Alignment explanation
Indices: 4148170--4149216 Score: 1163
Period size: 28 Copynumber: 36.6 Consensus size: 28
4148160 CAGCGACACG
* * *
4148170 TGTGGGCTTTGAAAAGAGTTACTACTGGCT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
* *
4148200 TGTGGGCTTTGAAAAGAGTGTCATTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
*
4148229 TGTGGGCTTTGAAAATGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
4148257 TGTGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
4148285 TGTGGGCTTTGAAAAAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
**
4148313 TGTGGGC-TTGAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
4148340 TGTGGGC-TTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
** * *
4148367 CATGAGCTTTGAAAGGGTGCCACTGAC-
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
4148394 TATAGGCTTTGAAAGGTGTGCCACTAACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
4148423 TGCGTGGGCTTTGAAAAGAGTGCCACTGACT
1 T--GTGGGCTTTGAAAAG-GTGCCACTGACT
4148454 TGCGTGGGCTTT-AAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAA-GGTGCCACTGACT
4148484 TGCGTGGGCTTTG-AAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAAGG-TGCCACTGACT
*
4148514 TGTGGGCTTTG-AAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
4148542 TGTGGGCTTT-AAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4148569 TGCGTGGGCTTTAAAAAGGTGCCACTAACT
1 T--GTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
4148599 TGCGTCGGCATTGAAAAGATGCCACTGATT
1 T--GTGGGCTTTGAAAAGGTGCCACTGACT
*
4148629 TGTGGGCTTTG-AAAGAGTGCCACTGACC
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
4148657 TGTGGGCTTTGAAATGAGTTGCCACTCACTT
1 TGTGGGCTTTGAAA--AGGTGCCACTGAC-T
4148688 GTGTGGGCTTTG-AAAGGAATGCCACTGACTT
1 -TGTGGGCTTTGAAAAGG--TGCCACTGAC-T
4148719 GTGTGGGCTTTG-AAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
4148748 TATGGGCTTTG-AAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * * *
4148776 CGTGGTC-TTGAAAAGGTTCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
4148803 TGTGGGCTTT-AAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
* *
4148831 TGTAGGCTTTG-AAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * * *
4148859 TGTCGGCTTTGAAAAGAGTGCCATTAAAT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
4148888 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
*
4148917 TGTGGGCTTCGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4148945 TGTGGGATTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
4148973 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4149001 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
4149029 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
4149058 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
4149087 TGTGGGCTTTG-AAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
4149115 TGTGGGCTTTGAAAGGGTGCAACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
4149143 TGTGTGGACTTTGAAAGGGTGCCACTGACT
1 TGTG-GG-CTTTGAAAAGGTGCCACTGACT
* *
4149173 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
4149201 TGTGGGCTTTGAAAAG
1 TGTGGGCTTTGAAAAG
4149217 AGTGTCGTAG
Statistics
Matches: 898, Mismatches: 83, Indels: 74
0.85 0.08 0.07
Matches are distributed among these distances:
27 103 0.11
28 414 0.46
29 154 0.17
30 148 0.16
31 68 0.08
32 11 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:4148587 original size:86 final size:84
Alignment explanation
Indices: 4148170--4149220 Score: 1130
Period size: 86 Copynumber: 12.2 Consensus size: 84
4148160 CAGCGACACG
* * * * *
4148170 TGTGGGCTTTGAAAAGAGTTACTACTGGCTTGTGGGCTTTGAAAAGAGTGTCATTGACTTGTGGG
1 TGTGGGCTTTG-AAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGG
*
4148235 CTTTGAAAATG-TGCCACTGACT
63 CTTTG-AAAGGATGCCACTGACT
* * *
4148257 TGTGGGCTTTGAAAG-GATGCCACTAACTTGTGGGCTTTGAAAAAGTGCCACTAACTTGTGGGC-
1 TGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
**
4148320 TTGAAAAAATGCCACTGACT
65 TTGAAAGGATGCCACTGACT
** * * * *
4148340 TGTGGGC-TTGAAA-AGGTGCCACTGACTCATGAGCTTTGAAAGGGTGCCACTGAC-TATAGGCT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
* *
4148402 TTGAAAGGTGTGCCACTAACT
65 TTGAAAGG-ATGCCACTGACT
4148423 TGCGTGGGCTTTGAAAAGAGTGCCACTGACTTGCGTGGGCTTT-AAAAGGGTGCCACTGACTTGC
1 T--GTGGGCTTTG-AAAGAGTGCCACTGACTT--GTGGGCTTTGAAAA-GGTGCCACTGACTT--
4148487 GTGGGCTTTGAAAGGATGCCACTGACT
58 GTGGGCTTTGAAAGGATGCCACTGACT
*
4148514 TGTGGGCTTTGAAAGAGTGCCATTGACTTGTGGGCTTT-AAAAGGTGCCACTGACTTGCGTGGGC
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTT--GTGGGC
* *
4148578 TTTAAAAAGG-TGCCACTAACT
64 TTT-GAAAGGATGCCACTGACT
* * * *
4148599 TGCGTCGGCATTGAAA-AGATGCCACTGATTTGTGGGCTTTG-AAAGAGTGCCACTGACCTGTGG
1 T--GTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGG
* *
4148662 GCTTTGAAATGAGTTGCCACTCACTT
62 GCTTTGAAA-G-GATGCCACTGAC-T
* *
4148688 GTGTGGGCTTTGAAAGGAATGCCACTGACTTGTGTGGGCTTTG-AAAGGATGCCACTGACTTATG
1 -TGTGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTG
4148752 GGCTTTGAAA-GAGTGCCACTGACT
61 GGCTTTGAAAGGA-TGCCACTGACT
* * * * * *
4148776 CGTGGTC-TTGAAA-AGGTTCCATTGACTTGTGGGCTTT-AAAATAGTGCCACTGACTTGTAGGC
1 TGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGC
*
4148838 TTTGAAAGAATGCCACTGACT
64 TTTGAAAGGATGCCACTGACT
