Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 753 of 770
Found at i:238709746 original size:40 final size:37
Alignment explanation
Indices: 238709611--238709751 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 37
238709601 CCGCACCAAG
* * **
238709611 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-AC-AACTGCAC-AAT
*
238709651 GCCTTCGGGTCTTAGCCCGGATA-A-AACTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACAACTGCAC-AAT
* *
238709687 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACT-GCACAA-T
*
238709727 GCCTTCGGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAACCCGGATATA
238709752 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
36 32 0.37
37 1 0.01
38 1 0.01
39 5 0.06
40 48 0.55
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (37 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTGCACAAT
Found at i:238709767 original size:40 final size:40
Alignment explanation
Indices: 238709643--238709790 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
238709633 ATCACGATTT
* *
238709643 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-AA--A-CT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* *
238709679 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * ***
238709719 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
238709759 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
238709791 CATTCAATTT
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
36 28 0.31
37 3 0.03
39 3 0.03
40 57 0.63
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:238717457 original size:40 final size:40
Alignment explanation
Indices: 238717383--238717528 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
238717373 CCGCACCAAG
* * * * * *
238717383 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
238717423 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
238717463 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
238717503 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
238717529 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:238717543 original size:40 final size:40
Alignment explanation
Indices: 238717415--238717566 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
238717405 ATCACGATTT
* * * **
238717415 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
238717455 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
238717495 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
238717535 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
238717567 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:238719228 original size:21 final size:22
Alignment explanation
Indices: 238719202--238719245 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
238719192 AAACCACATT
238719202 CCGAC-TAGGGTCAATTTTGGG
1 CCGACTTAGGGTCAATTTTGGG
*
238719223 CCGACTTTGGGTCAATTTTGGG
1 CCGACTTAGGGTCAATTTTGGG
238719245 C
1 C
238719246 TGTACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (22 bp):
CCGACTTAGGGTCAATTTTGGG
Found at i:238726549 original size:29 final size:29
Alignment explanation
Indices: 238726459--238726618 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
238726449 ACTCGATTTC
* * **
238726459 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
238726488 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
238726516 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
238726546 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
238726575 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
238726604 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
238726619 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:238733869 original size:39 final size:39
Alignment explanation
Indices: 238733815--238733958 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
238733805 GAATGTTCGA
238733815 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
238733854 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
238733893 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
238733932 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
238733959 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:238733905 original size:78 final size:79
Alignment explanation
Indices: 238733816--238733998 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
238733806 AATGTTCGAG
238733816 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
238733880 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
238733894 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
238733959 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
238733973 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
238733999 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:238735454 original size:26 final size:26
Alignment explanation
Indices: 238735425--238735475 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
238735415 CCAGCACACC
*
238735425 AATATCGCAGCAAAGCTACCAGTAAT
1 AATAACGCAGCAAAGCTACCAGTAAT
* *
238735451 AATAACGCAGCATAGCTGCCAGTAA
1 AATAACGCAGCAAAGCTACCAGTAA
238735476 CAGTAAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTACCAGTAAT
Found at i:238738050 original size:42 final size:42
Alignment explanation
Indices: 238738002--238738109 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 42
