Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 201 of 218
Found at i:59568921 original size:34 final size:36
Alignment explanation
Indices: 59568851--59568933 Score: 116
Period size: 34 Copynumber: 2.3 Consensus size: 36
59568841 TATATTTGAA
* *
59568851 ATTTTTTATAATATTATCTTTTATAATTTTAAATAT
1 ATTTTTTATAAAATTATCTTTTATAAATTTAAATAT
*
59568887 ATTTTTT-TAAAATTATTTTTTA-AAATTTAAATAT
1 ATTTTTTATAAAATTATCTTTTATAAATTTAAATAT
59568921 ATTTTTTAATAAA
1 ATTTTTT-ATAAA
59568934 TAAAACATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 18 0.43
35 13 0.31
36 11 0.26
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (36 bp):
ATTTTTTATAAAATTATCTTTTATAAATTTAAATAT
Found at i:59568929 original size:13 final size:14
Alignment explanation
Indices: 59568877--59568913 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
59568867 TCTTTTATAA
59568877 TTTT-AAATATATTT
1 TTTTAAAAT-TATTT
59568891 TTTTAAAATTA-TT
1 TTTTAAAATTATTT
59568904 TTTTAAAATT
1 TTTTAAAATT
59568914 TAAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.55
14 6 0.27
15 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAAATTATTT
Found at i:59569018 original size:22 final size:22
Alignment explanation
Indices: 59568983--59569050 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
59568973 TTATTATTTG
59568983 TTTTATAATA-TTTAAATGTAT
1 TTTTATAATATTTTAAATGTAT
* *
59569004 ATTTTA-AATATTTTAAATTTGT
1 -TTTTATAATATTTTAAATGTAT
*
59569026 TTTTATAATTTTTTAAA--TAT
1 TTTTATAATATTTTAAATGTAT
59569046 TTTTA
1 TTTTA
59569051 ATTTTTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.17
21 9 0.22
22 24 0.60
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTATAATATTTTAAATGTAT
Found at i:59569029 original size:21 final size:22
Alignment explanation
Indices: 59568978--59569043 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
59568968 CAAAATTATT
59568978 ATTTG-TTTTATAATA-TTTAA
1 ATTTGTTTTTATAATATTTTAA
* *
59568998 ATGTATATTTTA-AATATTTTAA
1 ATTTGT-TTTTATAATATTTTAA
*
59569020 ATTTGTTTTTATAATTTTTTAA
1 ATTTGTTTTTATAATATTTTAA
59569042 AT
1 AT
59569044 ATTTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 9 0.24
22 25 0.68
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
ATTTGTTTTTATAATATTTTAA
Found at i:59569074 original size:19 final size:19
Alignment explanation
Indices: 59569034--59569074 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
59569024 GTTTTTATAA
*
59569034 TTTTTTAAATATTTTTAAT
1 TTTTTTAAATATTATTAAT
59569053 TTTTTTAAA-ATATATT-AT
1 TTTTTTAAATAT-TATTAAT
59569071 TTTT
1 TTTT
59569075 AAAGATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTAAATATTATTAAT
Found at i:59569082 original size:15 final size:15
Alignment explanation
Indices: 59569054--59569187 Score: 57
Period size: 15 Copynumber: 8.9 Consensus size: 15
59569044 ATTTTTAATT
59569054 TTTTTAAAATATATTA
1 TTTTT-AAATATATTA
* *
59569070 TTTTTAAAGATATGA
1 TTTTTAAATATATTA
*
59569085 TCTTTCAAATATATTA
1 T-TTTTAAATATATTA
** * *
59569101 TTTGTT-TTTAAAATA
1 TTT-TTAAATATATTA
*
59569116 -TTTTAAATGTA-TA
1 TTTTTAAATATATTA
59569129 -TTTTAAATATTATTTA
1 TTTTTAAATA-TA-TTA
*
59569145 ATTTTAAATATAATT-
1 TTTTTAAATAT-ATTA
*
59569160 TTTATAAAT-TATTAA
1 TTTTTAAATATATT-A
*
59569175 ATTTTAAA-ATATT
1 TTTTTAAATATATT
59569188 TTTAAAGATA
Statistics
Matches: 88, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
13 15 0.17
14 7 0.08
15 33 0.38
16 23 0.26
17 10 0.11
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTTTAAATATATTA
Found at i:59569150 original size:17 final size:17
Alignment explanation
Indices: 59569128--59569192 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 17
59569118 TTAAATGTAT
59569128 ATTTTAAATATTATTTA
1 ATTTTAAATATTATTTA
*
59569145 ATTTTAAATATAATTT-
1 ATTTTAAATATTATTTA
* *
59569161 -TTAT-AA-ATTATTAA
1 ATTTTAAATATTATTTA
59569175 ATTTTAAAATATT-TTTA
1 ATTTT-AAATATTATTTA
59569192 A
1 A
59569193 AGATATTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 5 0.14
14 2 0.05
15 6 0.16
17 21 0.57
18 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAAATATTATTTA
Found at i:59569174 original size:29 final size:30
Alignment explanation
Indices: 59569115--59569193 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
59569105 TTTTTAAAAT
*
59569115 ATTTTAAATGTATATTTTAAATATTATTT-A
1 ATTTTAAATATAT-TTTTAAATATTATTTAA
59569145 ATTTTAAATATAATTTTTATAA-ATTA-TTAA
1 ATTTTAAATAT-ATTTTTA-AATATTATTTAA
59569175 ATTTTAAA-ATATTTTTAAA
1 ATTTTAAATATATTTTTAAA
59569194 GATATTCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
27 2 0.04
28 7 0.16
29 4 0.09
30 28 0.62
31 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
ATTTTAAATATATTTTTAAATATTATTTAA
Found at i:59569178 original size:124 final size:122
Alignment explanation
Indices: 59568949--59569179 Score: 324
Period size: 124 Copynumber: 1.9 Consensus size: 122
59568939 CATTTAAATA
*
59568949 TTTTAAAGATATGACCTTTCAAAATTATTATTTGTTTTATAATATTTAAATGTATATTTTAAATA
1 TTTTAAAGATATGACCTTTCAAAATTATTATTTGTTTTAAAATATTTAAATGTATATTTTAAATA
*** * *
59569014 TTTTAAATTTGTTTTTATAATTTTTTAAATATTTTTAATTTTTTTAAAATATATTAT
66 TTTTAAATTTGTAAATATAATTTTTTAAATATATTAAATTTTTTTAAAATATATTAT
*
59569071 TTTTAAAGATATGATCTTTC-AAATATATTATTTGTTTTTAAAATATTTTAAATGTATATTTTAA
1 TTTTAAAGATATGACCTTTCAAAAT-TATTATTTG-TTTTAAAATA-TTTAAATGTATATTTTAA
*
59569135 ATATTATTTAATTT-TAAATATAATTTTTATAAAT-TATTAAATTTT
63 ATATT-TTAAATTTGTAAATATAATTTTT-TAAATATATTAAATTTT
59569180 AAAATATTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
121 4 0.04
122 28 0.29
123 9 0.09
124 43 0.45
125 12 0.12
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (122 bp):
TTTTAAAGATATGACCTTTCAAAATTATTATTTGTTTTAAAATATTTAAATGTATATTTTAAATA
TTTTAAATTTGTAAATATAATTTTTTAAATATATTAAATTTTTTTAAAATATATTAT
Found at i:59573306 original size:28 final size:30
Alignment explanation
Indices: 59573274--59573329 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
59573264 CAAATGGGGA
59573274 TTAAAT-TGAGAAATATG-AAAA-GTATGTG
1 TTAAATATGAGAAAT-TGTAAAATGTATGTG
*
59573302 TTAAATATGTGAAATTGTAAAATGTATG
1 TTAAATATGAGAAATTGTAAAATGTATG
59573330 GGATTATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 11 0.46
30 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.36
Consensus pattern (30 bp):
TTAAATATGAGAAATTGTAAAATGTATGTG
Found at i:59573901 original size:25 final size:24
Alignment explanation
Indices: 59573858--59573935 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
59573848 CAGCACGTGA
*
59573858 GAGCTTACCGATTTGCAGCTCATAT
1 GAGCTTACCG-TTTTCAGCTCATAT
* *
59573883 GAGCTTACCGTTATTCAGCTCAAAA
1 GAGCTTACCGTT-TTCAGCTCATAT
* *
59573908 GAGTTTACCGTTTATC-GCTCGTAT
1 GAGCTTACCGTTT-TCAGCTCATAT
59573932 GAGC
1 GAGC
59573936 ATACATGTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 11 0.26
25 32 0.74
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
GAGCTTACCGTTTTCAGCTCATAT
Found at i:59578215 original size:21 final size:20
Alignment explanation
Indices: 59578169--59578216 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
59578159 GTTATAGTAT
**
59578169 ATATTTTTAATTTTTAATTT
1 ATATTTTTAATTTTTAATAC
* *
59578189 AAATTTTTACTTTTTTAATAC
1 ATATTTTTA-ATTTTTAATAC
59578210 ATATTTT
1 ATATTTT
59578217 AAAAAAGTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATTTTTAATTTTTAATAC
Found at i:59578326 original size:21 final size:20
Alignment explanation
Indices: 59578300--59578356 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
59578290 ATTATTTTTT
59578300 AAAATTTTAAATAGAATTTAA
1 AAAATTTTAAATA-AATTTAA
* *
59578321 AAAATTTTGAATATATTTAA
1 AAAATTTTAAATAAATTTAA
*
59578341 AAATAATTTAAA-AAAT
1 AAA-ATTTTAAATAAAT
59578357 CATAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AAAATTTTAAATAAATTTAA
Found at i:59578354 original size:12 final size:13
Alignment explanation
Indices: 59578330--59578370 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
59578320 AAAAATTTTG
59578330 AATATATTT-AAA
1 AATATATTTAAAA
59578342 AATA-ATTTAAAA
1 AATATATTTAAAA
*
59578354 AATCATAATTAAAA
1 AAT-ATATTTAAAA
59578368 AAT
1 AAT
59578371 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 4 0.16
12 10 0.40
13 1 0.04
14 10 0.40
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATATTTAAAA
Found at i:59578502 original size:22 final size:21
Alignment explanation
Indices: 59578477--59578549 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 21
59578467 AAATTAAAAA
59578477 AAAATTTAAAAGATATATATTT
1 AAAATTTAAAA-ATATATATTT
59578499 AAAATTTAAAAA-ATTATATTAT
1 AAAATTTAAAAATA-TATATT-T
* *
59578521 AAAACATTT-CAAATATACATTT
1 -AAA-ATTTAAAAATATATATTT
59578543 AAAATTT
1 AAAATTT
59578550 TATAAAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
20 5 0.11
21 10 0.23
22 13 0.30
23 11 0.25
24 5 0.11
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (21 bp):
AAAATTTAAAAATATATATTT
Found at i:59600122 original size:24 final size:24
Alignment explanation
Indices: 59600085--59600130 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
59600075 AATAAAAAAA
* *
59600085 TAATTTTGACATTTGACTATTGGG
1 TAATTTTGAAATTTGAATATTGGG
*
59600109 TAATTTTTAAATTTGAATATTG
1 TAATTTTGAAATTTGAATATTG
59600131 ATATGTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.50
Consensus pattern (24 bp):
TAATTTTGAAATTTGAATATTGGG
Found at i:59611999 original size:3 final size:3
Alignment explanation
Indices: 59611925--59611981 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
59611915 CTAGCTTTGC
59611925 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
59611973 ATT ATT ATT
1 ATT ATT ATT
59611982 TATACTCCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:59612050 original size:21 final size:22
Alignment explanation
Indices: 59612026--59612066 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
59612016 ATTAAATATA
59612026 TATGTCTTA-CTATAT-TATTAT
1 TATGT-TTATCTATATCTATTAT
59612047 TATGTTTATCTATATCTATT
1 TATGTTTATCTATATCTATT
59612067 TATTTCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (22 bp):
TATGTTTATCTATATCTATTAT
Found at i:59627637 original size:70 final size:67
Alignment explanation