* * * *
4148859 TGTCGGCTTTGAAAAGAGTGCCATTAAATTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGC
*
4148924 TTCGAAAAGG-TGCCACTGACT
64 TTTG-AAAGGATGCCACTGACT
* * * *
4148945 TGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
*
4149010 TGAAAGGGTGCCACTGACT
66 TGAAAGGATGCCACTGACT
4149029 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGC
4149094 TTTGAAA-GAGTGCCACTGACT
64 TTTGAAAGGA-TGCCACTGACT
* * *
4149115 TGTGGGCTTTGAAAGGGTGCAACTGACTTGTGTGGACTTTGAAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTG-GG-CTTTGAAAAGGTGCCACTGACTTGTGGGC
* *
4149180 TTTGAAAGGGTGCCACTAACT
64 TTTGAAAGGATGCCACTGACT
4149201 TGTGGGCTTTGAAAAGAGTG
1 TGTGGGCTTTG-AAAGAGTG
4149221 TCGTAGTTTT
Statistics
Matches: 824, Mismatches: 89, Indels: 102
0.81 0.09 0.10
Matches are distributed among these distances:
81 5 0.01
82 46 0.06
83 89 0.11
84 65 0.08
85 176 0.21
86 187 0.23
87 86 0.10
88 55 0.07
89 48 0.06
90 5 0.01
91 49 0.06
92 13 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (84 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTGACT
Found at i:4150203 original size:10 final size:10
Alignment explanation
Indices: 4150167--4150242 Score: 71
Period size: 11 Copynumber: 6.9 Consensus size: 10
4150157 TCTAGACCCC
4150167 TTTTTTTTGCT
1 TTTTTTTTG-T
4150178 ATTTTTTCTTGGT
1 -TTTTTT-TT-GT
*
4150191 TTTTTTGTTTT
1 TTTTTT-TTGT
4150202 TTTTGTTTTGT
1 TTTT-TTTTGT
4150213 TTTTGTTTTGT
1 TTTT-TTTTGT
*
4150224 TTTGTTTTGT
1 TTTTTTTTGT
4150234 TTTTTTTTG
1 TTTTTTTTG
4150243 GGTGTAAAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
10 14 0.25
11 22 0.39
12 16 0.29
13 3 0.05
14 1 0.02
ACGTcount: A:0.01, C:0.03, G:0.14, T:0.82
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:4150210 original size:5 final size:5
Alignment explanation
Indices: 4150193--4150242 Score: 75
Period size: 5 Copynumber: 10.0 Consensus size: 5
4150183 TTCTTGGTTT
*
4150193 TTTTG TTTT- TTTTG TTTTG TTTTTG TTTTG TTTTG TTTTG TTTTT TTTTG
1 TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
4150243 GGTGTAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 4 0.10
5 32 0.78
6 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:4150227 original size:21 final size:21
Alignment explanation
Indices: 4150192--4150242 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
4150182 TTTCTTGGTT
4150192 TTTTTGTTTT-TTTTGTTTTG
1 TTTTTGTTTTGTTTTGTTTTG
4150212 TTTTTGTTTTGTTTTGTTTTG
1 TTTTTGTTTTGTTTTGTTTTG
4150233 TTTTT-TTTTG
1 TTTTTGTTTTG
4150243 GGTGTAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (21 bp):
TTTTTGTTTTGTTTTGTTTTG
Found at i:4159243 original size:20 final size:21
Alignment explanation
Indices: 4159212--4159250 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4159202 ATGATTTCCC
4159212 TTGTGAATGTATCGATACAAT
1 TTGTGAATGTATCGATACAAT
4159233 TTGTG-ATGTATCGATACA
1 TTGTGAATGTATCGATACA
4159251 TGCATTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
TTGTGAATGTATCGATACAAT
Found at i:4159330 original size:13 final size:13
Alignment explanation
Indices: 4159312--4159336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4159302 CATTTTATGG
4159312 TGTATCGATACAA
1 TGTATCGATACAA
4159325 TGTATCGATACA
1 TGTATCGATACA
4159337 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4159352 original size:32 final size:33
Alignment explanation
Indices: 4159289--4159356 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
4159279 CGTTACAAGC
**
4159289 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
4159322 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
4159354 CAA
1 CAA
4159357 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:4167759 original size:50 final size:51
Alignment explanation
Indices: 4167693--4167836 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 51
4167683 AAAGTCACAT
* *
4167693 TTTTTACTTAGATGTATCGATATATTTTTCAATGTATTGATACATTTAGTC
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATTGATACATTTAGTC
4167744 -TTTTACCTAGATGTATCGATACATTTTATCAA--TA-T-AT---TTTA-TC
1 TTTTTACCTAGATGTATCGATACATTTT-TCAATGTATTGATACATTTAGTC
* * * *
4167787 TTTTTACCCAGATGTATGGATACATTTTTCAATGTATCGATACATCTAGT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATTGATACATTTAGT
4167837 TAAAATTAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
43 6 0.08
44 29 0.38
45 2 0.03
47 4 0.05
48 1 0.01
49 2 0.03
50 28 0.36
51 5 0.06
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.47
Consensus pattern (51 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATTGATACATTTAGTC
Found at i:4173549 original size:13 final size:13
Alignment explanation
Indices: 4173531--4173556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4173521 CAATTTTTTG
4173531 TGTATCGATACAT
1 TGTATCGATACAT
4173544 TGTATCGATACAT
1 TGTATCGATACAT
4173557 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4175943 original size:21 final size:21
Alignment explanation
Indices: 4175919--4175965 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4175909 TTTGATGCTG
4175919 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
4175939 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
4175960 ATTTTG
1 ATTTTG
4175966 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:4176104 original size:13 final size:13