238737992 GATGCATCTT
* *
238738002 TCCCAGACAGGGTCTTATACAAA-AACAGATACGATGCT-GATG
1 TCCCAGACACGGTCTTATACAAATAACAAAT-CGATGCTAG-TG
* * **
238738044 TCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCTAGTG
1 TCCCAGACACGGTCTTATAC--AAATAACAAATCGATGCTAGTG
238738088 TCCCAGACACGGTCTTATACAA
1 TCCCAGACACGGTCTTATACAA
238738110 TAATCTAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 20 0.36
44 30 0.55
45 5 0.09
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
TCCCAGACACGGTCTTATACAAATAACAAATCGATGCTAGTG
Found at i:238740006 original size:37 final size:37
Alignment explanation
Indices: 238739942--238740015 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
238739932 TTACAAGCCA
*
238739942 AAATCATTATAAGCAACATATCATGGCTACAT-ACAAC
1 AAATCATTATAAGCAACACATCATGGCTA-ATCACAAC
* *
238739979 AAATCATTATAAGTCAATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAG-CAACACATCATGGCTAATCACAAC
238740016 GACATCGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.06
37 24 0.75
38 6 0.19
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (37 bp):
AAATCATTATAAGCAACACATCATGGCTAATCACAAC
Found at i:238743184 original size:27 final size:28
Alignment explanation
Indices: 238743154--238743223 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
238743144 ATAATAAGTC
*
238743154 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
238743181 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
238743209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
238743224 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:238751091 original size:27 final size:28
Alignment explanation
Indices: 238751061--238751130 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
238751051 ATAATAAGTC
*
238751061 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
238751088 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
238751116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
238751131 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:238753030 original size:43 final size:43
Alignment explanation
Indices: 238752931--238753032 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
238752921 TACGATATGT
* * * *
238752931 GATTACATGTAAGACCATGTCTAGGACATTGGCGTTGTATTGA
1 GATTACATATAAGACCATGTCTAGGACATTGGCATTGTAATCA
* *
238752974 GATTACATGTAAGATCATGTCTAGGACATTGGCATTGTTAATCA
1 GATTACATATAAGACCATGTCTAGGACATTGGCATTG-TAATCA
*
238753018 -ATTTCATATAAGACC
1 GATTACATATAAGACC
238753033 CTATTTAGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (43 bp):
GATTACATATAAGACCATGTCTAGGACATTGGCATTGTAATCA
Found at i:238756182 original size:13 final size:13
Alignment explanation
Indices: 238756146--238756175 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
238756136 ATAAGCCTTG
238756146 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
238756159 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
238756172 TTTT
1 TTTT
238756176 TATTTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:238756297 original size:13 final size:13
Alignment explanation
Indices: 238756279--238756303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
238756269 TAATGAGGTT
238756279 ATATATATATATA
1 ATATATATATATA
238756292 ATATATATATAT
1 ATATATATATAT
238756304 TGGAAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATATATATATA
Found at i:238756896 original size:28 final size:28
Alignment explanation
Indices: 238756803--238756908 Score: 72
Period size: 28 Copynumber: 3.6 Consensus size: 28
238756793 ACTTTTTCTT
* **
238756803 AATTTGGTACCTAAATTTTTTTTGGCCC
1 AATTTGATACCTAAATTTTTTTTGGTTC
* *
238756831 AATTTGATATCTGAACTTGACATTTTTT--TTC
1 AATTTGATACCT-AAATT----TTTTTTGGTTC
*
238756862 TATTTTGATACCTAAATTTTTTTTGGTTC
1 -AATTTGATACCTAAATTTTTTTTGGTTC
* *
238756891 AATTTGGTACCTAGATTT
1 AATTTGATACCTAAATTT
238756909 ATTAAATATT
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
27 6 0.10
28 25 0.42
29 7 0.12
31 5 0.08
32 10 0.17
33 6 0.10
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (28 bp):
AATTTGATACCTAAATTTTTTTTGGTTC
Found at i:238760256 original size:40 final size:39
Alignment explanation
Indices: 238760088--238760258 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
238760078 AGAAATTGAA
* *
238760088 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
238760128 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
238760168 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
238760208 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
238760248 TGATATCCGGG
1 TGATATCCGGG
238760259 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:238768187 original size:40 final size:40
Alignment explanation
Indices: 238768095--238768244 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
238768085 AAATTGAATG
* * * *
238768095 ATATCCGGGCTAAG-CCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
238768133 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
238768173 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
238768213 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
238768245 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.14
39 19 0.20
40 62 0.65
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:238768259 original size:40 final size:38
Alignment explanation
