Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 64 of 318
Found at i:18592909 original size:29 final size:29
Alignment explanation
Indices: 18592877--18593011 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
18592867 ATACCCTCCG
** * *
18592877 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
18592906 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
18592935 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
18592964 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
18592993 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
18593012 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:18592944 original size:58 final size:58
Alignment explanation
Indices: 18592823--18593012 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
18592813 TACTCGATTT
* * * *** *
18592823 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
18592881 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
18592939 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
18592997 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
18593013 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:18603318 original size:27 final size:26
Alignment explanation
Indices: 18603270--18603329 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
18603260 GCGAGGCTGC
*
18603270 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
18603297 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
18603323 CAGATAT
1 CAGATAT
18603330 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18603416 original size:27 final size:26
Alignment explanation
Indices: 18603368--18603419 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18603358 GCGAGGCTGC
*
18603368 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
18603394 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
18603420 TTGAGGCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18606797 original size:6 final size:6
Alignment explanation
Indices: 18606766--18607014 Score: 127
Period size: 6 Copynumber: 40.3 Consensus size: 6
18606756 AAGAAACATT
* * * *
18606766 ATCAGA A-CTAGA ATCAAA ATGAGA ATCGGA ATCAGA ATCAGGTA A-CACA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
18606815 ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * *
18606864 ATCAGGTA A-CAGA ATCAGA ATCAGA ATCAGA ATCAGA GTTAG- GTGACAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
18606914 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGA ATCAAA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
18606963 ATTAG- GTGACCGA ATCAGA ATCTGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
18607013 AT
1 AT
18607015 GTGAATGCAA
Statistics
Matches: 182, Mismatches: 38, Indels: 46
0.68 0.14 0.17
Matches are distributed among these distances:
5 13 0.07
6 144 0.79
7 17 0.09
8 8 0.04
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:18606822 original size:25 final size:25
Alignment explanation
Indices: 18606766--18606960 Score: 115
Period size: 25 Copynumber: 7.9 Consensus size: 25
18606756 AAGAAACATT
* *
18606766 ATCAGAA-CTAGAATCA-AAATGAGA
1 ATCAGAATC-AGAATCAGGAATCAGA
* *
18606790 ATCGGAATCAGAATCAGGTAA-CACA
1 ATCAGAATCAGAATCAGG-AATCAGA
18606815 ATCAGAATCAGAATCA-GAATCAGA
1 ATCAGAATCAGAATCAGGAATCAGA
* * * *
18606839 ATTAG-GTGACAGAATCA-GAATTAGT
1 ATCAGAAT--CAGAATCAGGAATCAGA
18606864 ATCAGGTAA-CAGAATCA-GAATCAGA
1 ATCA-G-AATCAGAATCAGGAATCAGA
* * * *
18606889 ATCAGAATCAGAGTTAGGTGA-CAAA
1 ATCAGAATCAGAATCAGG-AATCAGA
*
18606914 ATCAGAATCAGTATCAGGTAA-CAGA
1 ATCAGAATCAGAATCAGG-AATCAGA
*
18606939 ATCAAAATCAGAATCA-GAATCA
1 ATCAGAATCAGAATCAGGAATCA
18606961 AAATTAGGTG
Statistics
Matches: 133, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
23 7 0.05
24 31 0.23
25 91 0.68
26 4 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGAATCAGA
Found at i:18606828 original size:37 final size:37
Alignment explanation
Indices: 18606775--18606900 Score: 132
Period size: 37 Copynumber: 3.4 Consensus size: 37
18606765 TATCAGAACT
* *
18606775 AGAATCAAAATGAGAATCGGAATCAGAATCAGGTAAC
1 AGAATCAGAATCAGAATCGGAATCAGAATCAGGTAAC
* * * *
18606812 ACAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCGGAATCAGAATCAGGTAAC
* *
18606849 AGAATCAGAATTAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATC-GG-AATCAGAATCAGGTAA-C
18606886 AGAATCAGAATCAGA
1 AGAATCAGAATCAGA
18606901 GTTAGGTGAC
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
36 1 0.01
37 61 0.85
38 8 0.11
39 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCGGAATCAGAATCAGGTAAC
Found at i:18606829 original size:31 final size:31
Alignment explanation
Indices: 18606787--18607014 Score: 166
Period size: 31 Copynumber: 7.4 Consensus size: 31
18606777 AATCAAAATG
* *
18606787 AGAATCGGAATCAGAATCAGGTAACACAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
18606818 AGAATCAGAATCAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
* *
18606849 AGAATCAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
18606880 AGAATCAGAATCAGAATCAGAGTTA-GGTGA-C
1 AGAATCAGAATCAGAATCAG-GTAACAG-AATC
* *
18606911 AAAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * * *
18606942 AAAATCAGAATCAGAATCA--AAATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
* * *
18606973 CGAATCAGAATCTGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
18607004 AGAATCAGAAT
1 AGAATCAGAAT
18607015 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 30, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
29 6 0.04
30 8 0.05
31 122 0.81
32 9 0.06
33 6 0.04
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:18606860 original size:19 final size:19
Alignment explanation
Indices: 18606794--18606984 Score: 106
Period size: 19 Copynumber: 9.6 Consensus size: 19
18606784 ATGAGAATCG
18606794 GAATCAGAATCAGGTAACA
1 GAATCAGAATCAGGTAACA
*
18606813 CAATCAGAATCA-G-AATCA
1 GAATCAGAATCAGGTAA-CA
* *
18606831 GAATCAGAATTAGGTGACA
1 GAATCAGAATCAGGTAACA
18606850 GAATCAGAATTAGTATCAGGTAACA
1 GAATCAG----A--ATCAGGTAACA
18606875 GAATCAGAATCA-G-AATCA
1 GAATCAGAATCAGGTAA-CA
* *
18606893 GAATCAGAGTTAGGTGACAAAATCA
1 GAATCAGAATCAGGT-----AA-CA
*
18606918 GAATCAGTATCAGGTAACA
1 GAATCAGAATCAGGTAACA
*
18606937 GAATCAAAATCA-G-AATCA
1 GAATCAGAATCAGGTAA-CA
* * * *
18606955 GAATCAAAATTAGGTGACC
1 GAATCAGAATCAGGTAACA
18606974 GAATCAGAATC
1 GAATCAGAATC
18606985 TGTATCAGGT
Statistics
Matches: 134, Mismatches: 18, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
17 6 0.04
18 40 0.30
19 49 0.37
20 4 0.03
21 1 0.01
23 1 0.01
25 33 0.25
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
GAATCAGAATCAGGTAACA
Found at i:18606870 original size:62 final size:62
Alignment explanation
Indices: 18606787--18607014 Score: 366
Period size: 62 Copynumber: 3.7 Consensus size: 62
18606777 AATCAAAATG
* * *
18606787 AGAATCGGAATCAGAATCAGGTAACACAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* *
18606849 AGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAGTTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
18606911 AAAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* *
18606973 CGAATCAGAATCTGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
18607015 GTGAATGCAA
Statistics
Matches: 152, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 152 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:18606917 original size:37 final size:37
Alignment explanation
Indices: 18606848--18606930 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
18606838 AATTAGGTGA
* *
18606848 CAGAATCAGAATTAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
* *
18606885 CAGAATCAGAATCAG-AGTTAGGTGACAAAATCAGAAT
1 CAGAATCAGAATCAGTA-TCAGGTAACAAAATCAGAAT
*
18606922 CAGTATCAG
1 CAGAATCAG
18606931 GTAACAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 1 0.03
37 39 0.98
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (37 bp):
CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
Found at i:18606978 original size:37 final size:37
Alignment explanation
Indices: 18606913--18606984 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
18606903 TAGGTGACAA
**
18606913 AATCAGAATCAGTATCAGGTAACAGAATCAAAATCAG
1 AATCAGAATCAAAATCAGGTAACAGAATCAAAATCAG
* * * *
18606950 AATCAGAATCAAAATTAGGTGACCGAATCAGAATC
1 AATCAGAATCAAAATCAGGTAACAGAATCAAAATC
18606985 TGTATCAGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAAAATCAGGTAACAGAATCAAAATCAG
Found at i:18607180 original size:27 final size:26
Alignment explanation
Indices: 18607132--18607239 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 26
18607122 AGCATGGCTG
* * * *
18607132 CCAGAATAGGTATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
18607158 CTAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
18607185 CCAGAACAGATATTTGTGGTATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* * *
18607212 CCAGAAACAGATAATATGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
18607239 C
1 C
18607240 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 11 0.16
27 48 0.72
28 8 0.12
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:18607426 original size:22 final size:22
Alignment explanation
Indices: 18607398--18607462 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
18607388 GCAAATACAT
*
18607398 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
18607420 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
18607442 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
18607463 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:18608038 original size:27 final size:27
Alignment explanation
Indices: 18608005--18608117 Score: 156
Period size: 27 Copynumber: 4.2 Consensus size: 27
18607995 GGCATCTTGG