Alignment explanation
Indices: 4176086--4176124 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
4176076 ATAATCACCC
* *
4176086 TGTATCGATATAG
1 TGTATCGATACAA
4176099 TGTATCGATACAA
1 TGTATCGATACAA
4176112 TGTATCGATACAA
1 TGTATCGATACAA
4176125 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4176135 original size:20 final size:20
Alignment explanation
Indices: 4176110--4176188 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
4176100 GTATCGATAC
4176110 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
4176130 AATGTATCGATA-AATAGAATTTCCA
1 AATGTATCGATACAA-AGAA-----A
* *
4176155 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
4176175 CATGTATCGATACA
1 AATGTATCGATACA
4176189 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.04
20 30 0.61
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:4178228 original size:15 final size:15
Alignment explanation
Indices: 4178208--4178238 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4178198 ATTTCGTTTG
*
4178208 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4178223 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4178238 G
1 G
4178239 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4180071 original size:21 final size:21
Alignment explanation
Indices: 4180042--4180086 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4180032 AAGTTTTCAT
*
4180042 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4180062 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4180084 TTT
1 TTT
4180087 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4182322 original size:13 final size:13
Alignment explanation
Indices: 4182304--4182329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4182294 CAATTTTTTG
4182304 TGTATCGATACAT
1 TGTATCGATACAT
4182317 TGTATCGATACAT
1 TGTATCGATACAT
4182330 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4194957 original size:58 final size:59
Alignment explanation
Indices: 4194877--4194991 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
4194867 TGAATAGTAC
* *
4194877 ATGTATCGATACATT-T-TGTTTTTTACCCAGATGTATTGATATATTTTTCAATGTATGA
1 ATGTATCGATACATTCTAT-TTTTTTACCCAGATGTATCGATACATTTTTCAATGTATGA
*
4194935 ATGTATCTG-TACATTCTATTTTTTTACCCCGATGTATCGATACATTTTTCAATGTAT
1 ATGTATC-GATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCAATGTAT
4194992 TGATACATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 13 0.25
59 37 0.73
60 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (59 bp):
ATGTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATGA
Found at i:4201413 original size:48 final size:48
Alignment explanation
Indices: 4201251--4201406 Score: 240
Period size: 48 Copynumber: 3.2 Consensus size: 48
4201241 CACTGTGCCA
* * *
4201251 ATTCAAGGCCAACGACATCGAGCTAAGAGAAAAGTGGACAATGTGCTG
1 ATTCAAGGCCAGCAACATCGAGCTAAGGGAAAAGTGGACAATGTGCTG
*
4201299 ATTCAAGGCCAGCAACATCGAGCTAAGGGAAAAGTGGACAATGTGCTA
1 ATTCAAGGCCAGCAACATCGAGCTAAGGGAAAAGTGGACAATGTGCTG
* * *
4201347 ATTCAAGGCCAGTAACATTGAGCTAAGGGAAAAGTAGACAATGTGCTG
1 ATTCAAGGCCAGCAACATCGAGCTAAGGGAAAAGTGGACAATGTGCTG
*
4201395 ATTTAAGGCCAG
1 ATTCAAGGCCAG
4201407 TGACATTATG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (48 bp):
ATTCAAGGCCAGCAACATCGAGCTAAGGGAAAAGTGGACAATGTGCTG
Found at i:4201556 original size:32 final size:33
Alignment explanation
Indices: 4201489--4201607 Score: 122
Period size: 32 Copynumber: 3.7 Consensus size: 33
4201479 TGGTGATTTG
* * *
4201489 AAAAAGGTTGCCA-TCGACTTGCGTGGGATTCTA
1 AAAAAAGTTGCCACTCGACTTGTGTGGGCTT-TA
*
4201522 AAAAAAGTTGCCACTC-ACTTATGTGGGCTTTA
1 AAAAAAGTTGCCACTCGACTTGTGTGGGCTTTA
* * *
4201554 AAAAGAGTTACCAC-CGACTTGTGTGGGCTTTG
1 AAAAAAGTTGCCACTCGACTTGTGTGGGCTTTA
*
4201586 AAAAGAG-TGCCACT-GACTTGTG
1 AAAAAAGTTGCCACTCGACTTGTG
4201608 GGCTATGAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
31 14 0.19
32 35 0.47
33 23 0.31
34 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (33 bp):
AAAAAAGTTGCCACTCGACTTGTGTGGGCTTTA
Found at i:4201684 original size:87 final size:89
Alignment explanation
Indices: 4201543--4201815 Score: 251
Period size: 87 Copynumber: 3.2 Consensus size: 89
4201533 CACTCACTTA
* ** * *
4201543 TGTGGGCTTTAAAAAGAGTTACCACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGAGTTACCACCGACTTGCATGGGCTTTAAAAAGAGTGCCACCGACTTGTG
* * *
4201608 GGCTATGAAAAGG-TGTCACTGACT
66 GACTATG-AAAGGATGCCACTAACT
* *
4201632 TGTGGGCTTTGAAAATAGTTACCATCGAC-T-CATGGGCTTTAAAAAG-GATGCCACCGACTTGT
1 TGTGGGCTTTGAAAAGAGTTACCACCGACTTGCATGGGCTTTAAAAAGAG-TGCCACCGACTTGT
4201694 GGACTATGAAAGGATGCCACTAACT
65 GGACTATGAAAGGATGCCACTAACT
* * * * * ** * *
4201719 TGTGAGCTTTG-AAAG-GGTGCCACTGATTTG--TAAGCTTTGAAAAGAGTGCCA-TGACTTGTG
1 TGTGGGCTTTGAAAAGAGTTACCACCGACTTGCATGGGCTTTAAAAAGAGTGCCACCGACTTGTG
* * * *
4201779 GGCTTTGAAAGGGTGCCAC-GACT
66 GACTATGAAAGGATGCCACTAACT
4201802 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
4201816 GGATGCCACT
Statistics
Matches: 152, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
83 13 0.09
84 26 0.17
85 23 0.15
86 11 0.07
87 52 0.34
88 1 0.01
89 26 0.17
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (89 bp):