Indices: 59627501--59627637 Score: 184
Period size: 70 Copynumber: 2.0 Consensus size: 67
59627491 CTACATAAAC
* * * * * *
59627501 AATATAATGGTTTTGACTTTTAACTTAATAAGTAAACATTTATTAAAACGATATAGTTTTGTCTT
1 AATATAATGGTTTTGACTTTTAACTTAAAAAATAAACATTTATCAAAACAACATAGTTTTGCCTT
59627566 TT
66 TT
*
59627568 AATATAATGGTTTTGACTTTTAACTTTAAAAAAAATAAACATTTATCAAAACAACGTAGTTTTGC
1 AATATAATGGTTTTGACTTTTAAC-TT--AAAAAATAAACATTTATCAAAACAACATAGTTTTGC
59627633 CTTTT
63 CTTTT
59627638 GTTATTAGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 24 0.40
68 2 0.03
70 34 0.57
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (67 bp):
AATATAATGGTTTTGACTTTTAACTTAAAAAATAAACATTTATCAAAACAACATAGTTTTGCCTT
TT
Found at i:59634060 original size:17 final size:17
Alignment explanation
Indices: 59634040--59634078 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
59634030 TTATTATTAT
*
59634040 TATATATATTTTATATA
1 TATACATATTTTATATA
*
59634057 TATACATATTTTTTATA
1 TATACATATTTTATATA
59634074 TATAC
1 TATAC
59634079 TTACGTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATACATATTTTATATA
Found at i:59635065 original size:108 final size:109
Alignment explanation
Indices: 59634782--59635183 Score: 650
Period size: 109 Copynumber: 3.7 Consensus size: 109
59634772 TAAAAAAGGG
* * * *
59634782 AAACATTTC-AAAATAAGGCAATATTTTGCTTTTGGAAATTCGAGGAACGTGCCTTAAGGTACTG
1 AAACTTTTCAAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTG
59634846 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
66 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
* *
59634890 AAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAACTTTTCAAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTG
*
59634955 GGTTTCGATTTCTCGTTCGACCAAAT-GACTTAATATCCTTTTCAA
66 GGTTTCGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTT-AA
59635000 AAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAACTTTTCAAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTG
*
59635063 GGTCTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
66 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
* * * *
59635107 AAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAACCTGCCCTAAGGTGCTG
1 AAACTTTTCAAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTG
59635172 GGTTTCGATTTC
66 GGTTTCGATTTC
59635184 ACGGTTAACC
Statistics
Matches: 274, Mismatches: 14, Indels: 11
0.92 0.05 0.04
Matches are distributed among these distances:
107 5 0.02
108 105 0.38
109 159 0.58
110 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (109 bp):
AAACTTTTCAAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTG
GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
Found at i:59635163 original size:217 final size:217
Alignment explanation
Indices: 59634787--59635183 Score: 722
Period size: 217 Copynumber: 1.8 Consensus size: 217
59634777 AAGGGAAACA
* * * *
59634787 TTTCAAAATAAGGCAATATTTTGCTTTTGGAAATTCGAGGAACGTGCCTTAAGGTACTGGGTTTC
1 TTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTCTC
59634852 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTT
66 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTT
* * *
59634917 TGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATG
131 TGCGTTTAGAAATTCGAGAAACCTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATG
59634982 ACTTAATATCCTTTTCAAAAAT
196 ACTTAATATCCTTTTCAAAAAT
59635004 TTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTCTC
1 TTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTCTC
59635069 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTT
66 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTT
*
59635134 TGCGTTTAGAAATTCGAGAAACCTGCCCTAAGGTGCTGGGTTTCGATTTC
131 TGCGTTTAGAAATTCGAGAAACCTGCCCTAAGGTACTGGGTTTCGATTTC
59635184 ACGGTTAACC
Statistics
Matches: 172, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 172 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (217 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTCTC
GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTT
TGCGTTTAGAAATTCGAGAAACCTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATG
ACTTAATATCCTTTTCAAAAAT
Found at i:59638886 original size:10 final size:10
Alignment explanation
Indices: 59638873--59638910 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
59638863 CAAAAATAGG
59638873 AGAAAAAGAA
1 AGAAAAAGAA
59638883 AGAAGAAA-AA
1 AGAA-AAAGAA
59638893 AGAAAAAGAA
1 AGAAAAAGAA
59638903 AGAGAAAA
1 AGA-AAAA
59638911 AGGAGAGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:59638898 original size:6 final size:6
Alignment explanation
Indices: 59638873--59638912 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
59638863 CAAAAATAGG
*
59638873 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAG AGAAAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AG
59638913 GAGAGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 21 0.70
7 6 0.20
8 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:59638898 original size:20 final size:19
Alignment explanation
Indices: 59638873--59638911 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
59638863 CAAAAATAGG
59638873 AGAAAAAGAAAGAAGAAAAA
1 AGAAAAAGAAAG-AGAAAAA
59638893 AGAAAAAGAAAGAGAAAAA
1 AGAAAAAGAAAGAGAAAAA
59638912 GGAGAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAGAGAAAAA
Found at i:59641340 original size:44 final size:43
Alignment explanation
Indices: 59641236--59641920 Score: 374
Period size: 44 Copynumber: 15.8 Consensus size: 43
59641226 TCGCACCAGG
* * * * *
59641236 TCTTATTTCCCTGTGATTACAGTGGAACAGACTGAAAAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTG---AAGTT-AGAA
* *
59641282 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* * ** * * * * *
59641326 TCCTATCTCCCTGAGATTACAGTGAAGTGGGTTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* ** * * * * *
59641370 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CGTCAG-G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
* * * *
59641411 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTG---AAGTT-AGAA
* *
59641457 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* * * * * *
59641501 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* * * * * *
59641545 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-TGTCAG-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
* * *
59641586 TCTTATCTCACTGAGATTACAGCGGAACAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* ** * * * *
59641630 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGA-A
* * * * * * *
59641674 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCGTA-TCAG-G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
59641715 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
** * * * *
59641759 T-TCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGA
1 TCT-TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* * * * * * *
59641803 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCGTA-TCAG-G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
* * *
59641844 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* *
59641888 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT
59641921 AAAACAAAGG
Statistics
Matches: 477, Mismatches: 130, Indels: 66
0.71 0.19 0.10
Matches are distributed among these distances:
41 107 0.22
42 23 0.05
43 18 0.04
44 261 0.55
45 8 0.02
46 60 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGAA
Found at i:59641461 original size:175 final size:175
Alignment explanation
Indices: 59641170--59641662 Score: 742
Period size: 175 Copynumber: 2.8 Consensus size: 175
59641160 CCATCGGTTG
* * **
59641170 CAGTGAAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAG
1 CAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAG
*
59641235 GTCTTATTTCCCTGTGATTACAGTGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGATT
*
59641300 ACAGCGGAGTAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
131 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * * *
59641345 CAGTGAAGTGGGTTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
1 CAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAG
59641410 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGATT
*
59641475 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
131 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* *
59641520 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAG
1 CAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAG
* * * * * * *
59641585 ATCTTATCTCACTGAGATTACAGCGGAACAGATTG---AAGTT-AGTAATCCTATCTCCCTGAGA
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAG--ATCTTATCTCCCTGAGA
* *
59641646 TTACAGTGGAGTGGATT
129 TTACAGCGGAGTAGATT
59641663 AAAATAAAAG
Statistics
Matches: 289, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
171 2 0.01
172 4 0.01
173 30 0.10
175 253 0.88
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (175 bp):
CAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAG
GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGATT
ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
Found at i:59641609 original size:129 final size:129
Alignment explanation
Indices: 59641452--59642029 Score: 886
Period size: 129 Copynumber: 4.5 Consensus size: 129
59641442 CTGAAAAATT
59641452 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
59641517 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
* * *
59641581 TCAGATCTTATCTCACTGAGATTACAGCGGAACAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
59641646 TTACAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
* * * *
59641710 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTAATTCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
59641775 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
* *
59641839 TCAGGTCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * * *
59641904 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATTTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
* * * * * * * * * * * *
59641968 TCAGGTTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG
59642030 GTTGGCAGTG
Statistics
Matches: 415, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 415 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
Found at i:59643088 original size:12 final size:12
Alignment explanation
Indices: 59643059--59643100 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
59643049 TCGGTATAAG
59643059 ATTTATTTTCTTT
1 ATTT-TTTTCTTT
*
59643072 -TTTTTTTTTATT
1 ATTTTTTTCT-TT
59643084 ATTTTTTTCTTT
1 ATTTTTTTCTTT
59643096 ATTTT
1 ATTTT
59643101 CCTTCCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 5 0.20
12 12 0.48
13 8 0.32
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTTTCTTT
Found at i:59643100 original size:21 final size:21
Alignment explanation
Indices: 59643061--59643100 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59643051 GGTATAAGAT
*
59643061 TTATTTTCTTTTTTTTTTTTA
1 TTATTTTCTTTTTTATTTTTA
59643082 TTATTTT-TTTCTTTATTTT
1 TTATTTTCTTT-TTTATTTT
59643101 CCTTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (21 bp):
TTATTTTCTTTTTTATTTTTA
Found at i:59643842 original size:17 final size:17
Alignment explanation
Indices: 59643817--59643855 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
59643807 TAATTTCTCT
*
59643817 TATATATATTTTATATA
1 TATACATATTTTATATA
*
59643834 TATACATATTTTTTATA
1 TATACATATTTTATATA
59643851 TATAC
1 TATAC
59643856 TTACGTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATACATATTTTATATA
Found at i:59644417 original size:12 final size:13
Alignment explanation
Indices: 59644400--59644462 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 13
59644390 TTTTGTATGA
59644400 TTATTTATG-TAT
1 TTATTTATGCTAT
59644412 TTATTTATATGTCTAT
1 TTA-TT-TATG-CTAT
59644428 TT-TTTATGCTTCAGT
1 TTATTTATGC-T-A-T
59644443 TTATTTATG-TAT
1 TTATTTATGCTAT
59644455 TTATTTAT
1 TTATTTAT
59644463 TCATTTGCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
12 13 0.30
13 8 0.19
14 8 0.19
15 3 0.07
16 11 0.26
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (13 bp):
TTATTTATGCTAT
Found at i:59645555 original size:87 final size:87
Alignment explanation
Indices: 59645409--59645584 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
59645399 AAGTACTAGT
59645409 TCAAAGTATTATTTGATAGTGTTCCTCTCGTGGTTGACAACACTGCTAGGTTGAAGTTTCGAGTA
1 TCAAAGTATTATTTGATAGTGTTCCTCTCGTGGTTGACAACACTGCTAGGTTGAAGTTTCGAGTA
* *
59645474 ATGTTTTTAATGGCTCCTTGAG
66 ATGTTCTTAACGGCTCCTTGAG
*
59645496 TCAAAGTATTATTTGATAGTGTTCCTCTCGTGGTTGCCAACACTGCTAGGTTGAAGTTTCGAGTA
1 TCAAAGTATTATTTGATAGTGTTCCTCTCGTGGTTGACAACACTGCTAGGTTGAAGTTTCGAGTA
59645561 ATGTTCTTAACGGCTCCTTGAG
66 ATGTTCTTAACGGCTCCTTGAG
59645583 TC
1 TC
59645585 CCACCACTGT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (87 bp):
TCAAAGTATTATTTGATAGTGTTCCTCTCGTGGTTGACAACACTGCTAGGTTGAAGTTTCGAGTA
ATGTTCTTAACGGCTCCTTGAG
Found at i:59647657 original size:34 final size:32
Alignment explanation
Indices: 59647577--59647657 Score: 74
Period size: 34 Copynumber: 2.4 Consensus size: 32
59647567 ATGTTCATTA
** *
59647577 AAATAAATAAACATATATATTATTTTTATATAT
1 AAATAAATAAA-ATATATATTAAATGTATATAT
* *
59647610 AAA-ATAGTGAAATATAAGTATTAAATGTATATAT
1 AAATA-AATAAAATAT-A-TATTAAATGTATATAT
59647644 AAATAAATAAAATA
1 AAATAAATAAAATA
59647658 AACACACTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
32 5 0.14
33 8 0.22
34 23 0.62
35 1 0.03
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (32 bp):
AAATAAATAAAATATATATTAAATGTATATAT
Found at i:59663526 original size:16 final size:17
Alignment explanation
Indices: 59663505--59663539 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
59663495 GACATGAAAT
59663505 TAATAAAATAAATA-AA
1 TAATAAAATAAATATAA
*
59663521 TAATAATATAAATATAA
1 TAATAAAATAAATATAA
59663538 TA
1 TA
59663540 GCATTCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATAAAATAAATATAA
Found at i:59664008 original size:21 final size:22
Alignment explanation
Indices: 59663982--59664026 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
59663972 ATCATAGTAG
*
59663982 AATAATAAT-TTTATTATTTTT
1 AATAATAATATTAATTATTTTT
*
59664003 AATAATACTATTAATTATTTTT
1 AATAATAATATTAATTATTTTT
59664025 AA
1 AA
59664027 GTACAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AATAATAATATTAATTATTTTT
Found at i:59666268 original size:21 final size:22
Alignment explanation
Indices: 59666244--59666285 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
59666234 TTATGTCACA
59666244 TCAGCATTTTCATCCT-AAATT
1 TCAGCATTTTCATCCTGAAATT
59666265 TCAGCATTTTCATCCTGAAAT
1 TCAGCATTTTCATCCTGAAAT
59666286 AAATCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (22 bp):
TCAGCATTTTCATCCTGAAATT
Found at i:59672017 original size:50 final size:49
Alignment explanation
Indices: 59671963--59672361 Score: 261
Period size: 50 Copynumber: 8.4 Consensus size: 49
59671953 AAATTTAAAA
*
59671963 AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGTATATG
1 AAAAAAAAAATTTT-GGTGCTGGCCTGTCAATGGTCGGCACCAGTATACG
* * * * *
59672013 AAAAAAAAAATTTAGGCGCT-GCCTTATCAATTGTCAGCACCAGTATACG
1 AAAAAAAAAATTTTGGTGCTGGCC-TGTCAATGGTCGGCACCAGTATACG
**
59672062 AAAAAAAAAA-TTT-GTGCTGGCCTGTCAATGGTCGGCACCACCAGTACG
1 AAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGTCGGCACCAGTA-TACG
* * *
59672110 ---AAAAAAATTGTT--T--TGG-GTGT---TGGCCGGCACCAGCAGTACG
1 AAAAAAAAAATT-TTGGTGCTGGCCTGTCAATGGTCGGCACCAGTA-TACG
* * * * * ** *
59672150 -AAAAAAAAATTTTATGTGCTGGTCTATCAATGGCCGACACCACCAGTATG
1 AAAAAAAAAATTTT-GGTGCTGGCCTGTCAATGGTCGGCACCAGTA-TACG
* * *
59672200 AAAAAAAAAATTTTGGTGCTGGCCTGTCAAT-GTCCGGTACCAGCAATATG
1 AAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGT-CGGCACCAG-TATACG
* * *
59672250 -AAAAAAAAATTTTGGGTGCTAGCCTGTGAATGGCCGGCACCAGT-T---
1 AAAAAAAAAATTTT-GGTGCTGGCCTGTCAATGGTCGGCACCAGTATACG
* * * *
59672295 TAAAAAAAAA--TTGGTGTTGGCCTGTCAAT-GACTGGCACCAATATACG
1 AAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGTC-GGCACCAGTATACG
*
59672342 AAAAAAAAAATTTAGGTGCT
1 AAAAAAAAAATTTTGGTGCT
59672362 AGACTTCTAA
Statistics
Matches: 278, Mismatches: 42, Indels: 59
0.73 0.11 0.16
Matches are distributed among these distances:
40 18 0.06
41 2 0.01
42 11 0.04
43 25 0.09
44 7 0.03
45 7 0.03
46 14 0.05
47 33 0.12
48 13 0.05
49 56 0.20
50 77 0.28
51 15 0.05
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (49 bp):
AAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGTCGGCACCAGTATACG
Found at i:59672214 original size:90 final size:86
Alignment explanation
Indices: 59672049--59672223 Score: 215
Period size: 90 Copynumber: 2.0 Consensus size: 86
59672039 TCAATTGTCA
* * * *
59672049 GCACCAGTATACGAAAAAAAAAATTTGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAA
1 GCACCAGCATACGAAAAAAAAAATTTGTGCTGGCCTATCAATGGCCGACACCACCAGTACGAAAA
*** *
59672114 AAATTGTTTTGGGTGTTGGCCG
66 AAAAAATTTT-GGTGCTGGCCG
* * *
59672136 GCACCAGCAGTACGAAAAAAAAATTTTATGTGCTGGTCTATCAATGGCCGACACCACCAGTATGA
1 GCACCAGCA-TACGAAAAAAAAA-ATT-TGTGCTGGCCTATCAATGGCCGACACCACCAGTACGA
59672201 AAAAAAAAATTTTGGTGCTGGCC
63 AAAAAAAAATTTTGGTGCTGGCC
59672224 TGTCAATGTC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
87 8 0.11
88 13 0.18
89 11 0.15
90 42 0.57
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (86 bp):
GCACCAGCATACGAAAAAAAAAATTTGTGCTGGCCTATCAATGGCCGACACCACCAGTACGAAAA
AAAAAATTTTGGTGCTGGCCG
Found at i:59672303 original size:187 final size:184
Alignment explanation
Indices: 59671964--59672307 Score: 390
Period size: 186 Copynumber: 1.8 Consensus size: 184
59671954 AATTTAAAAA
* * * * **
59671964 AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGTATATGAAAAAAAAAATTTAGG
1 AAAAAAAAATTTTAGGTGCTGGCCTATCAATGGCCGACACCACCATATGAAAAAAAAAATTTAGG
* * *
59672029 CGCTGCCTTATCAATTGTCAGCACCAGTATACGAAAAAAAAAATTTGTGCTGGCCTGTCAATGGT
66 CGCTGCCTTATCAATTGTCAGCACCAGAATACGAAAAAAAAAATTTGTGCTAGCCTGTCAATGGC
*
59672094 CGGCACCACCAGTACGAAAAAAATTGTTTTGGGTGTTGGCCGGCACCAGCAGTACG
131 CGG--CCACCAGTACAAAAAAAATTGTTTTGGGTGTTGGCCGGCACCAGCAGTACG
* * *
59672150 AAAAAAAAATTTTATGTGCTGGTCTATCAATGGCCGACACCACCAGTATGAAAAAAAAAATTTTG
1 AAAAAAAAATTTTAGGTGCTGGCCTATCAATGGCCGACACCACCA-TATGAAAAAAAAAATTTAG
* * * * * * *
59672215 GTGCTGGCC-TGTCAA-TGTCCGGTACCAGCAATATGAAAAAAAAATTTTGGGTGCTAGCCTGTG
65 GCGCT-GCCTTATCAATTGT-CAGCACCAG-AATACGAAAAAAAAAATTT--GTGCTAGCCTGTC
59672278 AATGGCCGG-CACCAGTTTA-AAAAAAAATTG
125 AATGGCCGGCCACCAG--TACAAAAAAAATTG
59672308 GTGTTGGCCT
Statistics
Matches: 130, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
186 40 0.31
187 40 0.31
188 29 0.22
189 2 0.02
190 19 0.15
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (184 bp):
AAAAAAAAATTTTAGGTGCTGGCCTATCAATGGCCGACACCACCATATGAAAAAAAAAATTTAGG
CGCTGCCTTATCAATTGTCAGCACCAGAATACGAAAAAAAAAATTTGTGCTAGCCTGTCAATGGC
CGGCCACCAGTACAAAAAAAATTGTTTTGGGTGTTGGCCGGCACCAGCAGTACG
Found at i:59675505 original size:30 final size:31
Alignment explanation
Indices: 59675466--59675537 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
59675456 GTCGGCAGTT
* *
59675466 GTCGGCGG-TGGTTGAGGGTGAATAGCGACG
1 GTCGTCGGATGGTTGAGGGTGAACAGCGACG
**
59675496 GTCGTCGGTGATGGTTGAGGGTGAACAGCGGTG
1 GTCGTC-G-GATGGTTGAGGGTGAACAGCGACG
59675529 GTCGTCGGA
1 GTCGTCGGA
59675538 GTTGCCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.14
31 3 0.09
32 2 0.06
33 25 0.71
ACGTcount: A:0.15, C:0.14, G:0.49, T:0.22
Consensus pattern (31 bp):
GTCGTCGGATGGTTGAGGGTGAACAGCGACG
Found at i:59675511 original size:33 final size:33
Alignment explanation
Indices: 59675474--59675536 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
59675464 TTGTCGGCGG
*
59675474 TGGTTGAGGGTGAATAGCGACGGTCGTCGGTGA
1 TGGTTGAGGGTGAACAGCGACGGTCGTCGGTGA
**
59675507 TGGTTGAGGGTGAACAGCGGTGGTCGTCGG
1 TGGTTGAGGGTGAACAGCGACGGTCGTCGG
59675537 AGTTGCCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.16, C:0.13, G:0.48, T:0.24
Consensus pattern (33 bp):
TGGTTGAGGGTGAACAGCGACGGTCGTCGGTGA
Found at i:59676280 original size:22 final size:22
Alignment explanation
Indices: 59676252--59676318 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
59676242 TCATTTAAAA
59676252 TATTTTTTTTTCAATTTCAATT