18608005 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
18608032 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
18608059 TAATTCTATCCTACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
18608085 GTAATTCTACCCTATAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCGA
18608113 TAATT
1 TAATT
18608118 TTGTAAATTG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 73 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:18608093 original size:54 final size:54
Alignment explanation
Indices: 18607977--18608117 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 54
18607967 GGAAAAAATT
* * * * *
18607977 ATAATTTTACCCCACAAGGGCATCTT-GGTAATTCTACCCTACAGGGGTATTTCG
1 ATAATTCTACCCTACAAGGGTAT-TTCGATAATTCTACCCTACAGGGGTATTTAG
* *
18608031 ATATTTCTACCCTACAAGGGTATTTCGATAATTCTATCCTACAGGGGTATTTTAG
1 ATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTA-TTTAG
* * *
18608086 -TAATTCTACCCTATAGGGGTATTTCAATAATT
1 ATAATTCTACCCTACAAGGGTATTTCGATAATT
18608118 TTGTAAATTG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
53 2 0.03
54 68 0.92
55 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (54 bp):
ATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTAG
Found at i:18608168 original size:27 final size:27
Alignment explanation
Indices: 18608138--18608279 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
18608128 AGGGTAAAAC
* * *
18608138 GGTAATTCTATAAATCAGGGGTACTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
18608165 GGTAATTTTACAAGTC-GAGGGTATTTT
1 GGTAATTTTACAAATCAG-GGGTATTTT
*
18608192 GGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
18608219 GGTAATTTTACAAACCTA-GGGTATTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
*
18608246 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
18608273 AGTAATT
1 GGTAATT
18608280 CTAGTCTACA
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
26 2 0.02
27 98 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCAGGGGTATTTT
Found at i:18608171 original size:54 final size:54
Alignment explanation
Indices: 18608113--18608279 Score: 138
Period size: 54 Copynumber: 3.1 Consensus size: 54
18608103 GGTATTTCAA
** * *
18608113 TAATTTTGTAAATTGAGGGTAAAACGGTAA-TTCTATAAATCAGGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTAAAACGGTAATTTC-ACAAATCAGGGGTACTTTGG
* **** *
18608167 TAATTTTACAAGTCGAGGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTAAAACGGTAATTTCACAAATCAGGGGTACTTTGG
* * **** * * * *
18608221 TAATTTTACAAACCTAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTAAAACGGTAATTTCACAAATCAGGGGTACTTTGG
18608275 TAATT
1 TAATT
18608280 CTAGTCTACA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 93 0.97
55 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTAAAACGGTAATTTCACAAATCAGGGGTACTTTGG
Found at i:18617920 original size:124 final size:124
Alignment explanation
Indices: 18617698--18617922 Score: 308
Period size: 124 Copynumber: 1.8 Consensus size: 124
18617688 GAATTATGTG
* * ** * * *
18617698 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * * **
18617763 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTACCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
18617822 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
18617887 GCTAAGTACCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTACCGAAGACGA-TTATGCTGGAAATTATAT
18617923 CCGGGTTAAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 1 0.01
124 85 0.99
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTACCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:18618044 original size:40 final size:40
Alignment explanation
Indices: 18617917--18618046 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
18617907 ATGCTGGAAA
* *
18617917 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
18617957 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
18617997 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
18618037 TTATATCCGG
1 TTATATCCGG
18618047 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:18626093 original size:40 final size:40
Alignment explanation
Indices: 18625966--18626095 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
18625956 ATGCTGGAAA
* *
18625966 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
18626006 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
18626046 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
18626086 TTATATCCGG
1 TTATATCCGG
18626096 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:18626094 original size:80 final size:80
Alignment explanation
Indices: 18625928--18626095 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
18625918 CAATTGAATG
* * *
18625928 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
18625993 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
18626008 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
18626072 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
18626088 ATATCCGG
1 ATATCCGG
18626096 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:18633037 original size:45 final size:45
Alignment explanation
Indices: 18632973--18633060 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
18632963 CGTATAGTAA
*
18632973 TATTCGAGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAATAC
1 TATTCGAGCCTTCGAGCCTAGCAGGCTACAATGCCGATGAAATAC
* * * *
18633018 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAAT
1 TATTCGAGCCTTCGAGCCTAGCAGGCTACAATGCCGATGAAAT
18633061 GATATCGTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (45 bp):
TATTCGAGCCTTCGAGCCTAGCAGGCTACAATGCCGATGAAATAC
Found at i:18636196 original size:41 final size:42
Alignment explanation
Indices: 18636139--18636357 Score: 173
Period size: 41 Copynumber: 5.4 Consensus size: 42
18636129 CATGGGAACG
* * * *
18636139 TATGTGCAATTCAGGGGTA-TAGAAGTACAACCAGGGGTATA
1 TATGTGCAATTTAGGGGTACTAGAAGTACAAACAGGGGCACA
* * * *
18636180 TATGTGCATTTTAGGGGTACT-GAAGTACAATCAAGGGCACG
1 TATGTGCAATTTAGGGGTACTAGAAGTACAAACAGGGGCACA
* * *
18636221 TATGTGCAATTTA-GGGTACCA-AAGTAAAAACAGGGCCACA
1 TATGTGCAATTTAGGGGTACTAGAAGTACAAACAGGGGCACA
* * * *
18636261 TATGTGCAATTTAGGGGTACCA-AAGTAAAAATA-GGGCGACG
1 TATGTGCAATTTAGGGGTACTAGAAGTACAAACAGGGGC-ACA
* * * * * * *
18636302 TATGTGCAATTCAAGGGTACCA-ATGTACAAATAAGGGCACG
1 TATGTGCAATTTAGGGGTACTAGAAGTACAAACAGGGGCACA
*
18636343 TATGTGCCATTTAGG
1 TATGTGCAATTTAGG
18636358 ATATAATTAA
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
40 36 0.24
41 108 0.72
42 5 0.03
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (42 bp):
TATGTGCAATTTAGGGGTACTAGAAGTACAAACAGGGGCACA
Found at i:18636274 original size:81 final size:82
Alignment explanation
Indices: 18636136--18636357 Score: 222
Period size: 81 Copynumber: 2.7 Consensus size: 82
18636126 AAACATGGGA
* * ** * * * *
18636136 ACGTATGTGCAATTCAGGGGTA-TAGAAGTACAACCAGGGGTATATATGTGCATTTTAGGGGTAC
1 ACGTATGTGCAATTCAAGGGTACCA-AAGTACAAATAAGGGCACATATGTGCAATTTAGGGGTAC
** *
18636200 TGAAGT-ACAATCAAGGGC-
65 CAAAGTAAAAAT--AGGGCG
*
18636218 ACGTATGTGCAATT-TAGGGTACCAAAGTA-AAA-ACAGGGCCACATATGTGCAATTTAGGGGTA
1 ACGTATGTGCAATTCAAGGGTACCAAAGTACAAATA-AGGG-CACATATGTGCAATTTAGGGGTA
18636280 CCAAAGTAAAAATAGGGCG
64 CCAAAGTAAAAATAGGGCG
* * *
18636299 ACGTATGTGCAATTCAAGGGTACCAATGTACAAATAAGGGCACGTATGTGCCATTTAGG
1 ACGTATGTGCAATTCAAGGGTACCAAAGTACAAATAAGGGCACATATGTGCAATTTAGG
18636358 ATATAATTAA
Statistics
Matches: 117, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
79 1 0.01
80 10 0.09
81 49 0.42
82 49 0.42
83 7 0.06
84 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (82 bp):
ACGTATGTGCAATTCAAGGGTACCAAAGTACAAATAAGGGCACATATGTGCAATTTAGGGGTACC
AAAGTAAAAATAGGGCG
Found at i:18637840 original size:17 final size:18
Alignment explanation
Indices: 18637818--18637851 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18637808 CACATTGAAG
18637818 TGTTTT-ATTGAAAACCT
1 TGTTTTCATTGAAAACCT
18637835 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
18637852 CTTCTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Found at i:18639324 original size:8 final size:8
Alignment explanation
Indices: 18639306--18639341 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
18639296 AACTTCTGGT
18639306 TTTTCGGCA
1 TTTT-GGCA
18639315 TTTTGGCA
1 TTTTGGCA
*
18639323 TTTTGGCT
1 TTTTGGCA
18639331 TTTTGGCA
1 TTTTGGCA
18639339 TTT
1 TTT
18639342 CAAGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTTGGCA
Found at i:18646163 original size:40 final size:40
Alignment explanation
Indices: 18646126--18646311 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
18646116 GCTACTCGTT
*
18646126 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
18646166 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18646206 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
18646246 CAAATGCCTT-TGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
18646287 TAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18646312 CATCATTCGA
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18649035 original size:41 final size:41
Alignment explanation
Indices: 18648990--18649107 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
18648980 TGAAAGATAA
18648990 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
18649031 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18649061 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18649102 ATGTAG
1 ATGTAG
18649108 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:18649046 original size:71 final size:71
Alignment explanation
Indices: 18648958--18649121 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18648948 GAGATGTATC
18648958 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18649023 AGGACA