TGTGGGCTTTGAAAAGAGTTACCACCGACTTGCATGGGCTTTAAAAAGAGTGCCACCGACTTGTG
GACTATGAAAGGATGCCACTAACT
Found at i:4201693 original size:59 final size:57
Alignment explanation
Indices: 4201545--4201815 Score: 199
Period size: 56 Copynumber: 4.7 Consensus size: 57
4201535 CTCACTTATG
* * **
4201545 TGGGCTTTAAAAAGAGTTACCACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTAAAAAG-G-TGCCACCGAC-T-TGTGGGCTTTGAAAAGAGTACCACTGACTCA
* * * * *
4201606 TGGGCTATGAAAAGGTGTCACTGACTTGTGGGCTTTGAAAATAGTTACCA-TCGACTCA
1 TGGGCTTTAAAAAGGTGCCACCGACTTGTGGGCTTTGAAAAGAG-TACCACT-GACTCA
* * * * * **
4201664 TGGGCTTTAAAAAGGATGCCACCGACTTGTGGACTATGAAAGGA-TGCCACTAACTTG
1 TGGGCTTTAAAAAGG-TGCCACCGACTTGTGGGCTTTGAAAAGAGTACCACTGACTCA
* * * * * ** * **
4201721 TGAGCTTTGAAAGGGTGCCACTGATTTGTAAGCTTTGAAAAGAGTGCCA-TGACTTG
1 TGGGCTTTAAAAAGGTGCCACCGACTTGTGGGCTTTGAAAAGAGTACCACTGACTCA
* *
4201777 TGGGCTTTGAAAGGGTGCCA-CGACTTGTGGGCTTTGAAA
1 TGGGCTTTAAAAAGGTGCCACCGACTTGTGGGCTTTGAAA
4201816 GGATGCCACT
Statistics
Matches: 168, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
55 15 0.09
56 46 0.27
57 42 0.25
58 23 0.14
59 29 0.17
60 1 0.01
61 12 0.07
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (57 bp):
TGGGCTTTAAAAAGGTGCCACCGACTTGTGGGCTTTGAAAAGAGTACCACTGACTCA
Found at i:4201760 original size:56 final size:55
Alignment explanation
Indices: 4201674--4201862 Score: 204
Period size: 56 Copynumber: 3.3 Consensus size: 55
4201664 TGGGCTTTAA
* * *
4201674 AAAGGATGCCACCGACTTGT-GGACTATGAAAGGATGCCACTAACTTGTGAGCTTTG
1 AAAGGGTGCCA-CGACTTGTAAG-CTTTGAAAGGATGCCACTAACTTGTGAGCTTTG
* * * *
4201730 AAAGGGTGCCACTGATTTGTAAGCTTTGAAAAGAGTGCCA-TGACTTGTGGGCTTTG
1 AAAGGGTGCCAC-GACTTGTAAGCTTTGAAAGGA-TGCCACTAACTTGTGAGCTTTG
**
4201786 AAAGGGTGCCACGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT-AGGCTTTG
1 AAAGGGTGCCACGACTTGTAAGCTTTGAAAGGATGCCACTAACTTGTGA-GCTTTG
4201841 AAATGGGTTGCCACCGACTTGT
1 AAA-GGG-TGCCA-CGACTTGT
4201863 GTGGTTTTTG
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
54 5 0.04
55 34 0.30
56 54 0.48
57 11 0.10
58 8 0.07
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (55 bp):
AAAGGGTGCCACGACTTGTAAGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTG
Found at i:4202084 original size:154 final size:156
Alignment explanation
Indices: 4201802--4202189 Score: 609
Period size: 154 Copynumber: 2.5 Consensus size: 156
4201792 TGCCACGACT
* *
4201802 TGTGGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
** * * * *
4201867 TTTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAATTTATGTGGG
66 GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAATTTATGTGGG
* *
4201932 -TTTCAAATGAGTTGCCATCGATTTG
131 CTTTAAAATGAGTTGCCACCGATTTG
* * *
4201957 TGTGGGCTTTGAAATAATGCCACTGACTTGT-GGCTTTGAAATAGGTTGCCACCTACTTGTGTGG
1 TGTGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
* * *
4202021 GCTTTGAAATGGGTTGCTACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCGATTTGTGTGGG
66 GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAATTTATGTGGG
4202086 CTTTAAAATGAGTTGCCACCGATTTG
131 CTTTAAAATGAGTTGCCACCGATTTG
*
4202112 TGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
4202177 GCTTTGAAATGGG
66 GCTTTGAAATGGG
4202190 CTTTGAAACG
Statistics
Matches: 212, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
154 87 0.41
155 81 0.38
156 44 0.21
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (156 bp):
TGTGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAATTTATGTGGG
CTTTAAAATGAGTTGCCACCGATTTG
Found at i:4202189 original size:32 final size:32
Alignment explanation
Indices: 4201528--4202371 Score: 443
Period size: 32 Copynumber: 28.0 Consensus size: 32
4201518 TCTAAAAAAA
* * * *
4201528 GTTGCCACTC-ACTTATGTGGGCTTTAAAAAGA
1 GTTGCCAC-CGACTTGTGTGGGCTTTGAAATGG
* * *
4201560 GTTACCACCGACTTGTGTGGGCTTTGAAAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * *
4201592 G-TGCCACTGAC-T-TGTGGGCTATGAAA-AG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * *
4201620 G-TGTCACTGAC-T-TGTGGGCTTTGAAAAT-A
1 GTTGCCACCGACTTGTGTGGGCTTTG-AAATGG
* * ** **
4201649 GTTACCATCGAC-T-CATGGGCTTT-AAAAAG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * *
4201678 GATGCCACCGAC-T-TGTGGACTATGAAA--G
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* ** *
4201706 GATGCCACTAAC-T-TGTGAGCTTTGAAA-GG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* ** * *
4201735 G-TGCCACTGA-TT-TGTAAGCTTTGAAAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
4201764 G-TGCCA-TGAC-T-TGTGGGCTTTGAAA-GG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
4201791 G-TGCCA-CGAC-T-TGTGGGCTTTGAAA--G
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* ** *
4201817 GATGCCACTAAC-T-TGTAGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
** *
4201847 GTTGCCACCGACTTGTGTGGTTTTTGAAATAG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
4201879 GTTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * * * *
4201911 GTTGCCACCAATTTATGTGGG-TTTCAAATGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* *
4201942 GTTGCCATCGATTTGTGTGGGCTTTGAAAT--
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
** * *
4201972 AATGCCACTGAC-T-TGT-GGCTTTGAAATAG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