1 TATTTTTTTTTCAATTTCAATT
*
59676274 TATTTTTTTCTCAA-TTC-ATT
1 TATTTTTTTTTCAATTTCAATT
*
59676294 TATATTATTTTTT-AATTTAAATT
1 TAT-TT-TTTTTTCAATTTCAATT
59676317 TA
1 TA
59676319 ACTTTTTCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.16
21 7 0.18
22 20 0.53
23 5 0.13
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTTTTTTTCAATTTCAATT
Found at i:59676294 original size:20 final size:22
Alignment explanation
Indices: 59676252--59676327 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
59676242 TCATTTAAAA
*
59676252 TATTTTTTTTTCAATTTCAATT
1 TATTTTTTTCTCAATTTCAATT
59676274 TATTTTTTTCTCAA-TTC-ATT
1 TATTTTTTTCTCAATTTCAATT
* *
59676294 TATATTATTTT-TTAATTTAAATT
1 TAT-TT-TTTTCTCAATTTCAATT
**
59676317 TAACTTTTTCT
1 TATTTTTTTCT
59676328 GCACTTCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.14
21 12 0.27
22 21 0.48
23 5 0.11
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTTTTTCTCAATTTCAATT
Found at i:59676325 original size:44 final size:44
Alignment explanation
Indices: 59676251--59676371 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 44
59676241 TTCATTTAAA
* * *
59676251 ATATTTTTTTTTCAATTTCAATTTATTTTTTTCT-CAATTCATTT
1 ATATTATTTTTTCAATTTAAATTTA-CTTTTTCTGCAATTCATTT
*
59676295 ATATTATTTTTT-AATTTAAATTTAACTTTTTCTGCACTTCATTT
1 ATATTATTTTTTCAATTTAAATTT-ACTTTTTCTGCAATTCATTT
* * ** *
59676339 AAATTTTCTATTTTCAATGCAAATTTATTTTTT
1 ATATTAT-T-TTTTCAATTTAAATTTACTTTTT
59676372 TCTTATTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
43 17 0.27
44 26 0.41
45 1 0.02
46 10 0.16
47 9 0.14
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (44 bp):
ATATTATTTTTTCAATTTAAATTTACTTTTTCTGCAATTCATTT
Found at i:59676428 original size:91 final size:90
Alignment explanation
Indices: 59676270--59676434 Score: 210
Period size: 90 Copynumber: 1.8 Consensus size: 90
59676260 TTTCAATTTC
* *
59676270 AATTTATTTTTTTCTCAATTCATTTATATTATTTTTTAATTTAAATTTAACTTTTTCTGCACTTC
1 AATTTATTTTTTTCTCAATTCATTTATATTATTTTCTAATTTAAATTAAACTTTTTCTGCACTTC
59676335 ATTTAAATTTTCTATTTTCAATGCA
66 ATTTAAATTTTCTATTTTCAATGCA
* * * * *
59676360 AATTTATTTTTTTCTTATTTCATTTTATATTAAATTTTCTATTTTCAATTCAAATTTTTTCT-C-
1 AATTTATTTTTTTCTCAATTCA-TTTATATT--ATTTTCTAATTTAAATT-AAACTTTTTCTGCA
59676423 C-TCATTTAAATT
62 CTTCATTTAAATT
59676435 AAAAATTTCC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
90 20 0.31
91 19 0.30
92 1 0.02
93 15 0.23
94 9 0.14
ACGTcount: A:0.27, C:0.12, G:0.01, T:0.59
Consensus pattern (90 bp):
AATTTATTTTTTTCTCAATTCATTTATATTATTTTCTAATTTAAATTAAACTTTTTCTGCACTTC
ATTTAAATTTTCTATTTTCAATGCA
Found at i:59679646 original size:50 final size:50
Alignment explanation
Indices: 59679584--59679859 Score: 281
Period size: 50 Copynumber: 5.5 Consensus size: 50
59679574 ATACTATGTA
*
59679584 GGCCATTGACAGGCCAGCACCGCAAAAA-TTCTTTTCGTACTGTTGGTGCC
1 GGCCATTGACAGGCCAGCACC-CAAAAATTTTTTTTCGTACTGTTGGTGCC
* *
59679634 GGCCATTAACAGGCCAGCACCCAAAATTTTTTTTTCGTACTGTTGGTGCC
1 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCGTACTGTTGGTGCC
* * * *
59679684 GGCCATTGACAGGCAAGCGCACCTATAAAATTTTTTTTCGTACTGCTGGTGTC
1 GGCCATTGACAGGCCA--GCACCCA-AAAATTTTTTTTCGTACTGTTGGTGCC
* *** *
59679737 GGCCATTGACAAGCCAGCATGAAAAAATTTTTTTTTCGT-CTGGTGGTGCC
1 GGCCATTGACAGGCCAGCACCCAAAAA-TTTTTTTTCGTACTGTTGGTGCC
* * * ** *
59679787 GACCATTGACAGGCCAGCA-CCTAAATTTTTTTTTCGTA-TACTGATGCC
1 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCGTACTGTTGGTGCC
* * *
59679835 GGCTATTAACAAGGCCAACACCCAA
1 GGCCATTGAC-AGGCCAGCACCCAA
59679860 TTTTTTTTTT
Statistics
Matches: 188, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
48 25 0.13
49 16 0.09
50 88 0.47
51 15 0.08
52 6 0.03
53 38 0.20
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCGTACTGTTGGTGCC
Found at i:59679740 original size:103 final size:98
Alignment explanation
Indices: 59679586--59679869 Score: 302
Period size: 103 Copynumber: 2.8 Consensus size: 98
59679576 ACTATGTAGG
* * * * *
59679586 CCATTGACAGGCCAGCACCGCAAAAATTCTTTTCGTACTGTTGGTGCCGGCCATTAACAGGCCAG
1 CCATTGACAGGCAAGCACC-TAAAATTTTTTTTCGTACTGCTGGTGCCGGCCATTAACAGGCCAG
* *
59679651 CACCCAAAATTTTTTTTTCGTACTGTTGGTGCCGG
65 CACCCAAAATTTTTTTTTCGT-CTGGTGGTGCCGA
* * *
59679686 CCATTGACAGGCAAGCGCACCTATAAAATTTTTTTTCGTACTGCTGGTGTCGGCCATTGACAAGC
1 CCATTGACAGGCAA--GCACC--TAAAATTTTTTTTCGTACTGCTGGTGCCGGCCATTAACAGGC
***
59679751 CAGCATGAAAAAATTTTTTTTTCGTCTGGTGGTGCCGA
62 CAGCA-CCCAAAATTTTTTTTTCGTCTGGTGGTGCCGA
* * * * * *
59679789 CCATTGACAGGCCAGCACCTAAATTTTTTTTTCGTA-TACTGATGCCGGCTATTAACAAGGCCAA
1 CCATTGACAGGCAAGCACCTAAAATTTTTTTTCGTACTGCTGGTGCCGGCCATTAAC-AGGCCAG
*
59679853 CACCC-AATTTTTTTTTT
65 CACCCAAAATTTTTTTTT
59679870 GTTTTTTAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
97 11 0.07
98 15 0.10
99 23 0.15
100 13 0.09
101 5 0.03
102 5 0.03
103 64 0.42
104 16 0.11
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (98 bp):
CCATTGACAGGCAAGCACCTAAAATTTTTTTTCGTACTGCTGGTGCCGGCCATTAACAGGCCAGC
ACCCAAAATTTTTTTTTCGTCTGGTGGTGCCGA
Found at i:59682343 original size:23 final size:23
Alignment explanation
Indices: 59682317--59682365 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
59682307 AAAAGAGAAA
59682317 ATATTAAAAATATTAAAATTGAT
1 ATATTAAAAATATTAAAATTGAT
59682340 ATATTAAAAATATTAAAATTGAT
1 ATATTAAAAATATTAAAATTGAT
59682363 ATA
1 ATA
59682366 AACTTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATATTAAAAATATTAAAATTGAT
Found at i:59682373 original size:20 final size:22
Alignment explanation
Indices: 59682316--59682379 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 22
59682306 AAAAAGAGAA
59682316 AATATTAAAAATATTAAAATTG
1 AATATTAAAAATATTAAAATTG
59682338 ATATATTAAAAATATTAAAATTG
1 A-ATATTAAAAATATTAAAATTG
**
59682361 -ATA-TAAACTTATTAAAATT
1 AATATTAAAAATATTAAAATT
59682380 AAAAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.36
21 3 0.08
22 1 0.03
23 21 0.54
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (22 bp):
AATATTAAAAATATTAAAATTG
Found at i:59682395 original size:27 final size:27
Alignment explanation
Indices: 59682365--59682426 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
59682355 AAATTGATAT
* *
59682365 AAACTTATTAAAATTAAAAAAATATAA-
1 AAACTAATGAAAATT-AAAAAATATAAC
* *
59682392 AAACTAATGAATATTATAAAATATAAC
1 AAACTAATGAAAATTAAAAAATATAAC
59682419 AAACTAAT
1 AAACTAAT
59682427 AAATTATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (27 bp):
AAACTAATGAAAATTAAAAAATATAAC
Found at i:59683016 original size:9 final size:9
Alignment explanation
Indices: 59683002--59683036 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
59682992 TCAATTAAAT
59683002 AAAAAATTA
1 AAAAAATTA
59683011 AAAAAATTA
1 AAAAAATTA
*
59683020 AAAAAAATA
1 AAAAAATTA
59683029 AAAAAATT
1 AAAAAATT
59683037 GGTTCAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:59683231 original size:22 final size:23
Alignment explanation
Indices: 59683201--59683253 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
59683191 TAATACTTTT
*
59683201 TATGATTTTTAT-AGAATTAT-AA
1 TATG-TTTTTATAAAAATTATAAA
*
59683223 TATGTTTTTATAAAAATTTTAAA
1 TATGTTTTTATAAAAATTATAAA
59683246 TATGTTTT
1 TATGTTTT
59683254 ATTAATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 10 0.37
23 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
TATGTTTTTATAAAAATTATAAA
Found at i:59683359 original size:21 final size:20
Alignment explanation
Indices: 59683311--59683364 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
59683301 TTAATATTTA
59683311 ATAATTTTTAT-ATCTCTTG
1 ATAATTTTTATGATCTCTTG
* * *
59683330 ATTATTTTTATGATCTTTTTT
1 ATAATTTTTATGATC-TCTTG
59683351 ATAATTTTTATGAT
1 ATAATTTTTATGAT
59683365 AATTTTATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 10 0.34
20 3 0.10
21 16 0.55
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (20 bp):
ATAATTTTTATGATCTCTTG
Found at i:59683370 original size:21 final size:20
Alignment explanation
Indices: 59683333--59683379 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
59683323 TCTCTTGATT
**
59683333 ATTTTTATGATCTTTTTTATA
1 ATTTTTATGAT-AATTTTATA
*
59683354 ATTTTTATGATAATTTTATG
1 ATTTTTATGATAATTTTATA
59683374 ATTTTT
1 ATTTTT
59683380 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (20 bp):
ATTTTTATGATAATTTTATA
Found at i:59683371 original size:11 final size:12
Alignment explanation
Indices: 59683328--59683375 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
59683318 TTATATCTCT
*
59683328 TGATTATTTTTA
1 TGATAATTTTTA
*
59683340 TGAT-CTTTTT-
1 TGATAATTTTTA
59683350 T-ATAATTTTTA
1 TGATAATTTTTA
59683361 TGATAA-TTTTA
1 TGATAATTTTTA
59683372 TGAT
1 TGAT
59683376 TTTTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 2 0.06
10 6 0.19
11 15 0.48
12 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (12 bp):
TGATAATTTTTA
Found at i:59683388 original size:19 final size:20
Alignment explanation
Indices: 59683347--59683392 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
59683337 TTATGATCTT
* *
59683347 TTTTATAATTTTTATGATAA
1 TTTTATGATTTTTATAATAA
*
59683367 TTTTATGATTTTT-TAATTA
1 TTTTATGATTTTTATAATAA
59683386 TTTTATG
1 TTTTATG
59683393 GAAAAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTATGATTTTTATAATAA
Found at i:59686748 original size:19 final size:19
Alignment explanation
Indices: 59686720--59686759 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
59686710 TTTGATTAAG
59686720 AGTGACATGGTTACAACTA
1 AGTGACATGGTTACAACTA
*
59686739 AGTGATATGGTTACAACTA
1 AGTGACATGGTTACAACTA
59686758 AG
1 AG
59686760 AAATTATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (19 bp):
AGTGACATGGTTACAACTA
Found at i:59701749 original size:18 final size:19
Alignment explanation
Indices: 59701726--59701763 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
59701716 GGAAGCAAGC
*
59701726 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
59701744 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
59701763 A
1 A
59701764 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:59708925 original size:21 final size:21
Alignment explanation