66 AGGACA
18649029 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18649094 AGGACA
66 AGGACA
18649100 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
18649122 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:18656569 original size:41 final size:41
Alignment explanation
Indices: 18656524--18656641 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
18656514 TGAAAGATAA
18656524 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
18656565 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18656595 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18656636 ATGTAG
1 ATGTAG
18656642 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:18656580 original size:71 final size:71
Alignment explanation
Indices: 18656492--18656655 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18656482 GAGATGTATC
18656492 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18656557 AGGACA
66 AGGACA
18656563 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18656628 AGGACA
66 AGGACA
18656634 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
18656656 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:18659100 original size:28 final size:28
Alignment explanation
Indices: 18659058--18659160 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
18659048 TGGCCCCTTT
* *
18659058 AGGCCAAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
18659086 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* **
18659114 AGGCCCAATCACTTTCATATGGCCTGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
18659142 AGACCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
18659161 GTCATGCAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:18659242 original size:17 final size:18
Alignment explanation
Indices: 18659220--18659253 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18659210 TGCCTATTAT
18659220 GGGCCC-TATAGCCCATC
1 GGGCCCATATAGCCCATC
*
18659237 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
18659254 TCTGGTTCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:18662633 original size:50 final size:51
Alignment explanation
Indices: 18662525--18662953 Score: 306
Period size: 50 Copynumber: 8.5 Consensus size: 51
18662515 CTGGTACGCA
* * * * * *
18662525 TAGTCGCCTGCACTTAGTACTATACATGCGACCTGA--AATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAATCTGATACACG
*
18662574 TAGTAGCCTGCACTTAGTACTGCACACGTGACCTAA-TAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAATCTGATACACG
* * * * * ** * * ***
18662624 TAATAGCCTGCACTAAGCACTACACACGTGA-TTGAAGTTGTCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACTAATCTGATACACG
* * *
18662675 TAGTAACCTGCACTTAGTACTACACATGCGACCTAACT-ATCTCG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAATCT-GATACACG
* ** * *
18662725 TAGTAGCCTACACTTAGTACTACACATATGACCTAAC-CATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAATCTGATACACG
* * * ** * *
18662775 TAGTAGCCTGCACTTAGTACTACACACATGA-TTGAAGTTGTCGTG-TACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACTAATC-TGATACACG
* * *
18662826 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACT-ACCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAATCTGA-TACACG
* * * * * * *
18662876 TAGTAGCCTACACTTAGCACTACACACATGACCTAAAAC-CATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTAATCTGATACACG
*
18662928 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
18662954 TATGTTCTCA
Statistics
Matches: 297, Mismatches: 66, Indels: 31
0.75 0.17 0.08
Matches are distributed among these distances:
49 34 0.11
50 153 0.52
51 72 0.24
52 37 0.12
53 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAATCTGATACACG
Found at i:18662748 original size:26 final size:26
Alignment explanation
Indices: 18662719--18662799 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
18662709 AACTATCTCG
18662719 TACACGTAGTAGCCTACACTTAGTAC
1 TACACGTAGTAGCCTACACTTAGTAC
* *
18662745 TACACATA-T-GACCTA-ACCATTTG-A-
1 TACACGTAGTAG-CCTACA-C-TTAGTAC
*
18662769 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTACACTTAGTAC
18662795 TACAC
1 TACAC
18662800 ACATGATTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
24 12 0.29
25 13 0.31
26 17 0.40
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (26 bp):
TACACGTAGTAGCCTACACTTAGTAC
Found at i:18662776 original size:151 final size:151
Alignment explanation
Indices: 18662517--18662911 Score: 587
Period size: 151 Copynumber: 2.6 Consensus size: 151
18662507 GAAGCTATCT
* * *
18662517 GGTACGCATAGTCGCCTGCACTTAGTACTATACATGCGACCTGAA--ATCTGGTACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACTATCTAGTACACGTAGTAG
* * * *
18662580 CCTGCACTTAGTACTGCACACGTGACCTAATAATCTGATACACGTAATAGCCTGCACTAAGCACT
65 CCTACACTTAGTACTACACACATGACCTAACAATCTGATACACGTAATAGCCTGCACTAAGCACT
*
18662645 ACACACGTGATTGAAGTTGTCG
130 ACACACATGATTGAAGTTGTCG
* * *
18662667 GGTACGTATAGTAACCTGCACTTAGTACTACACATGCGACCTAACTATCTCGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGC
* * * * * *
18662732 CTACACTTAGTACTACACATATGACCTAACCATTTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTACACTTAGTACTACACACATGACCTAACAATCTGATACACGTAATAGCCTGCACTAAGCACTA
18662797 CACACATGATTGAAGTTGTCG
131 CACACATGATTGAAGTTGTCG
* *
18662818 TGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTACCTAGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGC
*
18662883 CTACACTTAGCACTACACACATGACCTAA
66 CTACACTTAGTACTACACACATGACCTAA
18662912 AACCATCTTA
Statistics
Matches: 220, Mismatches: 23, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
149 2 0.01
150 38 0.17
151 180 0.82
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGC
CTACACTTAGTACTACACACATGACCTAACAATCTGATACACGTAATAGCCTGCACTAAGCACTA
CACACATGATTGAAGTTGTCG
Found at i:18662843 original size:101 final size:101
Alignment explanation
Indices: 18662725--18662906 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
18662715 CTCGTACACG
* * * *
18662725 TAGTAGCCTACACTTAGTACTACACATATGACCTAACCA-TTTGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACATACGACCTAACCACCTAG-TACACGTAGTAGCCTACACT
*
18662789 TAGTACTACACACATGATTGAAGTTGTCGTGTACGCA
65 TAGCACTACACACATGATTGAAGTTGTCGTGTACGCA
* * *
18662826 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTACCTAGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTACACTTAGTACTACACATACGACCTAACCACCTAGTACACGTAGTAGCCTACACTT
18662891 AGCACTACACACATGA
66 AGCACTACACACATGA
18662907 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 70 0.97
102 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACATACGACCTAACCACCTAGTACACGTAGTAGCCTACACTT
AGCACTACACACATGATTGAAGTTGTCGTGTACGCA
Found at i:18667244 original size:49 final size:47
Alignment explanation
Indices: 18667124--18667422 Score: 413
Period size: 47 Copynumber: 6.3 Consensus size: 47
18667114 GTATGAGATA
18667124 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
18667171 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
* *
18667220 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
* *
18667269 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
18667314 TGTATATGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
18667361 TATATATGTGATACGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
18667408 TATAAATGTGATAAG
1 TATATATGTGATAAG
18667423 TCCCGAAGGG
Statistics
Matches: 231, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 38 0.16
46 4 0.02
47 95 0.41
48 2 0.01
49 92 0.40
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:18673239 original size:49 final size:49
Alignment explanation
Indices: 18673173--18673282 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 49
18673163 GATATGTAGC
* * * * * * *
18673173 TATATTGTCACTAAAACACTTTGTGGATAGGCCACCGCTAATATGCACA
1 TATATTGCCACTAAAACACTCTATGGACAAGCCACCACTAATATACACA
* *
18673222 TATATTGCCACTGAAACACTCTATGGACAAGCCACCACTGATATACACA
1 TATATTGCCACTAAAACACTCTATGGACAAGCCACCACTAATATACACA
*
18673271 TATACTGCCACT
1 TATATTGCCACT
18673283 TACTTCCTCC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (49 bp):
TATATTGCCACTAAAACACTCTATGGACAAGCCACCACTAATATACACA
Found at i:18680736 original size:30 final size:29
Alignment explanation
Indices: 18680642--18680743 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
18680632 TATAGTGAAT
* * *
18680642 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18680671 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18680699 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18680729 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18680744 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:18688623 original size:30 final size:29
Alignment explanation
Indices: 18688529--18688630 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
18688519 TATAGTGAAT
* * *
18688529 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18688558 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18688586 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18688616 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18688631 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:18693190 original size:30 final size:29
Alignment explanation
Indices: 18693096--18693197 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
18693086 TATAGTGAAT
* * *
18693096 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18693125 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18693153 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18693183 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18693198 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:18700947 original size:24 final size:23
Alignment explanation