4202001 GTTGCCACCTACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * * *
4202033 GTTGCTACCAACTTGTGTGGGCTTTCAAATGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * * *
4202065 GTTACCACCGATTTGTGTGGGCTTTAAAATGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
4202097 GTTGCCACCGATTTGTGTGGGCTTTGAAAT--
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* *
4202127 GATGCCACTGAC-T-TGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
4202157 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * * * *** ** *
4202189 GCTTTG--A--AAC--GGGTTGCCACCGACTTGT
1 G--TTGCCACCGACTTGTGTGGGCTTTGAAATGG
* **
4202217 G-TG-----GGCTTTGAAATGGGCTTTGAAATGG
1 GTTGCCACCGAC-TTG-TGTGGGCTTTGAAATGG
*
4202245 GTTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * ** *
4202277 GTTGCCACCAATTTGTGTGGGCTTCCAAATGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* *
4202309 GTTTCCACTGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* * * *
4202341 GTTACCACCAACTTATGTGGGCTTTCAAATG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATG
4202372 ATGCCACGGA
Statistics
Matches: 646, Mismatches: 128, Indels: 76
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.00
25 2 0.00
26 2 0.00
27 42 0.07
28 137 0.21
29 54 0.08
30 58 0.09
31 40 0.06
32 303 0.47
33 3 0.00
34 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (32 bp):
GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
Found at i:4202205 original size:44 final size:44
Alignment explanation
Indices: 4202142--4202277 Score: 254
Period size: 44 Copynumber: 3.1 Consensus size: 44
4202132 CACTGACTTG
4202142 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
*
4202186 TGGGCTTTGAAACGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
*
4202230 TGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
4202274 TGGG
1 TGGG
4202278 TTGCCACCAA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.18, C:0.16, G:0.35, T:0.31
Consensus pattern (44 bp):
TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
Found at i:4202235 original size:12 final size:12
Alignment explanation
Indices: 4202218--4202245 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4202208 CCGACTTGTG
4202218 TGGGCTTTGAAA
1 TGGGCTTTGAAA
4202230 TGGGCTTTGAAA
1 TGGGCTTTGAAA
4202242 TGGG
1 TGGG
4202246 TTGCCACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.39, T:0.32
Consensus pattern (12 bp):
TGGGCTTTGAAA
Found at i:4206549 original size:57 final size:57
Alignment explanation
Indices: 4206486--4206600 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
4206476 TGCAAAAATC
* *
4206486 ACAAAAGTAAAACTTTACAACATGCAAATAATTGCAAAGAATAAAAGAGTGAGGGTA
1 ACAAAAGTAAAACTTTACAACATGCAAATAATTACAAAGAATAAAAGAATGAGGGTA
4206543 ACAAAAGTAAAACTTTACAACATGCAAATAATTACAAAGAATAAAAGAATGAGGGTA
1 ACAAAAGTAAAACTTTACAACATGCAAATAATTACAAAGAATAAAAGAATGAGGGTA
4206600 A
1 A
4206601 AGAATGAACC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (57 bp):
ACAAAAGTAAAACTTTACAACATGCAAATAATTACAAAGAATAAAAGAATGAGGGTA
Found at i:4211115 original size:20 final size:20
Alignment explanation
Indices: 4211082--4211157 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
4211072 TTTTTACCCA
4211082 AATGTATC-AGTACATTTTTC
1 AATGTATCGA-TACATTTTTC
* * * *
4211102 AATATATCGATACATGTATA
1 AATGTATCGATACATTTTTC
*
4211122 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
4211142 AATGTATCGATACATT
1 AATGTATCGATACATT
4211158 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 45 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:4211136 original size:40 final size:40
Alignment explanation
Indices: 4211081--4211156 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
4211071 ATTTTTACCC
*
4211081 AAATGTATCAGTACATTTTTCAATATATCGATACATGTAT
1 AAATGTATCAGTACATTCTTCAATATATCGATACATGTAT
*
4211121 AAATGTATC-GATACATTCTTCAATGTATCGATACAT
1 AAATGTATCAG-TACATTCTTCAATATATCGATACAT
4211157 TCTATCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (40 bp):
AAATGTATCAGTACATTCTTCAATATATCGATACATGTAT
Found at i:4225124 original size:16 final size:16
Alignment explanation
Indices: 4225100--4225139 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4225090 CTTTACACCC
*
4225100 AAAAAA-AAATAA-AA
1 AAAAAACAAAAAACAA
4225114 AAAAAACAAAAAACAA
1 AAAAAACAAAAAACAA
4225130 AAAAAACAAA
1 AAAAAACAAA
4225140 GGAAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 5 0.22
16 12 0.52
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAACAA
Found at i:4225125 original size:21 final size:21
Alignment explanation
Indices: 4225099--4225159 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
4225089 CCTTTACACC
4225099 CAAAAAAAAATAAAAAAAAAA
1 CAAAAAAAAATAAAAAAAAAA
* *
4225120 CAAAAAACAA-AAAAAACAAA
1 CAAAAAAAAATAAAAAAAAAA
** * *
4225140 GGAAAAATAGTAAAAAAAAA
1 CAAAAAAAAATAAAAAAAAA
4225160 CAGAAAGGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.05
Consensus pattern (21 bp):
CAAAAAAAAATAAAAAAAAAA
Found at i:4225136 original size:9 final size:9
Alignment explanation
Indices: 4225101--4225139 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
4225091 TTTACACCCA
*
4225101 AAAAAAAAT
1 AAAAAAAAC
4225110 AAAAAAAA-
1 AAAAAAAAC
4225118 AACAAAAAAC
1 AA-AAAAAAC