Indices: 59708899--59708939 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59708889 ATCTGCTCAA
* *
59708899 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
59708920 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
59708940 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:59714493 original size:17 final size:19
Alignment explanation
Indices: 59714471--59714510 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59714461 AATTATTGTT
59714471 TAAAAA-GAAA-AAAAATA
1 TAAAAATGAAATAAAAATA
*
59714488 TAAAAATTAAATAAAAATA
1 TAAAAATGAAATAAAAATA
59714507 TAAA
1 TAAA
59714511 TATCTCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 3 0.15
19 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (19 bp):
TAAAAATGAAATAAAAATA
Found at i:59721329 original size:29 final size:29
Alignment explanation
Indices: 59721278--59721336 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
59721268 TTTTTTTGTA
*
59721278 TTTCCTTTTGAAGAATTCATGGAAAGCTT
1 TTTCCTTTTGAAGAATGCATGGAAAGCTT
* **
59721307 TTTCCTTTTGAAGGATGGTTGGAAAGCTT
1 TTTCCTTTTGAAGAATGCATGGAAAGCTT
59721336 T
1 T
59721337 ATTATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (29 bp):
TTTCCTTTTGAAGAATGCATGGAAAGCTT
Found at i:59721879 original size:12 final size:12
Alignment explanation
Indices: 59721844--59721902 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
59721834 GTTCACGAAC
* *
59721844 AAGCTTATTTAA
1 AAGCTTGTTTAT
*
59721856 AAGCTCGTTTAT
1 AAGCTTGTTTAT
59721868 AAGCTTGTTTAT
1 AAGCTTGTTTAT
*
59721880 -TGACTTGTTTAT
1 AAG-CTTGTTTAT
*
59721892 AA-CTTATTTAT
1 AAGCTTGTTTAT
59721903 TTATTAATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
11 9 0.24
12 29 0.76
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (12 bp):
AAGCTTGTTTAT
Found at i:59722122 original size:23 final size:23
Alignment explanation
Indices: 59722074--59722128 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
59722064 ATTATTTATT
**
59722074 AACATTGTTCGTTTAATGTTCGTG
1 AACA-TGTTCGTTTAATGTTAATG
59722098 AACATGTTCGTTTAA-GTTAAATG
1 AACATGTTCGTTTAATGTT-AATG
*
59722121 AACGTGTT
1 AACATGTT
59722129 TGCGAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.11
23 20 0.74
24 4 0.15
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (23 bp):
AACATGTTCGTTTAATGTTAATG
Found at i:59734733 original size:35 final size:36
Alignment explanation
Indices: 59734687--59734763 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 36
59734677 TATGATGAAA
59734687 AAAAAATTATAAATGTACTTTATTTAATTTTAA-TT
1 AAAAAATTATAAATGTACTTTATTTAATTTTAATTT
*
59734722 AAAATATTATAAATGTACTTTATTTAATTTTAATTT
1 AAAAAATTATAAATGTACTTTATTTAATTTTAATTT
59734758 AAAAAA
1 AAAAAA
59734764 AAATTTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 32 0.82
36 7 0.18
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (36 bp):
AAAAAATTATAAATGTACTTTATTTAATTTTAATTT
Found at i:59736374 original size:72 final size:73
Alignment explanation
Indices: 59736256--59736440 Score: 354
Period size: 72 Copynumber: 2.5 Consensus size: 73
59736246 TATTATTATT
*
59736256 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59736321 ATTTTAAG
66 ATTTTAAG
59736329 TGGATGTAATGAT-AAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59736393 ATTTTAAG
66 ATTTTAAG
59736401 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
59736441 GTCAAGTTGT
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
72 71 0.65
73 39 0.35
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:59740656 original size:3 final size:3
Alignment explanation
Indices: 59740648--59740679 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
59740638 ATCACATGTT
*
59740648 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59740680 TGGATGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:59740799 original size:73 final size:73
Alignment explanation
Indices: 59740680--59740865 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
59740670 TATTATTATT
*
59740680 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59740745 ATTTTAAG
66 ATTTTAAG
*
59740753 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59740818 ATTTTAAG
66 ATTTTAAG
59740826 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
59740866 GTCAAGTTGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:59751722 original size:18 final size:18
Alignment explanation
Indices: 59751679--59751723 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
59751669 GTTTGAAAAA
**
59751679 AAATATAAATATGTACAT
1 AAATATAAATATACACAT
*
59751697 AAAAATAAATATACACAT
1 AAATATAAATATACACAT
*
59751715 ATATATAAA
1 AAATATAAA
59751724 GATAAAATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATATAAATATACACAT
Found at i:59751742 original size:28 final size:29
Alignment explanation
Indices: 59751711--59751777 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
59751701 ATAAATATAC
59751711 ACATATATATAAAGAT-AAAATAATAATT
1 ACATATATATAAAGATAAAAATAATAATT
**
59751739 ACATATGA-A-AATTATAAAAATAATAATT
1 ACATAT-ATATAAAGATAAAAATAATAATT
59751767 ACAT-TAT-TAAA
1 ACATATATATAAA
59751778 ATTAAGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
26 1 0.03
27 7 0.22
28 23 0.72
29 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (29 bp):
ACATATATATAAAGATAAAAATAATAATT
Found at i:59759077 original size:19 final size:19
Alignment explanation
Indices: 59759053--59759114 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
59759043 TTTGGTTCAG
59759053 ACTTTCAATTGGTTGCTTT
1 ACTTTCAATTGGTTGCTTT
* *
59759072 ACTTTCAA-TGGCTTTGGTTGAC
1 ACTTTCAATTGG--TTGCTT--T
59759094 ACTTTCAATTGGTTGCTTT
1 ACTTTCAATTGGTTGCTTT
59759113 AC
1 AC
59759115 ATTTAAGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.09
19 10 0.29
20 5 0.15
21 5 0.15
22 8 0.24
23 3 0.09
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (19 bp):
ACTTTCAATTGGTTGCTTT
Found at i:59759082 original size:41 final size:41
Alignment explanation
Indices: 59759037--59759114 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
59759027 TGGCAATTCT
*
59759037 AATGGCTTTGGTTCAGACTTTCAATTGGTTGCTTTACTTTC
1 AATGGCTTTGGTTCACACTTTCAATTGGTTGCTTTACTTTC
*
59759078 AATGGCTTTGGTTGACACTTTCAATTGGTTGCTTTAC
1 AATGGCTTTGGTTCACACTTTCAATTGGTTGCTTTAC
59759115 ATTTAAGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.45
Consensus pattern (41 bp):
AATGGCTTTGGTTCACACTTTCAATTGGTTGCTTTACTTTC
Found at i:59765476 original size:18 final size:16
Alignment explanation
Indices: 59765439--59765473 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
59765429 ATCATTTTTT
59765439 TATTTTTAATCAAATA
1 TATTTTTAATCAAATA
59765455 TATTTTTAATCAAATA
1 TATTTTTAATCAAATA
59765471 TAT
1 TAT
59765474 ATTAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTTTAATCAAATA
Found at i:59768921 original size:13 final size:13
Alignment explanation
Indices: 59768903--59768934 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
59768893 AATCTTAATG
*
59768903 TTATTTGAATTTT
1 TTATTTGAATTAT
59768916 TTATTTGAATTAT
1 TTATTTGAATTAT
59768929 TTATTT
1 TTATTT
59768935 TTCTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TTATTTGAATTAT
Found at i:59771774 original size:16 final size:16
Alignment explanation
Indices: 59771753--59771817 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
59771743 TTCGCTATAT
59771753 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
59771769 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
*
59771785 CGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
59771801 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
59771817 T
1 T
59771818 AGCAATTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:59771861 original size:45 final size:44
Alignment explanation
Indices: 59771797--59771886 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
59771787 GAATAGAGGC
* *
59771797 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATAGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
59771842 GTAATAGAATAGAGACGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATAGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
59771886 G
1 G
59771887 GAATGGAGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 21 0.52
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.36
Consensus pattern (44 bp):
GTAATAGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:59772072 original size:18 final size:17
Alignment explanation
Indices: 59772051--59772085 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59772041 TTATTATTAA
*
59772051 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
59772069 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
59772086 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:59772134 original size:61 final size:61
Alignment explanation
Indices: 59772066--59772256 Score: 214
Period size: 61 Copynumber: 3.2 Consensus size: 61
59772056 TTTTAATTAA
59772066 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** * *
59772127 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAAT-TTATTAA
1 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
59772185 AAGTATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AA-TATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
59772247 AATATATAAT
1 AATATATAAT
59772257 ACTATAAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
58 8 0.08
59 29 0.29
60 16 0.16
61 39 0.39
62 8 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:59772165 original size:120 final size:120
Alignment explanation
Indices: 59772031--59772319 Score: 508
Period size: 120 Copynumber: 2.4 Consensus size: 120
59772021 ATAATCATAT
* *
59772031 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
59772096 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
59772151 TTTAAAATAATTATTATTAAATATAATTT-ATTAAAAGTATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAATATAATTTAATTAAAA-TATATAATTTAATAAAATTCTTAATAT
59772215 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
59772271 TTTAAAATAATTATTATTATTAAATATAATTTAATAAAAATATATAATT
1 TTTAAAAT-A--ATTATTATTAAATATAATTTAATTAAAATATATAATT
59772320 CCCCTCACTT
Statistics