Indices: 18700887--18700949 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
18700877 ACGTTTTGGA
*
18700887 CAAGCCACTTAATAACATTGTGC
1 CAAGCCACTTAATAACATTATGC
* * * *
18700910 CAAACCACTCAATAGCATTATGGT
1 CAAGCCACTTAATAACATTAT-GC
18700934 CAAGCCACTTAATAAC
1 CAAGCCACTTAATAAC
18700950 GTTGTGGCCT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (23 bp):
CAAGCCACTTAATAACATTATGC
Found at i:18700963 original size:24 final size:24
Alignment explanation
Indices: 18700887--18700971 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
18700877 ACGTTTTGGA
*
18700887 CAAGCCACTTAATAACATTGT-GC
1 CAAGCCACTCAATAACATTGTGGC
* * * *
18700910 CAAACCACTCAATAGCATTATGGT
1 CAAGCCACTCAATAACATTGTGGC
* *
18700934 CAAGCCACTTAATAACGTTGTGGC
1 CAAGCCACTCAATAACATTGTGGC
*
18700958 CTAGCCACTCAATA
1 CAAGCCACTCAATA
18700972 TTGTAATAAA
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 17 0.35
24 31 0.65
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (24 bp):
CAAGCCACTCAATAACATTGTGGC
Found at i:18702618 original size:42 final size:42
Alignment explanation
Indices: 18702533--18702658 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
18702523 AGAGGAGATT
* * * * * *
18702533 AGCATGCTTAACACGCAATTC-CGATTTAGAATCTACATGGTC
1 AGCATGCTTAACATGCAAATCATG-TTTAAAATCAACATAGTC
18702575 AGCATGCTTAACATGCAAATCATGTTTAAAATCAACATAGTC
1 AGCATGCTTAACATGCAAATCATGTTTAAAATCAACATAGTC
* * * *
18702617 AGCATGCTTAACATGAAAATCATTTTTCAATATCAAAATAGT
1 AGCATGCTTAACATGCAAATCATGTTT-AAAATCAACATAGT
18702659 GGCATGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
42 59 0.82
43 13 0.18
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (42 bp):
AGCATGCTTAACATGCAAATCATGTTTAAAATCAACATAGTC
Found at i:18708198 original size:89 final size:89
Alignment explanation
Indices: 18708047--18708225 Score: 340
Period size: 89 Copynumber: 2.0 Consensus size: 89
18708037 TGGGAGGGAT
*
18708047 TTCTGCAAACACATGCTTTAGACTCCATACCTAATTGAGTCGATTAGCCTAGACTACCTTCTTCT
1 TTCTGCAAACACATACTTTAGACTCCATACCTAATTGAGTCGATTAGCCTAGACTACCTTCTTCT
*
18708112 TTACTTGTGACATTACATAATCGG
66 TTACCTGTGACATTACATAATCGG
18708136 TTCTGCAAACACATACTTTAGACTCCATACCTAATTGAGTCGATTAGCCTAGACTACCTTCTTCT
1 TTCTGCAAACACATACTTTAGACTCCATACCTAATTGAGTCGATTAGCCTAGACTACCTTCTTCT
18708201 TTACCTGTGACATTACATAATCGG
66 TTACCTGTGACATTACATAATCGG
18708225 T
1 T
18708226 ATAATCCTTA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (89 bp):
TTCTGCAAACACATACTTTAGACTCCATACCTAATTGAGTCGATTAGCCTAGACTACCTTCTTCT
TTACCTGTGACATTACATAATCGG
Found at i:18708448 original size:12 final size:12
Alignment explanation
Indices: 18708431--18708458 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18708421 ACTTGACTCT
18708431 CATAATTACACA
1 CATAATTACACA
18708443 CATAATTACACA
1 CATAATTACACA
18708455 CATA
1 CATA
18708459 TGACTTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (12 bp):
CATAATTACACA
Found at i:18708778 original size:48 final size:48
Alignment explanation
Indices: 18708726--18708817 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
18708716 CTTGCACGAA
* * *
18708726 ATCACATTTCGATG-CTAATGCCATATCCTAGATATGGTCTTACAAAGG
1 ATCACATATCGATGTC-AATGCCATATCCCAGACATGGTCTTACAAAGG
*
18708774 ATCACATATCGATGTCAATGCCATATCCCAGACATGGTTTTACA
1 ATCACATATCGATGTCAATGCCATATCCCAGACATGGTCTTACA
18708818 TGTCATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (48 bp):
ATCACATATCGATGTCAATGCCATATCCCAGACATGGTCTTACAAAGG
Found at i:18713265 original size:46 final size:45
Alignment explanation
Indices: 18713198--18713365 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 45
18713188 CGCCCCTAAG
18713198 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATAAA
* * *
18713244 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCATCCATAAA
* * * * * *
18713291 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTGCATCCATAAA
18713337 TGAACTCGGACTCAACTCAACGAGCTCGG
1 TGAACTCGGACTCAACTCAACGAGCTCGG
18713366 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 54 0.53
47 28 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAA
Found at i:18713314 original size:93 final size:93
Alignment explanation
Indices: 18713199--18713369 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18713189 GCCCCTAAGT
* * *
18713199 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
18713264 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
18713292 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
18713357 CGAGCTCGGATGC
66 CGAGCTCGGATGC
18713370 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:18721049 original size:40 final size:40
Alignment explanation
Indices: 18721004--18721170 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
18720994 CGGAATATAA
18721004 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
18721044 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
18721084 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
18721124 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18721163 CCGGATAT
1 CCGGATAT
18721171 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18728533 original size:40 final size:40
Alignment explanation
Indices: 18728488--18728654 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
18728478 CGGAATATAA
18728488 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
18728528 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
18728568 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
18728608 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18728647 CCGGATAT
1 CCGGATAT
18728655 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18730696 original size:20 final size:19
Alignment explanation
Indices: 18730654--18730692 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18730644 ATACCATCCG
*
18730654 TCAATTGAAAAACTACACA
1 TCAATTGAAAAACTAAACA
18730673 TCAATTGAAAAACTAAACA
1 TCAATTGAAAAACTAAACA
18730692 T
1 T
18730693 TCAAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (19 bp):
TCAATTGAAAAACTAAACA
Found at i:18739333 original size:29 final size:29
Alignment explanation
Indices: 18739299--18739401 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
18739289 TACTCAATCA
* *
18739299 CGCACACTTAGTGCCATAT-GATTCAAGCC
1 CGCACACTTAGTGCCATATAG-TCCAAACC
* *
18739328 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATAGTCCAAACC
* * * * *
18739357 CGCACACTTAGTGCCGTACATTACAAACT
1 CGCACACTTAGTGCCATATAGTCCAAACC
*
18739386 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
18739402 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAGTCCAAACC
Found at i:18741305 original size:24 final size:24
Alignment explanation
Indices: 18741254--18741491 Score: 342
Period size: 23 Copynumber: 10.0 Consensus size: 24
18741244 GCTTTATCAT
*
18741254 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
18741279 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18741303 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
18741326 ATAACTGGGGTATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18741349 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
18741372 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
18741396 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
18741419 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
18741443 ATAACTAGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
18741468 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18741492 CACTTCCTCC
Statistics
Matches: 194, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
23 88 0.45
24 73 0.38
25 33 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18741329 original size:47 final size:47
Alignment explanation
Indices: 18741275--18741491 Score: 346
Period size: 47 Copynumber: 4.6 Consensus size: 47
18741265 CCTAGCCTCT
*
18741275 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
18741322 TTTAATAACTGGGGTATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
18741368 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * *
18741415 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
18741462 TTTTTAATAACTGGGGCATAAGCCCTTTTA
1 --TTTAATAACTGGGGCATAAGCCCTTTTA
18741492 CACTTCCTCC
Statistics
Matches: 158, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
46 44 0.28
47 87 0.55
49 27 0.17
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:18741565 original size:20 final size:20
Alignment explanation
Indices: 18741540--18741586 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
18741530 TTATGAATAC
*
18741540 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
18741560 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18741580 ACCATGT
1 ATCATGT
18741587 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18741662 original size:25 final size:25
Alignment explanation
Indices: 18741623--18741670 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18741613 ATATTTAAAC
* *
18741623 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
18741648 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
18741671 CATTTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:18744581 original size:42 final size:42
Alignment explanation
Indices: 18744534--18744661 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
18744524 CTAGAGGCGA
* * * * *
18744534 TCAGCATGCTTAACATGCAATTC-TGATTTAGAATCTACATGG
1 TCAGCATGCTTAACATGCAAATCATG-TTTAAAATCAAAATAG
18744576 TCAGCATGCTTAACATGCAAATCATGTTTAAAATCAAAATAG
1 TCAGCATGCTTAACATGCAAATCATGTTTAAAATCAAAATAG
* * *
18744618 TCAGCATGCTTAACATGAAAATCATTTTTCAATATCAAAATAG
1 TCAGCATGCTTAACATGCAAATCATGTTT-AAAATCAAAATAG
18744661 T
1 T
18744662 GACATGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
42 61 0.80
43 15 0.20