Indices: 238768091--238768261 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
238768081 TGAGAAATTG
*
238768091 AATG-ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
238768129 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
238768166 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
238768206 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
238768246 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
238768262 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 18 0.17
39 10 0.09
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:238770510 original size:42 final size:42
Alignment explanation
Indices: 238770415--238770562 Score: 147
Period size: 43 Copynumber: 3.5 Consensus size: 42
238770405 TAGCTTAGAA
* * * * *
238770415 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCTC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCAATGTCCC
* * *
238770458 AGACAAGGTCTTCCACGAAATCAAATACGTTGCCAATGTCCC
1 AGACATGGTCTTACACGAAATCAAATACGATGCCAATGTCCC
* *
238770500 AGACATGGTCTTACACGTAAATCATAAGT-CGATGCTAACGTCCC
1 AGACATGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCCC
*
238770544 -GACGTGGTCTTACACGAAA
1 AGACATGGTCTTACACGAAA
238770563 CCACATATCG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 30 0.34
43 43 0.49
44 14 0.16
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCAATGTCCC
Found at i:238772425 original size:14 final size:14
Alignment explanation
Indices: 238772408--238772436 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
238772398 ATGTTATTGC
238772408 TAGTATCTTTTCTA
1 TAGTATCTTTTCTA
238772422 TAGTATCTTTTCTA
1 TAGTATCTTTTCTA
238772436 T
1 T
238772437 CTTTAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TAGTATCTTTTCTA
Found at i:238773056 original size:22 final size:23
Alignment explanation
Indices: 238773030--238773079 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
238773020 CCTCACACGT
* *
238773030 CCGTGTGGAGGCAAT-CGCACAC
1 CCGTGTAGAGACAATGCGCACAC
238773052 CCGTGTAGAGACAATGCGCACAC
1 CCGTGTAGAGACAATGCGCACAC
238773075 CCGTG
1 CCGTG
238773080 CGTATTAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.24, C:0.32, G:0.30, T:0.14
Consensus pattern (23 bp):
CCGTGTAGAGACAATGCGCACAC
Found at i:238777418 original size:46 final size:46
Alignment explanation
Indices: 238777355--238777583 Score: 300
Period size: 46 Copynumber: 5.0 Consensus size: 46
238777345 TTCGACATGA
* * * * * *
238777355 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
* ** * * *
238777401 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTATCAGGT
*
238777448 TGCCATGGTATCTTTCAACCATGGTCTTAAACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
238777494 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
238777540 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
238777584 AGAGCACACT
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 123 0.75
47 40 0.24
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:238777514 original size:93 final size:92
Alignment explanation
Indices: 238777355--238777583 Score: 316
Period size: 93 Copynumber: 2.5 Consensus size: 92
238777345 TTCGACATGA
* * * * * *
238777355 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCATTCAAC
** *
238777420 CATGGTCTTATTCATTTCCCCATCACGT
66 CATGGTCTTACACATTT-CACATCACGT
* *
238777448 TGCCATGGTATCTTTCAACCATGGTCTTAAACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCATTCAA
* *
238777512 CCATGGTCTTACACATTTCATATCAGGT
65 CCATGGTCTTACACATTTCACATCACGT
238777540 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
238777584 AGAGCACACT
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 49 0.41
93 71 0.59
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCATTCAAC
CATGGTCTTACACATTTCACATCACGT
Found at i:238780995 original size:40 final size:39
Alignment explanation
Indices: 238780950--238781115 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
238780940 CGGAATATAA
238780950 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
238780990 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
238781029 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
238781069 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
238781108 CCGGATAT
1 CCGGATAT
238781116 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:238781072 original size:79 final size:79
Alignment explanation
Indices: 238780966--238781115 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
238780956 ATAATCACGT
*
238780966 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
238781029 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
238781045 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
238781110 GGATAT
66 GGATAT
238781116 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:238781964 original size:17 final size:19
Alignment explanation
Indices: 238781941--238781986 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
238781931 AAGAAGCATG
238781941 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
238781959 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
238781977 AATCATGCTC
1 AATCATGCTC
238781987 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:238789004 original size:40 final size:40
Alignment explanation
Indices: 238788959--238789125 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