Matches: 161, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
119 7 0.04
120 118 0.73
121 1 0.01
123 29 0.18
124 6 0.04
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:59780036 original size:30 final size:30
Alignment explanation
Indices: 59779984--59780046 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
59779974 TATCAGTATT
*
59779984 AGAATGCATAATGATTATTTTAATTGTAGA
1 AGAATGCATAATGATCATTTTAATTGTAGA
*
59780014 AGAATGCATAATGATCATTTTAATTGTGGA
1 AGAATGCATAATGATCATTTTAATTGTAGA
59780044 AGA
1 AGA
59780047 TATAACGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (30 bp):
AGAATGCATAATGATCATTTTAATTGTAGA
Found at i:59782539 original size:16 final size:16
Alignment explanation
Indices: 59782518--59782548 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59782508 GTTTTGCAGC
59782518 TATGGTTCACTTTTAG
1 TATGGTTCACTTTTAG
*
59782534 TATGGTTCGCTTTTA
1 TATGGTTCACTTTTA
59782549 CCGTGGAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (16 bp):
TATGGTTCACTTTTAG
Found at i:59783609 original size:26 final size:26
Alignment explanation
Indices: 59783562--59783618 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
59783552 TTCCGACTTC
59783562 CTTTTTTTTCTATTTTTGTTCTATATCT
1 CTTTTTTTTCTATTTTTGTTCT-T-TCT
59783590 CTTTTTTTTAC-A-TTTT-TTCTTTCT
1 CTTTTTTTT-CTATTTTTGTTCTTTCT
59783614 CTTTT
1 CTTTT
59783619 CATTTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 8 0.29
25 1 0.04
26 4 0.14
27 4 0.14
28 10 0.36
29 1 0.04
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.74
Consensus pattern (26 bp):
CTTTTTTTTCTATTTTTGTTCTTTCT
Found at i:59784195 original size:3 final size:3
Alignment explanation
Indices: 59784187--59784223 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
59784177 AATCTAATAC
*
59784187 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59784224 CACTCATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:59786026 original size:1 final size:1
Alignment explanation
Indices: 59786022--59786048 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
59786012 CACAAATTCT
59786022 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
59786049 CCAAGTCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:59789659 original size:41 final size:40
Alignment explanation
Indices: 59789614--59789740 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
59789604 AAACAGGCTT
59789614 TTAGCGGCG-TTTAGACAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT-GA-AAAAAACGCCACTAAAAATCAAGCA
* * **
59789655 TTAGCGGCGCTTTTATAAAAACGCCACTAAAGGTCAAGCA
1 TTAGCGGCGCTTTGAAAAAAACGCCACTAAAAATCAAGCA
*
59789695 TTAGCGGCGACTCTTCG---AAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGGCG-CT-TT-GAAAAAAACGCCACTAAAAATCAAGCA
59789734 TTAGCGG
1 TTAGCGG
59789741 TGTTTTTTGG
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
39 12 0.16
40 45 0.61
41 12 0.16
42 5 0.07
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTGAAAAAAACGCCACTAAAAATCAAGCA
Found at i:59789684 original size:40 final size:40
Alignment explanation
Indices: 59789631--59789740 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
59789621 CGTTTAGACA
* *
59789631 AAAAACGCCACTAAAAATCAAGCATTAGCGGCG-CTTTTAT
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGACTCTT-C
**
59789671 AAAAACGCCACTAAAGGTCAAGCATTAGCGGCGACTCTTC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGACTCTTC
* *
59789711 GAAAACGCCGCTAAAAAT-AAGCATTAGCGG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGG
59789741 TGTTTTTTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 12 0.20
40 45 0.74
41 4 0.07
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGGCGACTCTTC
Found at i:59789861 original size:41 final size:41
Alignment explanation
Indices: 59789804--59790162 Score: 504
Period size: 41 Copynumber: 8.7 Consensus size: 41
59789794 GTTTTTGAGG
* **
59789804 CCTTTAGCGGCGTTTTTTATGAAGCGCCGCTAATGCTCGGT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
59789845 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* *
59789886 CCTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
59789927 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * * *
59789968 CCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATTCTCTGT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* *
59790009 CCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGAT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* *
59790050 CCTTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATTCTCTGT
1 CCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * *
59790092 CCTTTAGCGGCGGTTCTTCAAAAA-CGCCGCTAATGCTCGGG
1 CCTTTAGCGGC-GTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * * * *
59790133 GCTGTAGTGGCGTTTTTGAAGATGCGCCGC
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
59790163 AAAAACATTT
Statistics
Matches: 282, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
40 8 0.03
41 228 0.81
42 45 0.16
43 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
Found at i:59790642 original size:15 final size:15
Alignment explanation
Indices: 59790588--59790656 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
59790578 GTTTAATATT
*
59790588 GGTTA-TGGGTTAAG
1 GGTTAGTGGTTTAAG
* *
59790602 GGTTAGAGG-TTAAA
1 GGTTAGTGGTTTAAG
*
59790616 AGTTAG-GAGTTTAAG
1 GGTTAGTG-GTTTAAG
* *
59790631 GTTTATTGGTTTAAG
1 GGTTAGTGGTTTAAG
59790646 GGTTAGTGGTT
1 GGTTAGTGGTT
59790657 AGGGATTTAG
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
13 1 0.02
14 15 0.36
15 25 0.60
16 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (15 bp):
GGTTAGTGGTTTAAG
Found at i:59790666 original size:8 final size:8
Alignment explanation
Indices: 59790655--59790715 Score: 58
Period size: 8 Copynumber: 8.1 Consensus size: 8
59790645 GGGTTAGTGG
59790655 TTAGGGAT
1 TTAGGGAT
59790663 TTAGGGAT
1 TTAGGGAT
*
59790671 TT-GGGGT
1 TTAGGGAT
*
59790678 TT-GGGGT
1 TTAGGGAT
59790685 TTAGGGAT
1 TTAGGGAT
*
59790693 TTAGGG-G
1 TTAGGGAT
59790700 TTA-GGAT
1 TTAGGGAT
*
59790707 ATAGGGAT
1 TTAGGGAT
59790715 T
1 T
59790716 ATCACATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 2 0.05
7 18 0.41
8 24 0.55
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.38
Consensus pattern (8 bp):
TTAGGGAT
Found at i:59790678 original size:22 final size:23
Alignment explanation
Indices: 59790648--59790715 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 23
59790638 GGTTTAAGGG
*
59790648 TTAGTGGTTAGGGATTTAGGGAT
1 TTAGGGGTTAGGGATTTAGGGAT
* *
59790671 TT-GGGGTTTGGGGTTTAGGGAT
1 TTAGGGGTTAGGGATTTAGGGAT
*
59790693 TTAGGGGTTA-GGATATAGGGAT
1 TTAGGGGTTAGGGATTTAGGGAT
59790715 T
1 T
59790716 ATCACATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 30 0.79
23 8 0.21
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (23 bp):
TTAGGGGTTAGGGATTTAGGGAT
Found at i:59790682 original size:7 final size:8
Alignment explanation
Indices: 59790638--59790701 Score: 55
Period size: 8 Copynumber: 8.5 Consensus size: 8
59790628 AAGGTTTATT
*
59790638 GGTTTAAG
1 GGTTTAGG
*
59790646 GG-TTAGT
1 GGTTTAGG
59790653 GG-TTAGG
1 GGTTTAGG
*
59790660 GATTTAGG
1 GGTTTAGG
*
59790668 GATTT-GG
1 GGTTTAGG
59790675 GGTTT-GG
1 GGTTTAGG
59790682 GGTTTAGG
1 GGTTTAGG
*
59790690 GATTTAGG
1 GGTTTAGG
59790698 GGTT
1 GGTT
59790702 AGGATATAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
7 23 0.49
8 24 0.51
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (8 bp):
GGTTTAGG
Found at i:59791440 original size:16 final size:16
Alignment explanation
Indices: 59791419--59791474 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
59791409 ACTTAGTAAT
59791419 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
59791435 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
* * *
59791451 GAAATAAATA-AATAAA
1 TAAA-AGATACAATTAA
59791467 TAAAAGAT
1 TAAAAGAT
59791475 GTGAGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.09
16 27 0.79
17 4 0.12
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.23
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:59792295 original size:27 final size:27
Alignment explanation
Indices: 59792264--59792321 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
59792254 TTCATGACTA
59792264 TCCTGTTTGTTCATAATTTTGTTTATT
1 TCCTGTTTGTTCATAATTTTGTTTATT
59792291 TCCTGTTTGTTCATAATTTTGTTTATT
1 TCCTGTTTGTTCATAATTTTGTTTATT
59792318 TCCT
1 TCCT
59792322 CATTATTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (27 bp):
TCCTGTTTGTTCATAATTTTGTTTATT
Found at i:59792398 original size:12 final size:12
Alignment explanation
Indices: 59792383--59792422 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
59792373 TGTAATACTG
*
59792383 TTTGTTCATATT
1 TTTGTTCATAAT
*
59792395 TTTGTTAATAAT
1 TTTGTTCATAAT
*
59792407 TTTGTTCATAAG
1 TTTGTTCATAAT
59792419 TTTG
1 TTTG
59792423 AAACTGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (12 bp):
TTTGTTCATAAT
Found at i:59792399 original size:24 final size:24
Alignment explanation
Indices: 59792372--59792433 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
59792362 ATTTGCAGGC
**
59792372 TTGTAATACTGTTTGTTCATATTT
1 TTGTAATACTGTTTGTTCATAAGT
*
59792396 TTGTTAATAAT-TTTGTTCATAAGT
1 TTG-TAATACTGTTTGTTCATAAGT
59792420 TTG-AA-ACTGTTTGT
1 TTGTAATACTGTTTGT
59792434 ATTACAGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.06
22 7 0.22
24 17 0.53
25 6 0.19
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (24 bp):
TTGTAATACTGTTTGTTCATAAGT
Found at i:59793395 original size:23 final size:26
Alignment explanation
Indices: 59793361--59793423 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
59793351 AATTTTCATT
*
59793361 CTTA-CATAACTTAC-TTATA-ATAA
1 CTTATCATAACTTACATTATACACAA
59793384 CTT-TCATAACTTACATTATACACAA
1 CTTATCATAACTTACATTATACACAA
59793409 CTTAT-ATAACTTACA
1 CTTATCATAACTTACA
59793424 CAAATTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 13 0.37
24 5 0.14
25 16 0.46
26 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (26 bp):
CTTATCATAACTTACATTATACACAA
Found at i:59797600 original size:21 final size:21
Alignment explanation