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (42 bp):
TCAGCATGCTTAACATGCAAATCATGTTTAAAATCAAAATAG
Found at i:18750633 original size:42 final size:42
Alignment explanation
Indices: 18750570--18750660 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
18750560 TCATTTACTT
* *
18750570 GATGCCATAGTCCAACAATGGTCTTACACGAAGTCTCATATC
1 GATGCCATAGTCCAACAATGGTCTTACACGAAATCACATATC
18750612 GATGCCAT-GTCCTAGAC-ATGGTCTTACACGAAATCACATATC
1 GATGCCATAGTCC-A-ACAATGGTCTTACACGAAATCACATATC
18750654 GATGCCA
1 GATGCCA
18750661 ACCCAGATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 4 0.09
42 39 0.87
43 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
GATGCCATAGTCCAACAATGGTCTTACACGAAATCACATATC
Found at i:18755829 original size:41 final size:41
Alignment explanation
Indices: 18755744--18755892 Score: 194
Period size: 42 Copynumber: 3.6 Consensus size: 41
18755734 AAATCAACTA
* * *
18755744 TATATGTGGCACTTAGTGTGC--GATTCAACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATT-GAGATAGCTTCGGC
*
18755784 TATATATGGCACTGAGTGTGCGAGATTGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGC
* *
18755825 TATATATGGCACTTAGTGTGCTAGATTTGAGATAGTTTCGGC
1 TATATATGGCACTTAGTGTGCGAGA-TTGAGATAGCTTCGGC
**
18755867 TATATACAGCACTTAGTGTGCGAGAT
1 TATATATGGCACTTAGTGTGCGAGAT
18755893 ATCGAGTATG
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 19 0.20
41 36 0.38
42 41 0.43
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGC
Found at i:18755915 original size:28 final size:28
Alignment explanation
Indices: 18755875--18755929 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
18755865 GCTATATACA
*
18755875 GCACTTAGTGTGCGAGATATCGAGTATG
1 GCACTTAGTGTGCGAGACATCGAGTATG
*
18755903 GCACTTAGTGTGCGAGACATTGAGTAT
1 GCACTTAGTGTGCGAGACATCGAGTAT
18755930 TCAACGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGACATCGAGTATG
Found at i:18759303 original size:20 final size:20
Alignment explanation
Indices: 18759278--18759317 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18759268 GTTGGGCCTT
18759278 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
18759298 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
18759318 CCTATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:18761636 original size:46 final size:46
Alignment explanation
Indices: 18761586--18761761 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
18761576 TGGTTGAGCA
*
18761586 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
18761632 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
*
18761679 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
18761725 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18761762 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18761742 original size:93 final size:93
Alignment explanation
Indices: 18761583--18761753 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
18761573 GGATGGTTGA
* *
18761583 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18761648 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
18761676 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18761741 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18761754 ACTTATGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:18765675 original size:16 final size:16
Alignment explanation
Indices: 18765656--18765688 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18765646 TTTTCTTTTA
18765656 TATTTTA-TACATATTT
1 TATTTTATTACA-ATTT
18765672 TATTTTATTACAATTT
1 TATTTTATTACAATTT
18765688 T
1 T
18765689 TAATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTATTACAATTT
Found at i:18767636 original size:588 final size:586
Alignment explanation
Indices: 18766499--18767657 Score: 2000
Period size: 588 Copynumber: 2.0 Consensus size: 586
18766489 CATACCATTA
* * * *
18766499 AACATAACCGAGATATAAATAAGTCATCCAATTTGATAGTGCATCGTATAACATATGTCTTGAAC
1 AACATAACCAAGATAGAAATAAGTCATCCAATTTGATAATGCATCGTATAACATATATCTTGAAC
*
18766564 AATATTAGCCAACTTTAATGGCTTGTACAAAGTAGCTGGTCGAGTACTGTAACTAATATTTTAAA
66 AATATTAGCCAACTTTAATGGCTTGTACAAAGTAACTGGTCGAGTACTGTAACTAATATTTTAAA
* *
18766629 CCTAGACAAATATGACACGTAACAAAATAATTAAGCCTACTATACATGCCATAATTCAAAACGTT
131 CCTAGACAAATATGACACATAACAAAATAATTAAGCCTACTATACATGCCATAATTCAAAACATT
*
18766694 TAATTCAAATACCCTAAAGTATGATAGTGCGGGTAGATCTTCACGATCCTTAACTCCTGAGCAAG
196 TAATTCAAATACCCCAAAGTATGATAGTGCGGGTAGATCTTCACGATCCTTAACTCCTGAGCAAG
*
18766759 CCGAAGGACACTATAAGACAAAAGAGAGAAACAAAGCAAGCTTATAGCTTAGTAAGTAAGTATGT
261 CCGAAGAACACTATAAGACAAAAGAGAGAAACAAAGCAAGCTTATAGCTTAGTAAGTAAGTATGT
18766824 AAATACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATGTCTACTTTAACTTCACT
326 AAATACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATGTCTACTTTAACTTCACT
*
18766889 ATTCATTCCACTTTGATTAAGCTGTCTCTGCTGCGTCATATTCACTAAATAAATCATAACTCGAG
391 ATTCATTCCACTTCGATTAAGCTGTCTCTGCTGCGTCATATTCACTAAATAAATCATAACTCGAG
* *
18766954 TTACAAAACTCGAAATTTAAATCCGTAAAATTTCCCTGAATCTAGACTCATAAAGCTTTTTGCTA
456 TTACAAAACTCGAAATTCAAATCCGTAAAATTTCCCTGAATCTAGACTCATAAAGCTTCTTGCTA
18767019 ATTTTTTTCTATAATTTTTGGTTCAGCCGATTAGTACAGTTTATTAGTTAACATATACCAGAACA
521 ATTTTTTTCTATAATTTTTGGTTCAGCCGATTAGTACAGTTTATTAGTTAACATATACCAGAACA
18767084 T
586 T
* *
18767085 AACATATACCAAGATAGAAATATGTCATCCCATTTGATAATGCATCGTATAACATATATCTTGAA
1 AACATA-ACCAAGATAGAAATAAGTCATCCAATTTGATAATGCATCGTATAACATATATCTTGAA
*
18767150 CAATATTAGCCAACTTTTATGGCTTGTACAAAGTAACTGGTCGAGTACTGTAACTAATATTTTAA
65 CAATATTAGCCAACTTTAATGGCTTGTACAAAGTAACTGGTCGAGTACTGTAACTAATATTTTAA
** *
18767215 ACCTAGACAAATATGACACATAACAAAATAATTTTTGCCTACTATACATGTCATAATTCAAAACA
130 ACCTAGACAAATATGACACATAACAAAATAA-TTAAGCCTACTATACATGCCATAATTCAAAACA
* *
18767280 TTTAGTTCAAATACCCCAAAGTATGATAGTGCGGGTAGATCTTCACGATCCTTGACTCCTGAGCA
194 TTTAATTCAAATACCCCAAAGTATGATAGTGCGGGTAGATCTTCACGATCCTTAACTCCTGAGCA
* * * * *
18767345 AGCTGGAGAACACTATAGGACAAAAGAGAGAAAACGAAGTAAGCTTATAGCTTAGTAAGT-AGTA
259 AGCCGAAGAACACTATAAGACAAAAGAGAG-AAACAAAGCAAGCTTATAGCTTAGTAAGTAAGTA
*
18767409 TGTAAATACTAATTTAAGAATCTAACATGTTTACACAACAATTCAAGTATGTCTACTTTAACTTC
323 TGTAAATACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATGTCTACTTTAACTTC
*
18767474 ACTACTT-ATTCCACTTCGATTAAGCTGTCTCTGCTGTGTCATATTCACTAAATAAATCATAACT
388 ACTA-TTCATTCCACTTCGATTAAGCTGTCTCTGCTGCGTCATATTCACTAAATAAATCATAACT
*
18767538 CGAGTTACAAAACTCGAAATTCATATCCGTAAAATTTCCCTGAATCTAGACTCATAAAGCTTCTT
452 CGAGTTACAAAACTCGAAATTCAAATCCGTAAAATTTCCCTGAATCTAGACTCATAAAGCTTCTT
18767603 GCTAAATTTTTTT-TATAATTTTTGGTTCAGCCGATTAGTACAGTTTATTAGTTAA
517 GCT-AATTTTTTTCTATAATTTTTGGTTCAGCCGATTAGTACAGTTTATTAGTTAA
18767658 AGTTTCCCCT
Statistics
Matches: 540, Mismatches: 28, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
586 6 0.01
587 145 0.27
588 351 0.65
589 38 0.07
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (586 bp):
AACATAACCAAGATAGAAATAAGTCATCCAATTTGATAATGCATCGTATAACATATATCTTGAAC
AATATTAGCCAACTTTAATGGCTTGTACAAAGTAACTGGTCGAGTACTGTAACTAATATTTTAAA
CCTAGACAAATATGACACATAACAAAATAATTAAGCCTACTATACATGCCATAATTCAAAACATT
TAATTCAAATACCCCAAAGTATGATAGTGCGGGTAGATCTTCACGATCCTTAACTCCTGAGCAAG
CCGAAGAACACTATAAGACAAAAGAGAGAAACAAAGCAAGCTTATAGCTTAGTAAGTAAGTATGT
AAATACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATGTCTACTTTAACTTCACT
ATTCATTCCACTTCGATTAAGCTGTCTCTGCTGCGTCATATTCACTAAATAAATCATAACTCGAG
TTACAAAACTCGAAATTCAAATCCGTAAAATTTCCCTGAATCTAGACTCATAAAGCTTCTTGCTA
ATTTTTTTCTATAATTTTTGGTTCAGCCGATTAGTACAGTTTATTAGTTAACATATACCAGAACA
T
Found at i:18768414 original size:71 final size:71
Alignment explanation
Indices: 18768328--18768491 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
18768318 CGATTTGTCT
18768328 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18768393 CTTTCA
66 CTTTCA
18768399 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18768464 CTTTCA
66 CTTTCA
*
18768470 CGTAGCTCGCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18768492 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18768529 original size:71 final size:70
Alignment explanation
Indices: 18768328--18768525 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
18768318 CGATTTGTCT
* * * * *
18768328 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCGCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18768393 CTTTCA
65 CTTTCA
* * * * *
18768399 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCGCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18768464 CTTTCA
65 CTTTCA
* *
18768470 CGTAGCTCGCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCGCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18768526 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCGCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18776693 original size:17 final size:17
Alignment explanation
Indices: 18776671--18776706 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18776661 CCAACTAATG
*
18776671 AATGACATATGATGAAC
1 AATGACATATAATGAAC
18776688 AATGACATATAATGAAC
1 AATGACATATAATGAAC
18776705 AA
1 AA
18776707 GCAGAACTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (17 bp):
AATGACATATAATGAAC
Found at i:18784383 original size:21 final size:21
Alignment explanation
Indices: 18784357--18784397 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
18784347 GAAAGACTTG
18784357 GGTCAATTGAAGTATTTTTTA
1 GGTCAATTGAAGTATTTTTTA
18784378 GGTCAATTGAAGTATTTTTT
1 GGTCAATTGAAGTATTTTTT
18784398 TGAGAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.49
Consensus pattern (21 bp):
GGTCAATTGAAGTATTTTTTA
Found at i:18790002 original size:32 final size:33
Alignment explanation
Indices: 18789964--18790054 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 33
18789954 TTTTAAAAAA
****
18789964 TAAATTAAGGTTT-AGTTTTTTTTTAAATTAAT