238788949 CGGAATATAA
238788959 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
238788999 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
238789039 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
238789079 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
238789118 CCGGATAT
1 CCGGATAT
238789126 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:238789109 original size:80 final size:79
Alignment explanation
Indices: 238788975--238789125 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
238788965 ATAATCACGT
*
238788975 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
238789040 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
238789055 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
238789118 CCGGATAT
64 CCGGATAT
238789126 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:238789973 original size:17 final size:19
Alignment explanation
Indices: 238789950--238789995 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
238789940 AAGAAGCATG
238789950 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
238789968 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
238789986 AATCATGCTC
1 AATCATGCTC
238789996 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:238790796 original size:15 final size:15
Alignment explanation
Indices: 238790776--238790805 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
238790766 CCACTCTCCG
238790776 ACTAGGGTCACATTC
1 ACTAGGGTCACATTC
238790791 ACTAGGGTCACATTC
1 ACTAGGGTCACATTC
238790806 GGGGTGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
ACTAGGGTCACATTC
Found at i:238793662 original size:40 final size:40
Alignment explanation
Indices: 238793617--238793784 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
238793607 CGGAATACAA
238793617 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACGAATGCCTTCGGGTCTTAGC
* * *
238793657 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *** *
238793697 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAAT-GCCTTCGGGTCTTAGC
** ** * *
238793737 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
238793777 CCGGATAT
1 CCGGATAT
238793785 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 101 0.94
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:238793767 original size:80 final size:80
Alignment explanation
Indices: 238793633--238793782 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
238793623 ATAACCACAT
* * * * *
238793633 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCC
238793698 CGGATGTGGTCACTA
66 CGGATGTGGTCACTA
** * *
238793713 GCAC-AATGGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 GCACGAAT-GCCTTCGGGTCTTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGC
238793777 CCGGAT
65 CCGGAT
238793783 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATGTGGTCACTA
Found at i:238796908 original size:24 final size:24
Alignment explanation
Indices: 238796878--238797096 Score: 375
Period size: 24 Copynumber: 9.1 Consensus size: 24
238796868 GAATGTGACT
* *
238796878 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
238796902 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238796926 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238796950 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238796974 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238796998 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238797022 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238797046 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238797070 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238797094 ATA
1 ATA
238797097 TGGTCTTTGC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:238804891 original size:24 final size:24
Alignment explanation
Indices: 238804861--238805079 Score: 375
Period size: 24 Copynumber: 9.1 Consensus size: 24
238804851 GAATGTGACT
* *
238804861 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
238804885 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238804909 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238804933 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238804957 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238804981 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238805005 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238805029 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
238805053 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
238805077 ATA
1 ATA
238805080 TGGTCTTTGC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:238810442 original size:29 final size:29
Alignment explanation
Indices: 238810408--238810539 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
238810398 TACTCGATTT
** * *
238810408 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
238810437 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
238810466 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
238810495 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
238810524 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
238810540 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:238818383 original size:29 final size:29
Alignment explanation
Indices: 238818349--238818509 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