Indices: 59797576--59797621 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
59797566 CCAGCTTAAA
*
59797576 CAGAGGCGGCAGCGAGAGAAG
1 CAGAGGCGGCAGCAAGAGAAG
* *
59797597 CAGAGGCTGCAGCAAGGGAAG
1 CAGAGGCGGCAGCAAGAGAAG
59797618 CAGA
1 CAGA
59797622 CCAGCGTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.43, T:0.02
Consensus pattern (21 bp):
CAGAGGCGGCAGCAAGAGAAG
Found at i:59797749 original size:19 final size:19
Alignment explanation
Indices: 59797725--59797762 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59797715 GTAAATATTT
*
59797725 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
59797744 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
59797763 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:59798008 original size:43 final size:43
Alignment explanation
Indices: 59797955--59798294 Score: 330
Period size: 43 Copynumber: 7.9 Consensus size: 43
59797945 GTGTTTTTTA
* * *
59797955 AAAAAGCGCCGCTAAAGGTTAGGGTCTTTAGCAGCGTTTTCCT
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTCCT
* **
59797998 AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGT
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TCCT
* * **
59798042 -AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGGT
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TCCT
*
59798085 -AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTTCCT
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTCCT
* * * *
59798127 AAAAAACACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTCCC
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG-TTTTCCT
** * * ***
59798171 GCAAA-TGCCGCTAAAGGTTATGGTCTTTAGCGGCG-TTTGGG
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTCCT
* * * * ***
59798212 GAAAAGCACCGCTAAAGGACATGATCTTTAGCGGCGTTTGTGGG
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TCCT
* *
59798256 AAAAA-CGCCGCTAAAGGACATGGTCTTTAGCGGTGTTTT
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTT
59798295 TTTCTTAAAA
Statistics
Matches: 255, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
41 7 0.03
42 28 0.11
43 201 0.79
44 19 0.07
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTCCT
Found at i:59798186 original size:129 final size:128
Alignment explanation
Indices: 59797956--59798295 Score: 409
Period size: 129 Copynumber: 2.6 Consensus size: 128
59797946 TGTTTTTTAA
* * * * *
59797956 AAAAGCGCCGCTAAAGGTTAGGGTCTTTAGCAGCGTTTTCCTAAAAAGCGCCGCTAAAAGTCATG
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTTCCTAAAAAACGCCGCTAAAAGTCATG
* * * *
59798021 GTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGGT
66 GTCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTG-GGG
*
59798085 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTTCCTAAAAAACACCGCTAAAAGTCATG
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTTCCTAAAAAACGCCGCTAAAAGTCATG
* * * *
59798150 GTCTTTAGCGGCGTTTTTCCCG-CAAA-TGCCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGGGG
66 GTCTTTAGCGGCGTTTTT--CGTAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGGGG
* * *** * *
59798213 AAAAGCACCGCTAAAGGA-CATGATCTTTAGCGGCGTTTGT-GGGAAAAACGCCGCTAAAGGACA
1 AAAAGCGCCGCTAAA-GATCATGGTCTTTAGCGGCGTTT-TCCTAAAAAACGCCGCTAAAAGTCA
*
59798276 TGGTCTTTAGCGGTGTTTTT
64 TGGTCTTTAGCGGCGTTTTT
59798296 TTCTTAAAAC
Statistics
Matches: 184, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
128 71 0.39
129 109 0.59
130 3 0.02
131 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (128 bp):
AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTTCCTAAAAAACGCCGCTAAAAGTCATG
GTCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGGGG
Found at i:59798954 original size:18 final size:18
Alignment explanation
Indices: 59798931--59798966 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59798921 TAAGATTACT
*
59798931 TTTTTTTTTTAGTTCTAC
1 TTTTTTTTTTAATTCTAC
59798949 TTTTTTTTTTAATTCTAC
1 TTTTTTTTTTAATTCTAC
59798967 CTAAAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTTTTTAATTCTAC
Found at i:59803060 original size:27 final size:27
Alignment explanation
Indices: 59803018--59803071 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
59803008 CAACTCAACC
* *
59803018 ATAAACTAATCCTTAATCTTGATTCTA
1 ATAAACTAATCCTTAATATTAATTCTA
59803045 ATAAACTAA-CCTTTAATATTAATTCTA
1 ATAAACTAATCC-TTAATATTAATTCTA
59803072 TGACTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (27 bp):
ATAAACTAATCCTTAATATTAATTCTA
Found at i:59807694 original size:18 final size:20
Alignment explanation
Indices: 59807656--59807698 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
59807646 CTGTTTTTAT
59807656 TAAAAATTAGAAAAAATTTG
1 TAAAAATTAGAAAAAATTTG
*
59807676 TAAAAA-TATAAAAAA-TTG
1 TAAAAATTAGAAAAAATTTG
59807694 TAAAA
1 TAAAA
59807699 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAAATTAGAAAAAATTTG
Found at i:59807725 original size:10 final size:10
Alignment explanation
Indices: 59807652--59807754 Score: 54
Period size: 10 Copynumber: 10.6 Consensus size: 10
59807642 GCCTCTGTTT
*
59807652 TTATTAAAAA
1 TTATAAAAAA
*
59807662 TTAGAAAAAA
1 TTATAAAAAA
*
59807672 TT-TGTAAAAA
1 TTAT-AAAAAA
59807682 -TATAAAAAA
1 TTATAAAAAA
* **
59807691 TTGTAAAATT
1 TTATAAAAAA
*
59807701 TTAT-AAAAG
1 TTATAAAAAA
*
59807710 TCATAAAAAA
1 TTATAAAAAA
*
59807720 TTATAAAATA
1 TTATAAAAAA
*
59807730 -TAT-AGAAA
1 TTATAAAAAA
*
59807738 TATAAAAAAAA
1 T-TATAAAAAA
59807749 TTATAA
1 TTATAA
59807755 CAATTATCGT
Statistics
Matches: 66, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
8 3 0.05
9 15 0.23
10 43 0.65
11 5 0.08
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:59807728 original size:29 final size:28
Alignment explanation
Indices: 59807657--59807746 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 28
59807647 TGTTTTTATT
* * *
59807657 AAAAATTAGAAAAAATTTGTAAAAATATA
1 AAAAATTA-TAAAATTTTATAAAAATATA
* *
59807686 AAAAATTGTAAAATTTTATAAAAGTCATA
1 AAAAATTATAAAATTTTATAAAAAT-ATA
* *
59807715 AAAAATTATAAAA-TATATAGAAATATA
1 AAAAATTATAAAATTTTATAAAAATATA
59807742 AAAAA
1 AAAAA
59807747 AATTATAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 8 0.16
28 21 0.41
29 22 0.43
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAAATTATAAAATTTTATAAAAATATA
Found at i:59807984 original size:35 final size:35
Alignment explanation
Indices: 59807918--59807987 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
59807908 ATTTTATAAT
* **
59807918 TTTTTTATTATTTTTATAAAATTTTACAATTTTTA
1 TTTTTTATGATTTTTATAAAAAATTACAATTTTTA
59807953 TTTTTTATGATTTTTATAAAAAATT-CTAATTTTTA
1 TTTTTTATGATTTTTATAAAAAATTAC-AATTTTTA
59807988 ATAAATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (35 bp):
TTTTTTATGATTTTTATAAAAAATTACAATTTTTA
Found at i:59808208 original size:90 final size:88
Alignment explanation
Indices: 59808086--59808253 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 88
59808076 TTAATAAGAG
* *** * *
59808086 TAGGGGCTTAATTACTTGTTTAAAAAATTTTGAGAGTTTTTTTTTTATGCATTTTGAAAGTTCAA
1 TAGGGGCTTAATTACTTGTTTAAAAAAGTTTGAG-G-GCCTTTTTGATGCATTTTAAAAGTTCAA
59808151 GCACCCAATTGAGTGTTTAAAAAAT
64 GCACCCAATTGAGTGTTTAAAAAAT
* * * * * *
59808176 TAGGGGCTTAATTGCTTTTTTTAAGAAGTTTGAGGGCCTTTTTGATGCATTTTAAAAGTTTAAGT
1 TAGGGGCTTAATTACTTGTTTAAAAAAGTTTGAGGGCCTTTTTGATGCATTTTAAAAGTTCAAGC
*
59808241 ACTCAATTGAGTG
66 ACCCAATTGAGTG
59808254 CAAAAAAAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
88 35 0.54
89 1 0.02
90 29 0.45
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (88 bp):
TAGGGGCTTAATTACTTGTTTAAAAAAGTTTGAGGGCCTTTTTGATGCATTTTAAAAGTTCAAGC
ACCCAATTGAGTGTTTAAAAAAT
Found at i:59813833 original size:22 final size:22
Alignment explanation
Indices: 59813807--59813851 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
59813797 ATAAATGCGC
*
59813807 ATATAATATATGC-ATAATAATA
1 ATATAATATA-ACAATAATAATA
59813829 ATATAATATAACAATAATAATA
1 ATATAATATAACAATAATAATA
59813851 A
1 A
59813852 ATGCTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAATATAACAATAATAATA
Found at i:59813863 original size:19 final size:19
Alignment explanation
Indices: 59813820--59813866 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
59813810 TAATATATGC
59813820 ATAATAATAATATAATATA
1 ATAATAATAATATAATATA
* *
59813839 ACAATAATAATA-AATGCTA
1 ATAATAATAATATAAT-ATA
59813858 ATAATAATA
1 ATAATAATA
59813867 TAGTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAATAATATAATATA
Found at i:59815545 original size:132 final size:132
Alignment explanation
Indices: 59815329--59816325 Score: 1552
Period size: 132 Copynumber: 7.6 Consensus size: 132
59815319 CATCAGTCTA
* * * * * * * * *
59815329 CTCCACTACTGCTTAGGGAGATAAGATCTGCTATTCTTCGATCGATTCCACTGTCGACCAAGGAG
1 CTCCACTAATGCTTAAGGAGATAAGATCTG-AAATCTTCAATCTATTCCACTGCCAACCAGGGAG
59815394 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACTC-CAGGGAGGTAAAATCTGCCATCTTCGA
65 ATAGAATTACTGGCTTCAATGTACTCCACTGTAAC-CACAGGGAGGTAAAATCTGCCATCTTCGA
59815458 TCTG
129 TCTG
* * *
59815462 CTCCACTAATGCTTAGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGGGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
59815527 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAAT-TCGTCATCTTCGAT
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTCGAT
59815591 CTG
130 CTG
** * *
59815594 CTCCACTACCGCTTAAAGAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
59815659 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
*
59815724 TA
131 TG
* * * *
59815726 CTCTACTAATGCCTAAGGATATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACAAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
*
59815791 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATATTCGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
59815856 TG
131 TG
** *
59815858 CTCCACTACCGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
59815923 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
*
59815988 TA
131 TG
* *
59815990 CTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
*
59816055 TAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
59816120 TG
131 TG
* * *