1 TAAATTAAGGTTTAAGTTTTTAAGAAAATTAAT
*
18789996 TAAATTAGGGTTTAAAGTTTTTAAGAAAATTAAT
1 TAAATTAAGGTTT-AAGTTTTTAAGAAAATTAAT
18790030 TAAATT-AGAGTTTAAGGGTTTTTAA
1 TAAATTAAG-GTTTAA--GTTTTTAA
18790055 AAATAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 12 0.25
33 3 0.06
34 25 0.52
35 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.47
Consensus pattern (33 bp):
TAAATTAAGGTTTAAGTTTTTAAGAAAATTAAT
Found at i:18790026 original size:34 final size:35
Alignment explanation
Indices: 18789988--18790054 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18789978 GTTTTTTTTT
*
18789988 AAATTAATTAAATTAGGGTTTAA-AGTTTTTAAGA
1 AAATTAATTAAATTAGAGTTTAAGAGTTTTTAAGA
*
18790022 AAATTAATTAAATTAGAGTTTAAGGGTTTTTAA
1 AAATTAATTAAATTAGAGTTTAAGAGTTTTTAA
18790055 AAATAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (35 bp):
AAATTAATTAAATTAGAGTTTAAGAGTTTTTAAGA
Found at i:18790589 original size:125 final size:126
Alignment explanation
Indices: 18790137--18790655 Score: 708
Period size: 126 Copynumber: 4.2 Consensus size: 126
18790127 ACAAGATGGA
* * * *
18790137 TTTTTTTA-AGTAGTTTCTG-AAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
18790200 ATGCTTCAAGCA-GATGCATTGTTAGTAAAAATACTAAAAAAAGCT-CCAGTTGGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGACGCTC
* * *
18790259 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGAT-AAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTG-TCAAA
**
18790323 AACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTATACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGACGCTC
* ** *
18790385 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCCCAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* *
18790450 ACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGACGCTC
*
18790511 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACAGTTCTGAAAGAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
** * * * * *
18790575 ATACTTCAAACAGGATGCACTGTCAGCAAAAGTATTGAAAAAAACTCTCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGACGCTC
18790636 TTTTTCTACAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
18790656 CTTGGCCTTA
Statistics
Matches: 350, Mismatches: 40, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
122 7 0.02
123 9 0.03
124 50 0.14
125 141 0.40
126 143 0.41
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGACGCTC
Found at i:18790598 original size:251 final size:250
Alignment explanation
Indices: 18790156--18790652 Score: 719
Period size: 251 Copynumber: 2.0 Consensus size: 250
18790146 GTAGTTTCTG
* ** * *
18790156 AAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGACAAAAATGCTTCAAGCAGATGCATTG
1 AAAAATAATTTTGAGAAGACAGTTCCCAAAAAATAATGACAAAAACGCTTCAAGCAGATGCATTG
* * * *
18790221 TTAGTAAAAATACTAAAAAAAGCTCCAGTTGGACACTCTTTTTCTACAGTAGTTCTTGAAAAAAT
66 TCAGCAAAAATACTAAAAAAAGCTCCACTTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAAAT
* * * *
18790286 AATTTTGAGAAGACGGTTTTGAAAAAATAGTGATAAAAACGCTTCAAGCAGGATGCACTGTCAGC
131 AATTTTGAGAAGACAGTTCTGAAAAAATAGTGATAAAAACACTTCAAACAGGATGCACTGTCAGC
* * *
18790351 AAAAGTACTGAAAAAAGCTCCCACTTATACGCTCTTTTTCTACAGTAGTTCTTGA
196 AAAAGTACTGAAAAAAACTCCCACGTAGACGCTCTTTTTCTACAGTAGTTCTTGA
*
18790406 AAAAATAATTTTGAGAAGACAGTTCCCAAAAAATAATGTCAAAAACGCTTCAAGCAGGATGCATT
1 AAAAATAATTTTGAGAAGACAGTTCCCAAAAAATAATGACAAAAACGCTTCAAGCA-GATGCATT
* * **
18790471 GTCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGATGCTCTTTTTCTACAGTAGTTCCT-AAAAA
65 GTCAGCAAAAATACTAAAAAAAGCT-CCACTTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAA
* *
18790535 ATAATTTTGAGAAGACAGTTCTGAAAGAATAGTG-TCAAAAATACTTCAAACAGGATGCACTGTC
129 ATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGAT-AAAAACACTTCAAACAGGATGCACTGTC
* * *
18790599 AGCAAAAGTATTGAAAAAAACTCTCACGTGGACGCTCTTTTTCTACAGTAGTTC
193 AGCAAAAGTACTGAAAAAAACTCCCACGTAGACGCTCTTTTTCTACAGTAGTTC
18790653 CTGCTTGGCC
Statistics
Matches: 218, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
250 51 0.23
251 138 0.63
252 29 0.13
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (250 bp):
AAAAATAATTTTGAGAAGACAGTTCCCAAAAAATAATGACAAAAACGCTTCAAGCAGATGCATTG
TCAGCAAAAATACTAAAAAAAGCTCCACTTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAAAT
AATTTTGAGAAGACAGTTCTGAAAAAATAGTGATAAAAACACTTCAAACAGGATGCACTGTCAGC
AAAAGTACTGAAAAAAACTCCCACGTAGACGCTCTTTTTCTACAGTAGTTCTTGA
Found at i:18793893 original size:16 final size:16
Alignment explanation
Indices: 18793872--18793902 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18793862 GATTGAAATC
18793872 GAATAGATTTGTAATG
1 GAATAGATTTGTAATG
18793888 GAATAGATTTGTAAT
1 GAATAGATTTGTAAT
18793903 CATTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
GAATAGATTTGTAATG
Found at i:18794141 original size:21 final size:22
Alignment explanation
Indices: 18794117--18794163 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
18794107 TTTATATTAA
*
18794117 ATTATATTAAAT-ATTTAAAAT
1 ATTATATTAAATGATGTAAAAT
* *
18794138 ATTATATTTAATGATGTAATAT
1 ATTATATTAAATGATGTAAAAT
18794160 ATTA
1 ATTA
18794164 AAATATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTATATTAAATGATGTAAAAT
Found at i:18794143 original size:31 final size:30
Alignment explanation
Indices: 18794108--18794171 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
18794098 ATAATTATTT
* *
18794108 TTATATTAAATTATATTAA-ATATTTAAAATA
1 TTATATTAAATGAT-GTAATATA-TTAAAATA
*
18794139 TTATATTTAATGATGTAATATATTAAAATA
1 TTATATTAAATGATGTAATATATTAAAATA
18794169 TTA
1 TTA
18794172 ATAATTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TTATATTAAATGATGTAATATATTAAAATA
Found at i:18796943 original size:16 final size:16
Alignment explanation
Indices: 18796918--18796955 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18796908 ATGAATCGAT
18796918 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
18796934 AAAAGTCGAAATGCTG
1 AAAAGCCGAAATGCCG
18796950 AAAAGC
1 AAAAGC
18796956 TAAAATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:18797216 original size:29 final size:29
Alignment explanation
Indices: 18797171--18797289 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 29
18797161 GTGAGCATGA
*
18797171 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
18797199 ATATGAATGTGAATTGGGCCTAGTGGACC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
18797228 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
18797257 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
18797285 ATATG
1 ATATG
18797290 CATGTATGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 22 0.30
29 51 0.70
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:18797246 original size:58 final size:57
Alignment explanation
Indices: 18797175--18797287 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
18797165 GCATGAATAT
** **
18797175 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGTGGACCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGACCATAAG
* *
18797233 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGACCATA
18797288 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 20 0.42
58 28 0.58
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGACCATAAG
Found at i:18802606 original size:2 final size:2
Alignment explanation
Indices: 18802601--18802628 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18802591 TGAAAGTCGA
18802601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18802629 TATTGAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18803149 original size:39 final size:39
Alignment explanation
Indices: 18803095--18803214 Score: 127
Period size: 39 Copynumber: 3.1 Consensus size: 39
18803085 TTCAGTGATG
* * *
18803095 TATATCCGGACTTAAGGTCCGTAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
18803134 TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAA-
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
18803172 TATGTCCGGGC-TAAAGTCTCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGTC-CGCAGGCTACGTGCTGGAAT
18803211 TATA
1 TATA
18803215 CAGGGTTTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
37 6 0.09
38 24 0.36
39 37 0.55
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:18814265 original size:5 final size:5
Alignment explanation
Indices: 18814255--18814286 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
18814245 TTGTGTGTTC
18814255 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
18814287 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:18814274 original size:14 final size:14
Alignment explanation
Indices: 18814255--18814285 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18814245 TTGTGTGTTC
18814255 TTTATTTTATTTTA
1 TTTATTTTATTTTA
18814269 TTTATTTTATTTTA
1 TTTATTTTATTTTA
18814283 TTT
1 TTT
18814286 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:18818726 original size:5 final size:5
Alignment explanation
Indices: 18818708--18818745 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
18818698 TTGTGTGTTC
*
18818708 TTTTT TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
18818746 TCACATGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:18826989 original size:27 final size:26
Alignment explanation
Indices: 18826949--18827113 Score: 213
Period size: 27 Copynumber: 6.1 Consensus size: 26
18826939 AGGAAGCGTC
*
18826949 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
18826976 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
18827003 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
18827030 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
18827057 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
18827085 CTGGTGACTCTGTCACATTATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