238818339 TACTCGATTT
** * *
238818349 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
238818378 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
238818407 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
238818436 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
238818465 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
238818494 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
238818510 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:238822647 original size:29 final size:29
Alignment explanation
Indices: 238822613--238822744 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
238822603 TACTCGATTT
** * *
238822613 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
238822642 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
238822671 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
238822700 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
238822729 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
238822745 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:238826774 original size:26 final size:26
Alignment explanation
Indices: 238826738--238826791 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
238826728 GATGCGAATG
238826738 TCGAACTCGTTGAGTTGAGTCCGAGT
1 TCGAACTCGTTGAGTTGAGTCCGAGT
*
238826764 TCGAGCTCGTTGAGTTGAGTCCGAGT
1 TCGAACTCGTTGAGTTGAGTCCGAGT
238826790 TC
1 TC
238826792 ACTTATGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.31
Consensus pattern (26 bp):
TCGAACTCGTTGAGTTGAGTCCGAGT
Found at i:238834258 original size:46 final size:46
Alignment explanation
Indices: 238834208--238834383 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
238834198 TGGTTGAGCA
238834208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
238834254 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
238834299 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
238834347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
238834384 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:238834364 original size:93 final size:93
Alignment explanation
Indices: 238834205--238834376 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
238834195 GGATGGTTGA
* *
238834205 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
238834270 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
238834298 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
238834363 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
238834377 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:238838359 original size:2 final size:2
Alignment explanation
Indices: 238838352--238838389 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
238838342 TCACTTGGCC
238838352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
238838390 CTCAAAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:238840828 original size:46 final size:44
Alignment explanation
Indices: 238840701--238840862 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 44
238840691 ATGCCGATAC
*
238840701 CATGTCCCAGACATGGTCTTACACTAGCT-CATCCATCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTACAT-C-TCGAGTCGATG
* * *
238840747 CCATGTCCCAGACATGGTCTTATACTGATAGATCTCGTAGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTACATCTCG-AGTCGATG
* *
238840793 CATGTCCCAGACAT-GTCTTGCACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACT-GC-TACATCTCGAGTC-GATG
*
238840839 CATGTCCCAGACAT-GTCATACACT
1 CATGTCCCAGACATGGTCTTACACT
238840863 AGCTCAAGTT
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
44 8 0.08
45 20 0.20
46 45 0.45
47 26 0.26
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGGTCTTACACTGCTACATCTCGAGTCGATG
Found at i:238840883 original size:46 final size:46
Alignment explanation
Indices: 238840701--238840898 Score: 122
Period size: 46 Copynumber: 4.3 Consensus size: 46
238840691 ATGCCGATAC
* *
238840701 CATGTCCCAGACATGGTCTTACACTAGCT--CATCCATCAAGTC-GATG
1 CATGTCCCAGACAT-GTCATACACTAGCTCACAT-C-TCAAGACTGATG
* * * * * *
238840747 CCATGTCCCAGACATGGTCTTATACT-GAT-AGATCTCGTAGTC-GATG
1 -CATGTCCCAGACAT-GTCATACACTAGCTCACATCTC-AAGACTGATG
* * * * * *
238840793 CATGTCCCAGACATGTCTTGCACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCATACACTAGCTCACATCTCAAGACTGATG
* *
238840839 CATGTCCCAGACATGTCATACACTAGCTCA-AGTTTCAATACTGATG
1 CATGTCCCAGACATGTCATACACTAGCTCACA-TCTCAAGACTGATG
*
238840885 CCATGTCTCAGACA
1 -CATGTCCCAGACA
238840899 CGGTCTTACA
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
44 8 0.06
45 22 0.18
46 57 0.46
47 38 0.30
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCATACACTAGCTCACATCTCAAGACTGATG
Found at i:238843932 original size:40 final size:39
Alignment explanation
Indices: 238843887--238844016 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
238843877 CGGAATACAA
238843887 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
238843927 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
238843967 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
238844007 CCGGATATAA
1 CCGGATATAA
238844017 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:238856316 original size:68 final size:70
Alignment explanation
Indices: 238856244--238856441 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
238856234 ACACCCTGTA