59816122 CTTCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
59816187 TAGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTGCCATCTTTGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
59816251 TG
131 TG
* *
59816253 CTCCACTAATG-TCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTCAACCAGGGAG
1 CTCCACTAATGCT-TAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
59816317 ATAGAATTA
65 ATAGAATTA
59816326 GCATCTTCGA
Statistics
Matches: 797, Mismatches: 63, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
131 125 0.16
132 643 0.81
133 29 0.04
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (132 bp):
CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
TG
Found at i:59815924 original size:44 final size:45
Alignment explanation
Indices: 59815611--59816319 Score: 172
Period size: 44 Copynumber: 16.1 Consensus size: 45
59815601 ACCGCTTAAA
*
59815611 GAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * *
59815655 GAGAT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCTCAGG
1 GAGATAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** ** * * * *
59815699 GAGGTAAAATCTGCCATCTTTGATCTACTCTACT---AATGCCTAAG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CCCAGG
* *
59815743 GATATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CAAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * *
59815787 GAGAT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCACAGG
1 GAGATAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** * * ** * * ** *
59815831 GAGGTAAAATCTGCCATATTCGATCTGCTCCACTACC-GCTTAAG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
*
59815875 GAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * *
59815919 GAGAT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCTCAGG
1 GAGATAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** ** * * * *
59815963 GAGGTAAAATCTGCCATCTTTGATCTACTCTACT---AATGCCTAAG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CCCAGG
59816007 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * * *
59816051 GAGAT-AGAAT-T-ACTAGCTTCAATGTACTCCACTG-TAACCACAGG
1 GAGATAAG-ATCTGA-AATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** * * *
59816095 GAGGTAAAATCTGCCATCTTCGATCTGCTT-CACT---AATGCCTAGG
1 GAGATAAGATCTGAAATCTTCAATCT-ATTCCACTGCCAA--CCCAGG
59816139 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
*** * * * *
59816183 GAGAT-AGAAT-T-ACGGCTTCAATGTACTCCACTG-TAACCACAAG
1 GAGATAAG-ATCTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** ** ** * *
59816226 GAGGTAAAATCTGCCATCTTTGATCTGCTCCACT---AATGTCTAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CCCAGG
*
59816270 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGTCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
59816314 GAGATA
1 GAGATA
59816320 GAATTAGCAT
Statistics
Matches: 469, Mismatches: 132, Indels: 128
0.64 0.18 0.18
Matches are distributed among these distances:
41 2 0.00
42 36 0.08
43 101 0.22
44 231 0.49
45 81 0.17
46 10 0.02
47 8 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (45 bp):
GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
Found at i:59816114 original size:88 final size:90
Alignment explanation
Indices: 59815476--59816120 Score: 223
Period size: 88 Copynumber: 7.3 Consensus size: 90
59815466 ACTAATGCTT
* * ** * * *
59815476 AGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC-CAGGGGGATAGAAT-TACTGG
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
* *
59815539 CTTCAATGTACTCCACTGTAACCCC
66 CTTCAATCTACTCCACTGTAACCAC
* * * * * * * **
59815564 AGGGAGGTAAAAT-TCGTCATCTTCGATCTGCTCCACTACC-GCTTAAAGAGATA-AGATCTGA-
1 AGGGAGATAAAATCT-GCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGA-ATCT-AC
* * * * *
59815625 AATCTTCAATCTATTCCGCTGCCAA-C-C
63 TAGCTTCAATCTACTCCACTG-TAACCAC
* * *** * * * * * *
59815652 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGCCA
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAA-CTCAGGGAGATAGAATCTACTA
* ** *
59815715 TCTTTGATCTACTCTAC--TAATGCCTA-
65 GCTTCAATCTACTCCACTGTAA--CC-AC
* * ** * * *
59815741 A-GGATATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC-AAGGGAGATAGAAT-TACTGG
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
*
59815803 CTTCAATGTACTCCACTGTAACCAC
66 CTTCAATCTACTCCACTGTAACCAC
* * * * * * * * *
59815828 AGGGAGGTAAAATCTGCCATATTCGATCTGCTCCACTACC-GCTTAAGGAGATA-AGATCTGA-A
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGA-ATCT-ACT
* * * *
59815890 ATCTTCAATCTATTCCGCTGCCAA-C-C
64 AGCTTCAATCTACTCCACTG-TAACCAC
* * *** * * * * * *
59815916 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGCCA
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAA-CTCAGGGAGATAGAATCTACTA
* ** *
59815979 TCTTTGATCTACTCTAC--TAATGCCTA-
65 GCTTCAATCTACTCCACTGTAA--CC-AC
* ** *
59816005 A-GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC-CAGGGAGATAGAAT-TACTAG
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
*
59816067 CTTCAATGTACTCCACTGTAACCAC
66 CTTCAATCTACTCCACTGTAACCAC
* *
59816092 AGGGAGGTAAAATCTGCCATCTTCGATCT
1 AGGGAGATAAAATCTGCCATCTTCAATCT
59816121 GCTTCACTAA
Statistics
Matches: 380, Mismatches: 136, Indels: 82
0.64 0.23 0.14
Matches are distributed among these distances:
85 4 0.01
86 2 0.01
87 69 0.18
88 215 0.57
89 80 0.21
90 10 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (90 bp):
AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
CTTCAATCTACTCCACTGTAACCAC
Found at i:59818153 original size:9 final size:9
Alignment explanation
Indices: 59818139--59818204 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
59818129 AGCGGGGTTC
59818139 TTTTTCTTT
1 TTTTTCTTT
59818148 TTTTTC-TT
1 TTTTTCTTT
**
59818156 TTTCCCTTT
1 TTTTTCTTT
59818165 TTTTTC-TT
1 TTTTTCTTT
*
59818173 TTTTTGTTT
1 TTTTTCTTT
*
59818182 TTTTTGTTT
1 TTTTTCTTT
59818191 TCTCTTT-TTT
1 T-T-TTTCTTT
59818201 TTTT
1 TTTT
59818205 GGATTGAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 15 0.31
9 25 0.52
10 5 0.10
11 3 0.06
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:59818166 original size:17 final size:17
Alignment explanation
Indices: 59818139--59818202 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
59818129 AGCGGGGTTC
59818139 TTTT-TCTTTTTTTTCT
1 TTTTCTCTTTTTTTTCT
*
59818155 TTTTCCCTTTTTTTTCT
1 TTTTCTCTTTTTTTTCT
* * *
59818172 TTTTTTGTTTTTTTT-G
1 TTTTCTCTTTTTTTTCT
59818188 TTTTCTCTTTTTTTT
1 TTTTCTCTTTTTTTT
59818203 TTGGATTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 17 0.43
17 23 0.57
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTCTCTTTTTTTTCT
Found at i:59823077 original size:22 final size:22
Alignment explanation
Indices: 59823051--59823095 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
59823041 ATAAATGCGC
*
59823051 ATATAATATATGC-ATAATAATA
1 ATATAATATA-ACAATAATAATA
59823073 ATATAATATAACAATAATAATA
1 ATATAATATAACAATAATAATA
59823095 A
1 A
59823096 ATGCTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAATATAACAATAATAATA
Found at i:59823107 original size:19 final size:19
Alignment explanation
Indices: 59823064--59823110 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
59823054 TAATATATGC
59823064 ATAATAATAATATAATATA
1 ATAATAATAATATAATATA
* *
59823083 ACAATAATAATA-AATGCTA
1 ATAATAATAATATAAT-ATA
59823102 ATAATAATA
1 ATAATAATA
59823111 TAGTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAATAATATAATATA
Found at i:59825926 original size:47 final size:45
Alignment explanation
Indices: 59825865--59825959 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 45
59825855 TATCCACAAT
** *
59825865 TCTGTTTGACAAC-TTGTCTGCAATTATGGTGACTTGACCATATACA
1 TCTGTTTGACAACTTTG-CTGCAA-TATAATGACTTGACCACATACA
* *
59825911 TCTGTTCTGGCAACTTTGCTGCAATATAATGACTTGACCACATATA
1 TCTGTT-TGACAACTTTGCTGCAATATAATGACTTGACCACATACA
59825957 TCT
1 TCT
59825960 AATATGTCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.64
47 12 0.29
48 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (45 bp):
TCTGTTTGACAACTTTGCTGCAATATAATGACTTGACCACATACA
Found at i:59827147 original size:43 final size:42
Alignment explanation
Indices: 59827084--59827309 Score: 299
Period size: 43 Copynumber: 5.3 Consensus size: 42
59827074 TTTTAAAAAT
* * * *
59827084 AAACGCCGCTAAAGAGCAAGACCTTTAGCGGTGCTTCCACTAC
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTCAAC-AC
*
59827127 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTC-AACAC
* *
59827170 AAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTCTAACAC
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTC-AACAC
* *
59827213 AAACGCCGCTAAAGAACAATACCTTTAGCGGCGCTTCTAACAC
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTC-AACAC
* * *
59827256 AAACGCCACTAAAGATCATGACCTTTAGCGGCGCTTCTACAAC
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTCAAC-AC
59827299 AAACGCCACTA
1 AAACGCCACTA
59827310 TAAAGAGGAC
Statistics
Matches: 166, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 2 0.01
43 163 0.98
44 1 0.01
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.18
Consensus pattern (42 bp):
AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTCAACAC
Found at i:59827350 original size:41 final size:41
Alignment explanation
Indices: 59827297--59827406 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
59827287 CGCTTCTACA
59827297 ACAAACGCCACTATAAAGAGGACTTTTAGTGGCTCTTTTTG
1 ACAAACGCCACTATAAAGAGGACTTTTAGTGGCTCTTTTTG
59827338 ACAAACGCCACTATAAAGAGGACTTTTAGTGGCTCTTTTTG
1 ACAAACGCCACTATAAAGAGGACTTTTAGTGGCTCTTTTTG
* * * *
59827379 ACAAACGCCGCTAAAAACATGACTTTTA
1 ACAAACGCCACTATAAAGAGGACTTTTA
59827407 AAAAAATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
ACAAACGCCACTATAAAGAGGACTTTTAGTGGCTCTTTTTG
Found at i:59828038 original size:12 final size:12
Alignment explanation
Indices: 59828021--59828050 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59828011 GAATGCGTCC
59828021 TATGATCAACAT
1 TATGATCAACAT
59828033 TATGATCAACAT
1 TATGATCAACAT
*
59828045 TGTGAT
1 TATGAT
59828051 ATTCACCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (12 bp):
TATGATCAACAT
Done.