18827112 CT
1 CT
18827114 AGCAGCCATC
Statistics
Matches: 124, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.03
27 101 0.81
28 19 0.15
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:18827031 original size:54 final size:54
Alignment explanation
Indices: 18826949--18827109 Score: 270
Period size: 54 Copynumber: 3.0 Consensus size: 54
18826939 AGGAAGCGTC
18826949 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
18827003 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
18827057 CTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGT
18827110 ATCTAGCAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
54 83 0.82
55 18 0.18
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:18832603 original size:8 final size:8
Alignment explanation
Indices: 18832590--18832630 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
18832580 ATCGATAAAA
18832590 GCCGAAAT
1 GCCGAAAT
18832598 GCCGAAAT
1 GCCGAAAT
18832606 GCCGAAAT
1 GCCGAAAT
* *
18832614 GTCGAAAA
1 GCCGAAAT
18832622 GCCGAAAT
1 GCCGAAAT
18832630 G
1 G
18832631 TCGGAAAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.12
Consensus pattern (8 bp):
GCCGAAAT
Found at i:18832611 original size:16 final size:16
Alignment explanation
Indices: 18832586--18832644 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
18832576 ATGAATCGAT
18832586 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
18832602 AAATGCCGAAATGTCG
1 AAAAGCCGAAATGCCG
*
18832618 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGCCG
* *
18832634 GAAAGCTGAAA
1 AAAAGCCGAAA
18832645 GTTTGGCTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:18832644 original size:24 final size:23
Alignment explanation
Indices: 18832587--18832644 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
18832577 TGAATCGATA
* *
18832587 AAAGCCGAAATGCCGAAATGCCG
1 AAAGCTGAAAAGCCGAAATGCCG
*
18832610 AAATG-TCGAAAAGCCGAAATGTCGG
1 AAA-GCT-GAAAAGCCGAAATG-CCG
18832635 AAAGCTGAAA
1 AAAGCTGAAA
18832645 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 3 0.11
24 19 0.68
25 6 0.21
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (23 bp):
AAAGCTGAAAAGCCGAAATGCCG
Found at i:18832900 original size:29 final size:29
Alignment explanation
Indices: 18832855--18832949 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
18832845 GTGAGCATGA
*
18832855 ATAT-AATATGATTTGGGCCTAATGGGAC
1 ATATGAATATGAATTGGGCCTAATGGGAC
* * *
18832883 ATATGAATGTGAATTGGGCCTAGTGGGGC
1 ATATGAATATGAATTGGGCCTAATGGGAC
* * *
18832912 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGAC
*
18832941 ATTTGAATA
1 ATATGAATA
18832950 AGATCGGACC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
28 5 0.09
29 49 0.91
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGAC
Found at i:18834261 original size:37 final size:37
Alignment explanation
Indices: 18834220--18834366 Score: 154
Period size: 37 Copynumber: 4.0 Consensus size: 37
18834210 CACTAATTAT
* * * * *
18834220 CTGAGTGTTACCTACTGATATACCGACTAAAGCTCAA
1 CTGAGTGATATCTACTAATATACTGAATAAAGCTCAA
* *
18834257 CTGAGCGATATCTACTAATATACTAAATAAAGCTCAA
1 CTGAGTGATATCTACTAATATACTGAATAAAGCTCAA
* *
18834294 CCGAGTGATATCTACTAATATACTGAATAAAGCTAAA
1 CTGAGTGATATCTACTAATATACTGAATAAAGCTCAA
* * * *
18834331 CTAAGTGTTATTTACTGATATACT-AAGT-AAGCTCAA
1 CTGAGTGATATCTACTAATATACTGAA-TAAAGCTCAA
18834367 TCGAGTATTA
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
36 9 0.10
37 83 0.90
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (37 bp):
CTGAGTGATATCTACTAATATACTGAATAAAGCTCAA
Found at i:18834352 original size:74 final size:73
Alignment explanation
Indices: 18834222--18834372 Score: 176
Period size: 74 Copynumber: 2.1 Consensus size: 73
18834212 CTAATTATCT
* * * * *
18834222 GAGTGTTACCTACTGATATACCGACTAAAGCTCAACTGAGCGATATCTACTAATATACTAAATAA
1 GAGTGATACCTACTAATATACCGAATAAAGCTAAACTAAGCGATATCTACTAATATACTAAAT-A
18834287 AGCTCAACC
65 AGCTCAACC
* * * * * * *
18834296 GAGTGATATCTACTAATATACTGAATAAAGCTAAACTAAGTGTTATTTACTGATATACTAAGTAA
1 GAGTGATACCTACTAATATACCGAATAAAGCTAAACTAAGCGATATCTACTAATATACTAAATAA
*
18834361 GCTCAATC
66 GCTCAACC
18834369 GAGT
1 GAGT
18834373 ATTATCCATT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
73 13 0.20
74 51 0.80
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (73 bp):
GAGTGATACCTACTAATATACCGAATAAAGCTAAACTAAGCGATATCTACTAATATACTAAATAA
GCTCAACC
Found at i:18834388 original size:74 final size:74
Alignment explanation
Indices: 18834237--18834391 Score: 170
Period size: 74 Copynumber: 2.1 Consensus size: 74
18834227 TTACCTACTG
* * * *
18834237 ATATACCGACTAAAGCTCAACTGAGCGATATCTACTAATATACTAAATAAAGCTCAACCGAGTGA
1 ATATACTGAATAAAGCTAAACTAAGCGATATCTACTAATATACTAAATAAAGCTCAACCGAGTGA
*
18834302 TATCTACTA
66 TATCCACTA
* * * * * *
18834311 ATATACTGAATAAAGCTAAACTAAGTGTTATTTACTGATATACTAAGT-AAGCTCAATCGAGT-A
1 ATATACTGAATAAAGCTAAACTAAGCGATATCTACTAATATACTAAATAAAGCTCAACCGAGTGA
*
18834374 TTATCCATTAA
66 -TATCCACT-A
18834385 ATATACT
1 ATATACT
18834392 AAACTACTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
72 1 0.01
73 19 0.28
74 47 0.70
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (74 bp):
ATATACTGAATAAAGCTAAACTAAGCGATATCTACTAATATACTAAATAAAGCTCAACCGAGTGA
TATCCACTA
Found at i:18837189 original size:56 final size:56
Alignment explanation
Indices: 18837129--18837261 Score: 230
Period size: 56 Copynumber: 2.4 Consensus size: 56
18837119 TCCCAGACAA
18837129 GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
* * *
18837185 GGTCTTACTCGCACACATATAACAGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
*
18837241 AGTCTTACTCACACACATATA
1 GGTCTTACTCACACACATATA
18837262 TCAATGCCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:18837639 original size:25 final size:25
Alignment explanation
Indices: 18837611--18837666 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
18837601 AAATTCAAAT
18837611 TAAATTCATTCAAACATATTTTTAC
1 TAAATTCATTCAAACATATTTTTAC
18837636 TAAATTCATTCAAACATATTTTTAC
1 TAAATTCATTCAAACATATTTTTAC
*
18837661 TCAATT
1 TAAATT
18837667 TAGTCCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAATTCATTCAAACATATTTTTAC
Found at i:18837675 original size:26 final size:25
Alignment explanation
Indices: 18837611--18837675 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
18837601 AAATTCAAAT
*
18837611 TAAATTCATTCAAACATATTTTTAC
1 TAAATTCATCCAAACATATTTTTAC
*
18837636 TAAATTCATTCAAACATATTTTTAC
1 TAAATTCATCCAAACATATTTTTAC
* *
18837661 TCAATTTAGTCCAAA
1 TAAATTCA-TCCAAA
18837676 AACACTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 31 0.86
26 5 0.14
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAATTCATCCAAACATATTTTTAC
Found at i:18840625 original size:46 final size:46
Alignment explanation
Indices: 18840566--18840834 Score: 248
Period size: 46 Copynumber: 5.8 Consensus size: 46
18840556 TATTTGGGCA
18840566 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
18840612 TCTGAACTAGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
18840657 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
18840705 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
18840750 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
18840798 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18840835 GCGGGTTACA
Statistics
Matches: 179, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.03
43 8 0.04
45 6 0.03
46 87 0.49
47 52 0.29
48 6 0.03
50 8 0.04
51 6 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:18840703 original size:93 final size:93
Alignment explanation
Indices: 18840562--18840827 Score: 453
Period size: 93 Copynumber: 2.9 Consensus size: 93
18840552 CGGATATTTG
* *
18840562 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTAGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
18840627 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
18840655 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT-TCGAACTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT-GAACTCGTTGA
18840719 GTTGAGTCCGAGTTCGTGAGATGTAACTA
65 GTTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
18840748 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
*
18840813 TTGAGTCCAAGTTCG
66 TTGAGTCCGAGTTCG
18840828 CTTATGGGCG
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 1 0.01
93 163 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18840764 original size:47 final size:47
Alignment explanation
Indices: 18840621--18840780 Score: 195
Period size: 47 Copynumber: 3.4 Consensus size: 47
18840611 GTCTGAACTA
18840621 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
* * * * *
18840668 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TTCGAACTC
1 GTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTC
18840714 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
*
18840761 GTTGAGTTGAGTCTGAGTTC
1 GTTGAGTTGAGTCCGAGTTC
18840781 ACTTATGGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.29
47 46 0.49
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (47 bp):
GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
Found at i:18841936 original size:2 final size:2
Alignment explanation
Indices: 18841931--18841964 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18841921 AACTTAACAG
18841931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18841965 GAGTGTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18844249 original size:124 final size:124
Alignment explanation
Indices: 18844027--18844251 Score: 308
Period size: 124 Copynumber: 1.8 Consensus size: 124
18844017 GAATTATGTG
* * ** * * * *
18844027 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCAGG
* * **
18844092 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCATTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCATTTGAGCCTTAGTAACGA
* *
18844151 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCAGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCAGG
18844216 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
18844252 CCGGGTTAAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 1 0.01
124 85 0.99
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCAGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCATTTGAGCCTTAGTAACGA
Found at i:18844373 original size:40 final size:40
Alignment explanation
Indices: 18844246--18844375 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
18844236 ATGCTGGAAA
* *
18844246 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
18844286 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
18844326 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
18844366 TTATATCCGG
1 TTATATCCGG
18844376 TTGTATTCTG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:18853431 original size:42 final size:43
Alignment explanation
Indices: 18853275--18853423 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 43
18853265 TACCAATACC
* * * * *
18853275 ATATCCCATATATGGTCTTACATGTAATCTCGTATCGATGCCA
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGTCA
* * * * *
18853318 ATAGCCCAGCTATGGTCTTACACGAAATCTTACATCGAT-TCT
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGTCA
* * *
18853360 GTATCCTAGATATGGTCTTACAC-AAAGTCTCATATTGATGTC-
1 ATATCCCAGATATGGTCTTACACGAAA-TCTCATATCGATGTCA
*
18853402 ATATCCTAGATATGGTCTTACA
1 ATATCCCAGATATGGTCTTACA
18853424 TGTAGTCTTA
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
41 3 0.03
42 50 0.58
43 33 0.38
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGTCA
Found at i:18856968 original size:40 final size:40
Alignment explanation
Indices: 18856931--18857154 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
18856921 GCTACTCGTT
* *
18856931 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
18856971 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
18857011 CAAATGCCTTCGGGAGTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
18857051 CAAATGCCTTC-GGACTT-ACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
18857089 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* * *
18857130 TAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18857155 CATCATTCGA
Statistics
Matches: 165, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 34 0.21
39 8 0.05
40 111 0.67
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18857114 original size:78 final size:81
Alignment explanation
Indices: 18856931--18857154 Score: 282
Period size: 78 Copynumber: 2.8 Consensus size: 81
18856921 GCTACTCGTT
*
18856931 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
18856995 GATTTGGTAACTCGCA
66 GATTTAGTAACTCGCA
* * *
18857011 CAAATGCCTTCGGGAGTTAACCCGGATT-TGGTAACTCGCACAAATGCCTTC-GGACTT-ACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
18857073 GATTTAGTAACTCGCA
66 GATTTAGTAACTCGCA
* * * * * *
18857089 CAAATGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCATAAA-GCCTTCGGGACTCAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACC
18857151 CGGA
64 CGGA
18857155 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 4 0.03
78 50 0.40
79 18 0.15
80 50 0.40
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTCGCA
Found at i:18857153 original size:118 final size:120
Alignment explanation
Indices: 18856931--18857154 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 120
18856921 GCTACTCGTT
18856931 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * * * *
18856996 ATTTGGTAACTCGCACAAATGCCTTCGGGAGTTAACCCGGATTTGGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTCAACCCGGATTTGGTAACTCGCA
* **
18857051 CAAATGCCTTC-GGACTTA-CCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
18857112 GGATATAGTCACTTAGCATAAA-GCCTTCGGGACTCAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTCAACCCGGA
18857155 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
117 3 0.03
118 61 0.68
119 15 0.17
120 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTCAACCCGGATTTGGTAACTCGCA
Found at i:18865017 original size:40 final size:40
Alignment explanation
Indices: 18864973--18865197 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
18864963 GCTACTCGTT
* *
18864973 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
18865013 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
18865053 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18865093 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
18865133 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
18865174 TAAA-GCCTTCGGGAC-TAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18865198 CATCATTCGA
Statistics
Matches: 169, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 11 0.07
40 146 0.86
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18865077 original size:80 final size:80
Alignment explanation
Indices: 18864940--18865145 Score: 251
Period size: 80 Copynumber: 2.6 Consensus size: 80
18864930 GAATCACGTA
* ** *
18864940 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGGATT-
*
18865001 TAGTAACTCTCACAAATG
63 TAGTAACTCGCACAAATG
* * *
18865019 CCTTCGGGA-CTTAACCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTG
1 CCTTC-GGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATTTA
18865083 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
**
18865099 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
18865146 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
79 14 0.13
80 94 0.85
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAG
TAACTCGCACAAATG
Found at i:18869290 original size:22 final size:22
Alignment explanation
Indices: 18869234--18869290 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
18869224 GATTCATGCT
18869234 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAACGCATAG
* ** *
18869255 ATGAGGTTTACACAATGCATAG
1 AAGAGGTTCGCACAACGCATAG
18869277 AAGAGGTTCGCACA
1 AAGAGGTTCGCACA
18869291 TACACATGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
AAGAGGTTCGCACAACGCATAG
Found at i:18874312 original size:32 final size:32
Alignment explanation
Indices: 18874276--18874340 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18874266 ATAAAAAAAG
18874276 ATAAAATTATTATATTAAATTTTTAGATTTTT
1 ATAAAATTATTATATTAAATTTTTAGATTTTT
18874308 ATAAAATTATTATATTAAATTTTTAGATTTTT
1 ATAAAATTATTATATTAAATTTTTAGATTTTT
18874340 A
1 A
18874341 ATTTTAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (32 bp):
ATAAAATTATTATATTAAATTTTTAGATTTTT
Found at i:18877039 original size:19 final size:19
Alignment explanation
Indices: 18877003--18877040 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18876993 ACTTGTAAGT
*
18877003 TATTTTCCATTGACCAAAC
1 TATTTTCCATTGAACAAAC
18877022 TATTTTCCA-TGAAACAAAC
1 TATTTTCCATTG-AACAAAC
18877041 ACAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (19 bp):
TATTTTCCATTGAACAAAC
Found at i:18878349 original size:41 final size:41
Alignment explanation
Indices: 18878292--18878372 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
18878282 CATTCACTTT
*
18878292 GTTTTTCCCTCTTTTATCTTTAATGATTATGGGATTGGAGA
1 GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAGA
18878333 GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAG
1 GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAG
18878373 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (41 bp):
GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAGA
Found at i:18881190 original size:30 final size:30
Alignment explanation
Indices: 18881155--18881214 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
18881145 GTTGTCATCA
18881155 CAAGTATTTTTACCATTAATTCAACCTCAT
1 CAAGTATTTTTACCATTAATTCAACCTCAT
18881185 CAAGTATTTTTACCATTAATTCAACCTCAT
1 CAAGTATTTTTACCATTAATTCAACCTCAT
18881215 ACTTTGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.40
Consensus pattern (30 bp):
CAAGTATTTTTACCATTAATTCAACCTCAT
Found at i:18884546 original size:2 final size:2
Alignment explanation
Indices: 18884539--18884577 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18884529 ACTTAAATAC
18884539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18884578 AGGATGAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18886159 original size:22 final size:22
Alignment explanation
Indices: 18886119--18886179 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
18886109 GATTCATGCT
*
18886119 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAATGCATAG
* * *
18886140 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAATGCATAG
18886162 AAGAGGTTCGCAC-ATGCA
1 AAGAGGTTCGCACAATGCA
18886180 CATGTTCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAGGTTCGCACAATGCATAG
Found at i:18888015 original size:16 final size:16
Alignment explanation
Indices: 18887994--18888025 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18887984 CTAGGAGTCT
18887994 GACGTTTTCCTTAAAA
1 GACGTTTTCCTTAAAA
18888010 GACGTTTTCCTTAAAA
1 GACGTTTTCCTTAAAA
18888026 CATAACTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
GACGTTTTCCTTAAAA
Found at i:18889075 original size:22 final size:22
Alignment explanation
Indices: 18889030--18889075 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18889020 TTATGCCAAT
*
18889030 TTTATAAATAAAAAACAACAAA
1 TTTATAAATAAAAAACAAAAAA
*
18889052 TTTATATA-AAAAAACAAAATAA
1 TTTATAAATAAAAAACAAAA-AA
18889074 TT
1 TT
18889076 AAATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
TTTATAAATAAAAAACAAAAAA
Done.