* * * *
238856244 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
238856306 ATAAAT
65 ATAAAT
*
238856312 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
238856377 ATAAAT
65 ATAAAT
*
238856383 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
238856442 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:238856355 original size:41 final size:41
Alignment explanation
Indices: 238856310--238856427 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
238856300 TGAAAGATAA
238856310 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
238856351 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
238856381 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
238856422 ATGTAG
1 ATGTAG
238856428 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:238856367 original size:71 final size:71
Alignment explanation
Indices: 238856278--238856441 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
238856268 GAGATGTATC
238856278 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
238856343 AGGACA
66 AGGACA
238856349 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
238856414 AGGACA
66 AGGACA
238856420 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
238856442 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:238859911 original size:135 final size:137
Alignment explanation
Indices: 238859668--238859951 Score: 511
Period size: 135 Copynumber: 2.1 Consensus size: 137
238859658 TATTGGGCCT
** *
238859668 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
238859733 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
238859797 CATATGC
131 CATATGC
238859804 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
238859868 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
238859933 CATATGC
131 CATATGC
238859940 AAG-CCATTTGGG
1 AAGCCCATTTGGG
238859952 GAGACTACTC
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 102 0.71
136 41 0.29
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:238861760 original size:25 final size:26
Alignment explanation
Indices: 238861726--238861831 Score: 157
Period size: 25 Copynumber: 4.2 Consensus size: 26
238861716 ACATGAATTC
238861726 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
238861751 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
238861777 TTATCATG-GA-ATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
238861801 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
238861826 TTATCA
1 TTATCA
238861832 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.28
25 33 0.44
26 21 0.28
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:238865758 original size:133 final size:137
Alignment explanation
Indices: 238865574--238865856 Score: 511
Period size: 133 Copynumber: 2.1 Consensus size: 137
238865564 TATTGGGCCT
**
238865574 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
238865639 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTC-AAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
238865702 CATATGC
131 CATATGC
238865709 AAGCCCATTTGGGTAACAGT-GTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
238865772 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
238865837 CATATGC
131 CATATGC
238865844 AAGCCCATTTGGG
1 AAGCCCATTTGGG
238865857 GAGACTACTC
Statistics
Matches: 143, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
133 74 0.52
134 29 0.20
135 40 0.28
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:238867668 original size:26 final size:26
Alignment explanation
Indices: 238867632--238867740 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
238867622 ACATGAATTC
238867632 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
238867658 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
* *
238867684 TTATCATGGAATATTTACCT-AACCA
1 TTATCATGAAACATTTACCTAAACCA
* *
238867709 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
238867735 TTATCA
1 TTATCA
238867741 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 23 0.30
26 53 0.70
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:238867722 original size:51 final size:52
Alignment explanation
Indices: 238867632--238867740 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
238867622 ACATGAATTC
238867632 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
* * *
238867684 TTATCATGGAATATTTACCT-AACCATTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
238867735 TTATCA
1 TTATCA
238867741 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 36 0.67
52 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
Found at i:238872604 original size:40 final size:39
Alignment explanation
Indices: 238872559--238872688 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
238872549 CGGAATACAA
238872559 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
238872599 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
238872639 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
238872679 CCGGATATAA
1 CCGGATATAA
238872689 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:238879829 original size:272 final size:273
Alignment explanation
Indices: 238879340--238879896 Score: 1080
Period size: 272 Copynumber: 2.0 Consensus size: 273
238879330 GTATTAATTT
*
238879340 ATGGGGACCGTATTTCATTTACTAACTTGACTCAAATTATACCGTTAAGAGGGGTGGCTTACTCT