4225128 AAAAAAAAC
1 AAAAAAAAC
4225137 AAA
1 AAA
4225140 GGAAAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:4226217 original size:61 final size:61
Alignment explanation
Indices: 4226121--4226244 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
4226111 CATACATCAT
*
4226121 TTTTTTATAATATCACTTCAGACCAGGTCTACTGAACCACTACAGAATCTTTGGCAAAGAC
1 TTTTTTATAATATCACTTCAGACCAGGTCTACTGAACCACCACAGAATCTTTGGCAAAGAC
*
4226182 TTTTTTATAATATCACTTCAGACCAGGTCTGCTGAACCACCACAGAATCTTTGGCAAAGAC
1 TTTTTTATAATATCACTTCAGACCAGGTCTACTGAACCACCACAGAATCTTTGGCAAAGAC
4226243 TT
1 TT
4226245 CAAGCCCTAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (61 bp):
TTTTTTATAATATCACTTCAGACCAGGTCTACTGAACCACCACAGAATCTTTGGCAAAGAC
Found at i:4226408 original size:28 final size:28
Alignment explanation
Indices: 4226366--4227176 Score: 941
Period size: 28 Copynumber: 28.5 Consensus size: 28
4226356 ACGTTCATCT
* *
4226366 TTTCAAAGCCTACAAGTCAGTGGCAATC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4226394 TTTCAAATCCCACAAGTCAGTGGCAATC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4226422 TTTCAAAGCCCACAAGTTAGTTGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226450 TTTTCAAAGCCCATAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
4226479 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226507 TTTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
4226536 TTTCAAACCCCACAAGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226564 TTTCAAAGCCCACAAGTTAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
**
4226592 TTTTCAAAGCCCACAAGTTTGTGGCA-TC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226620 ATTTCAAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4226649 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4226677 TTTCAAAGCCTAAAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * **
4226705 TTTTCAAAGCCCACAAGTTAATGG-TGTCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
4226734 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
4226762 TTTCAAAGCCCACGCAGGTTAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTC
*
4226792 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
4226821 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4226849 TTTCAAATCCTACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226877 TTTTCAAAGCCCACAAGTCAGTGGCATTCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
4226907 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226935 TTTCAAAGCCTACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
4226963 TTTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
4226992 TTTCGAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
4227020 TTTCAAATCCCATGTAGGTCAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTC
* * *
4227050 TTTGAAAGCCCACAAGTTAGTGGTA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
* * *
4227078 TTTGAAAGCCCACAAGTTAGTGGTA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
*
4227106 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4227134 TTTCAAAGCCCACTAGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
4227162 TTTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
4227177 CGAGTCGATA
Statistics
Matches: 676, Mismatches: 85, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
28 419 0.62
29 206 0.30
30 51 0.08
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:4226468 original size:57 final size:57
Alignment explanation
Indices: 4226366--4227176 Score: 964
Period size: 57 Copynumber: 14.2 Consensus size: 57
4226356 ACGTTCATCT
* * * *
4226366 TTTCAAAGCCTACAAGTCAGTGGCAAT-CTTTCAAATCCCACAAGTCAGTGGCAATC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
4226422 TTTCAAAGCCCACAAGTTAGTTGCACTCTTTTCAAAGCCCATAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
4226479 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* * *
4226536 TTTCAAACCCCACAAGTCAGTGGCA-TTCTTTCAAAGCCCACAAGTTAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
** * *
4226592 TTTTCAAAGCCCACAAGTTTGTGGCA-TCATTTCAAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
4226649 TTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCTAAAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * ** * *
4226705 TTTTCAAAGCCCACAAGTTAATGG-TGTCCTTTTAAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
4226762 TTTCAAAGCCCACGCAGGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* * *
4226821 TTTCAAAGCTCACAAGTCAGTGGCAC-CCTTTCAAATCCTACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
4226877 TTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCTCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
4226935 TTTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* * * * *
4226992 TTTCGAAGCCCACAAGTCAGTGGCAC-CCTTTCAAATCCCATGTAGGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACTC
* * * * * *
4227050 TTTGAAAGCCCACAAGTTAGTGGTA-TCCTTTGAAAGCCCACAAGTTAGTGGTA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
4227106 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACTAGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
4227162 TTTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
4227177 CGAGTCGATA
Statistics
Matches: 648, Mismatches: 85, Indels: 43
0.84 0.11 0.06
Matches are distributed among these distances:
56 182 0.28
57 349 0.54
58 105 0.16
59 12 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (57 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:4226509 original size:85 final size:86
Alignment explanation
Indices: 4226363--4227176 Score: 1033
Period size: 85 Copynumber: 9.5 Consensus size: 86
4226353 AGAACGTTCA
* * * **
4226363 TCTTTTCAAAGCCTACAAGTCAGTGGCAAT-CTTTCAAATCCCACAAGTCAGTGGCAATCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
4226427 AAGCCCACAAGTTAGTTGCAC
66 AAGCCCACAAGTCAGTGGCAC
* * *
4226448 TCTTTTCAAAGCCCATAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
*
4226512 AAAGCCCACAAGTTAGTGGCA-
65 AAAGCCCACAAGTCAGTGGCAC
* * * *
4226533 TCCTTTCAAACCCCACAAGTCAGTGGCATT-CTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
**
4226597 AAAGCCCACAAGTTTGTGGCA-
65 AAAGCCCACAAGTCAGTGGCAC
* * *
4226618 TCATTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
4226682 AAGCCTAAAAGTCAGTGGCAC
66 AAGCCCACAAGTCAGTGGCAC
* * *
4226703 TCTTTTCAAAGCCCACAAGTTAATGG--TGTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCAT-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* *
4226766 AAAGCCCACGCAGGTTAGTGGCAC
65 AAAGCCCA--CAAGTCAGTGGCAC
* *
4226790 -CCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
4226854 AATCCTACAAGTCAGTGGCAC
66 AAGCCCACAAGTCAGTGGCAC
*
4226875 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
4226940 AAGCCTACAAGTCAGTGGCAC
66 AAGCCCACAAGTCAGTGGCAC
* *
4226961 TCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCGAAGCCCACAAGTCAGTGGCACCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * *
4227025 AATCCCATGTAGGTCAGTGGCAC
66 AAGCCCA--CAAGTCAGTGGCAC
* * * * * * * *
4227048 -CCTTTGAAAGCCCACAAGTTAGTGGTA-TCCTTTGAAAGCCCACAAGTTAGTGGTATCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
4227111 AAGCCCACAAGTCAGTGGCAC
66 AAGCCCACAAGTCAGTGGCAC
* * *
4227132 -CCTTTCAAAGCCCACTAGTCAGTGGCATTCTTTTCAAAGCCCACA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACA
4227177 CGAGTCGATA
Statistics
Matches: 649, Mismatches: 67, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
84 57 0.09
85 312 0.48
86 217 0.33
87 62 0.10
88 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (86 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTCAGTGGCAC
Found at i:4227807 original size:20 final size:20
Alignment explanation
Indices: 4227784--4227893 Score: 82
Period size: 20 Copynumber: 5.6 Consensus size: 20
4227774 ATTTTTACCC
*
4227784 ATATCGATACATTTTTCAAT
1 ATATCGATACATTTATCAAT
* * *
4227804 ATATAGATACATGTATGAAT
1 ATATCGATACATTTATCAAT
*
4227824 GTATCGATACATTCT-TCAAT
1 ATATCGATACATT-TATCAAT
* * * *
4227844 GTATCAATACATGTATGAAT
1 ATATCGATACATTTATCAAT
*
4227864 CTATCGATACA-TTAT-AAT
1 ATATCGATACATTTATCAAT
* *
4227882 GTATTGATACAT
1 ATATCGATACAT
4227894 CTAGTTAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
18 12 0.17
19 4 0.06
20 54 0.76
21 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ATATCGATACATTTATCAAT
Found at i:4227842 original size:40 final size:40
Alignment explanation
Indices: 4227785--4227876 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
4227775 TTTTTACCCA
* *
4227785 TATCGATACATTTTTCAATATAT-AGATACATGTATGAATG
1 TATCGATACATTCTTCAATATATCA-ATACATGTATGAATC
*
4227825 TATCGATACATTCTTCAATGTATCAATACATGTATGAATC
1 TATCGATACATTCTTCAATATATCAATACATGTATGAATC
4227865 TATCGATACATT
1 TATCGATACATT
4227877 ATAATGTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (40 bp):
TATCGATACATTCTTCAATATATCAATACATGTATGAATC
Found at i:4233786 original size:13 final size:13
Alignment explanation
Indices: 4233768--4233792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4233758 ACACCTAGAA
4233768 GTATCGATACATT
1 GTATCGATACATT
4233781 GTATCGATACAT
1 GTATCGATACAT
4233793 GATCATTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4233822 original size:20 final size:20
Alignment explanation
Indices: 4233773--4233914 Score: 96
Period size: 20 Copynumber: 7.0 Consensus size: 20
4233763 TAGAAGTATC
4233773 GATACATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
* *
4233793 GATCATTGTATCGGTACATG
1 GATAATTGTATCGATACATG
4233813 GATAATTGTATCGATACAT-
1 GATAATTGTATCGATACATG
* * * * *
4233832 GA-AACTGGTAGTAGCTACCCTAC
1 GATAA-TTGTA-TCGATA-CAT-G
* *
4233855 CATTATTTGTATCGATACATG
1 GA-TAATTGTATCGATACATG
4233876 G-TACATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
4233895 GATGAATTGTATCGATACAT
1 GAT-AATTGTATCGATACAT
4233915 TACTTGTAAC
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
18 2 0.02
19 23 0.24
20 54 0.57
21 3 0.03
22 2 0.02
23 5 0.05
24 4 0.04
25 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:4241822 original size:20 final size:19
Alignment explanation
Indices: 4241778--4241833 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4241768 GTATCGATAT
4241778 ATTGTATCGATACATGATC
1 ATTGTATCGATACATGATC
*
4241797 ATTGTATCGATGCATAGA-C
1 ATTGTATCGATACAT-GATC
4241816 AATTGTATCGATACATGA
1 -ATTGTATCGATACATGA
4241834 AACTGGCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (19 bp):
ATTGTATCGATACATGATC
Found at i:4243913 original size:2 final size:2
Alignment explanation
Indices: 4243908--4243934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4243898 GTGTTAACTT
4243908 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 T
4243935 TAATGTGAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4244219 original size:15 final size:16
Alignment explanation
Indices: 4244189--4244252 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 16
4244179 ATTGTTATAT
*
4244189 TTTTATATATTTTTTA
1 TTTTATATAATTTTTA
4244205 TTTTA-ATAATTTTTA
1 TTTTATATAATTTTTA
4244220 TTTCTATA-ACATTATTTA
1 TTT-TATATA-ATT-TTTA
* *
4244238 TTCTATTTAATTTTT
1 TTTTATATAATTTTT
4244253 TGAAAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 12 0.30
16 11 0.28
17 10 0.25
18 7 0.17
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATAATTTTTA
Found at i:4245225 original size:31 final size:31
Alignment explanation
Indices: 4245190--4245249 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
4245180 ATTTTAAAAT
*
4245190 AAATTTTAAATTTTAT-TTAAATTTATTTTTA
1 AAATTTGAAATTTTATCTTAAATTT-TTTTTA
*
4245221 AAATTTGATATTTTATCTTAAATTTTTTT
1 AAATTTGAAATTTTATCTTAAATTTTTTT
4245250 AAATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (31 bp):
AAATTTGAAATTTTATCTTAAATTTTTTTTA
Found at i:4246625 original size:15 final size:14
Alignment explanation
Indices: 4246586--4246622 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
4246576 AAATTAGATT
4246586 TTAAAAAAATTTAA
1 TTAAAAAAATTTAA
4246600 TTAAAAAAATTTAA
1 TTAAAAAAATTTAA
4246614 TTAAAAAAA
1 TTAAAAAAA
4246623 ATTATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TTAAAAAAATTTAA
Found at i:4246970 original size:6 final size:6
Alignment explanation
Indices: 4246959--4247016 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
4246949 TTAATTAATT
4246959 ATATAA ATATAA ATAT-A ATATAA ATTATTAA ATAT-- AT-TAA ATATTTAA
1 ATATAA ATATAA ATATAA ATATAA A-TA-TAA ATATAA ATATAA ATA--TAA
4247007 ATATAA ATAT
1 ATATAA ATAT
4247017 GATATATGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 7 0.16
6 20 0.45
7 4 0.09
8 10 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
ATATAA
Found at i:4246981 original size:17 final size:18
Alignment explanation
Indices: 4246959--4247012 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
4246949 TTAATTAATT
4246959 ATATAAATA-TAAATATA
1 ATATAAATATTAAATATA
4246976 ATATAAATTATTAAATAT-
1 ATATAAA-TATTAAATATA
4246994 AT-TAAATATTTAAATATA
1 ATATAAATA-TTAAATATA
4247012 A
1 A
4247013 ATATGATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 2 0.06
17 19 0.58
18 5 0.15
19 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAATATTAAATATA
Found at i:4247006 original size:8 final size:9
Alignment explanation
Indices: 4246968--4247011 Score: 56
Period size: 8 Copynumber: 4.9 Consensus size: 9
4246958 TATATAAATA
4246968 TAAATATAAT
1 TAAATAT-AT
4246978 ATAAAT-TAT
1 -TAAATATAT
4246987 TAAATATAT
1 TAAATATAT
4246996 TAAATAT-T
1 TAAATATAT
4247004 TAAATATA
1 TAAATATA
4247012 AATATGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 13 0.42
9 12 0.39
10 1 0.03
11 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TAAATATAT
Found at i:4247008 original size:42 final size:41
Alignment explanation
Indices: 4246952--4247038 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
4246942 GTATTTTTTA
* *
4246952 ATTAATTATATAAATATAAATATAATATAAAT-TATTAAATAT
1 ATTAAATATATAAATATAAATATAATAT--ATGCATTAAATAT
* *
4246994 ATTAAATATTTAAATATAAATATGATATATGCATTAAATAT
1 ATTAAATATATAAATATAAATATAATATATGCATTAAATAT
4247035 ATTA
1 ATTA
4247039 TTAATTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.05
41 13 0.32
42 25 0.62
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (41 bp):
ATTAAATATATAAATATAAATATAATATATGCATTAAATAT
Found at i:4247664 original size:40 final size:40
Alignment explanation
Indices: 4247609--4247720 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
4247599 CGTAGGTTAT
4247609 GTTAGAGAAGATAAAACAATGAAAGGCAACTATATGTCAG
1 GTTAGAGAAGATAAAACAATGAAAGGCAACTATATGTCAG
* * *
4247649 GTTAGAAAAGATAAAACAATGAAAGGCAACAATATGTCAT
1 GTTAGAGAAGATAAAACAATGAAAGGCAACTATATGTCAG
4247689 GTTAGAGAAGATAAAACAATGAAAGGCAACTA
1 GTTAGAGAAGATAAAACAATGAAAGGCAACTA
4247721 ATTATTTAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.51, C:0.10, G:0.21, T:0.19
Consensus pattern (40 bp):
GTTAGAGAAGATAAAACAATGAAAGGCAACTATATGTCAG
Found at i:4249160 original size:37 final size:36
Alignment explanation
Indices: 4249073--4249148 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 36
4249063 TTAAACAATG
* * * * * *
4249073 ATAATTTAAATAATAATAATATAATATATTAAATAT
1 ATAATTGAATTAAAAATAATATAAAATATCAAACAT
4249109 ATAATTGAATTAAAAATAAGTATAAAATATCAAACAT
1 ATAATTGAATTAAAAATAA-TATAAAATATCAAACAT
4249146 ATA
1 ATA
4249149 CTTAGATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAATTGAATTAAAAATAATATAAAATATCAAACAT
Found at i:4249251 original size:18 final size:19
Alignment explanation
Indices: 4249216--4249254 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4249206 TTTTATAATA
* *
4249216 AAAAAATCTTGGATAAAAT
1 AAAAAATCTTGAAAAAAAT
4249235 AAAAAAT-TTGAAAAAAAT
1 AAAAAATCTTGAAAAAAAT
4249253 AA
1 AA
4249255 TGAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAAAATCTTGAAAAAAAT
Done.