1 ATGGGGACTGTATTTCATTTACTAACTTGACTCAAATTATACCGTTAAGAGGGGTGGCTTACTC-
238879405 TGTTGTTGAAGTTGCATTACTAAGCCAACATCCCATCACCATCACAACAATTTAATAACCAAAAG
65 T-TTGTTGAAGTTGCATTACTAAGCCAACATCCCATCACCATCACAACAATTTAATAACCAAAAG
238879470 GTTTTAGAAACTTGTTGAAAATTATGATATATTTAATTGTTGTGGTTAAAGTTATGACATGAAAT
129 GTTTTAGAAACTTGTTGAAAATTATGATATATTTAATTGTTGTGGTTAAAGTTATGACATGAAAT
238879535 TTGGATCAAGGTTAATACGGACGGCGCGTGGGCCTGAAGTTGTCGACGTTCGTCTGTTGGAGGAG
194 TTGGATCAAGGTTAATACGGACGGCGCGTGGGCCTGAAGTTGTCGACGTTCGTCTGTTGGAGGAG
238879600 TCTTGCGGGGCTCGG
259 TCTTGCGGGGCTCGG
238879615 ATGGGGACTGTATTTCATTTACTAACTTGACTCAAATTATACCGTTAAGAGGGGTGGCTTACTC-
1 ATGGGGACTGTATTTCATTTACTAACTTGACTCAAATTATACCGTTAAGAGGGGTGGCTTACTCT
238879679 TTGTTGAAGTTGCATTACTAAGCCAACATCCCATCACCATCACAACAATTTAATAACCAAAAGGT
66 TTGTTGAAGTTGCATTACTAAGCCAACATCCCATCACCATCACAACAATTTAATAACCAAAAGGT
238879744 TTTAGAAACTTGTTGAAAATTATGATATATTTAATTGTTGTGGTTAAAGTTATGACATGAAATTT
131 TTTAGAAACTTGTTGAAAATTATGATATATTTAATTGTTGTGGTTAAAGTTATGACATGAAATTT
238879809 GGATCAAGGTTAATACGGACGGCGCGTGGGCCTGAAGTTGTCGACGTTCGTCTGTTGGAGGAGTC
196 GGATCAAGGTTAATACGGACGGCGCGTGGGCCTGAAGTTGTCGACGTTCGTCTGTTGGAGGAGTC
238879874 TTGCGGGGCTCGG
261 TTGCGGGGCTCGG
238879887 ATGGGGACTG
1 ATGGGGACTG
238879897 GCAGCTTTGA
Statistics
Matches: 281, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
272 218 0.78
275 63 0.22
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (273 bp):
ATGGGGACTGTATTTCATTTACTAACTTGACTCAAATTATACCGTTAAGAGGGGTGGCTTACTCT
TTGTTGAAGTTGCATTACTAAGCCAACATCCCATCACCATCACAACAATTTAATAACCAAAAGGT
TTTAGAAACTTGTTGAAAATTATGATATATTTAATTGTTGTGGTTAAAGTTATGACATGAAATTT
GGATCAAGGTTAATACGGACGGCGCGTGGGCCTGAAGTTGTCGACGTTCGTCTGTTGGAGGAGTC
TTGCGGGGCTCGG
Found at i:238885595 original size:13 final size:13
Alignment explanation
Indices: 238885577--238885623 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
238885567 ATTAATCTCG
*
238885577 AATTTAAGTTTAA
1 AATTTAAATTTAA
238885590 AATTTAAAATTT-A
1 AATTT-AAATTTAA
*
238885603 AATTAAAATTTAA
1 AATTTAAATTTAA
238885616 AATATTAA
1 AAT-TTAA
238885624 TATTACAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 14 0.50
14 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AATTTAAATTTAA
Found at i:238885597 original size:7 final size:7
Alignment explanation
Indices: 238885585--238885623 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
238885575 CGAATTTAAG
238885585 TTTAAAA
1 TTTAAAA
238885592 TTTAAAA
1 TTTAAAA
238885599 TTT-AAA
1 TTTAAAA
238885605 -TTAAAA
1 TTTAAAA
238885611 TTTAAAA
1 TTTAAAA
238885618 TATTAA
1 T-TTAA
238885624 TATTACAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.07
6 6 0.21
7 17 0.59
8 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:238885610 original size:19 final size:21
Alignment explanation
Indices: 238885586--238885628 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
238885576 GAATTTAAGT
238885586 TTAAAATTTAAAAT-TTAA-A
1 TTAAAATTTAAAATATTAATA
238885605 TTAAAATTTAAAATATTAATA
1 TTAAAATTTAAAATATTAATA
238885626 TTA
1 TTA
238885629 CAAGAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
20 4 0.18
21 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAATTTAAAATATTAATA
Found at i:238887633 original size:15 final size:15
Alignment explanation
Indices: 238887615--238887679 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 15
238887605 GAGGTGGGGA
238887615 TGGAGGTGGTGGTGG
1 TGGAGGTGGTGGTGG
238887630 TGGAGAGTAAACTGGTGGTGG
1 TGGAG-GT-----GGTGGTGG
*
238887651 TGGTGGTGGTGGTGG
1 TGGAGGTGGTGGTGG
*
238887666 TGGAGGTGGAGGTG
1 TGGAGGTGGTGGTG
238887680 AATAAACAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
15 25 0.61
16 2 0.05
20 2 0.05
21 12 0.29
ACGTcount: A:0.12, C:0.02, G:0.60, T:0.26
Consensus pattern (15 bp):
TGGAGGTGGTGGTGG
Found at i:238887648 original size:3 final size:3
Alignment explanation
Indices: 238887642--238887679 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
238887632 GAGAGTAAAC
* *
238887642 TGG TGG TGG TGG TGG TGG TGG TGG TGG AGG TGG AGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
238887680 AATAAACAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.66, T:0.29
Consensus pattern (3 bp):
TGG
Found at i:238887706 original size:45 final size:42
Alignment explanation
Indices: 238887602--238887762 Score: 126
Period size: 42 Copynumber: 3.8 Consensus size: 42
238887592 CGGGGTGATA
* * * * *
238887602 GTGGAGGTGGGGATGGAGGTGGTGGTGGTGGAGAGTAAACTG
1 GTGGAGGTGGAGATGGTGGTGGTGGAGGTGGAGAATAAACAG
* * *
238887644 GTGGTGGTGGTGGTGGTGGTGGTGGAGGTGGAGGTGAATAAACAG
1 GTGGAGGTGGAGATGGTGGTGGTGGAGGTGGA---GAATAAACAG
* * * *
238887689 GTGGAGGTGGAGATGGTGGCGGTGGA-GAGGAGAGTACACAG
1 GTGGAGGTGGAGATGGTGGTGGTGGAGGTGGAGAATAAACAG
* * * * * *
238887730 GTGGCGGCGGAGGTGGAGGTGGTGAAGGGGGAG
1 GTGGAGGTGGAGATGGTGGTGGTGGAGGTGGAG
238887763 GGGGAGGGGG
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 28 0.30
42 32 0.34
44 4 0.04
45 30 0.32
ACGTcount: A:0.19, C:0.04, G:0.58, T:0.19
Consensus pattern (42 bp):
GTGGAGGTGGAGATGGTGGTGGTGGAGGTGGAGAATAAACAG
Found at i:238893680 original size:40 final size:40
Alignment explanation
Indices: 238893537--238893702 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
238893527 CGGAATACAA
* **
238893537 CCGGATATAACCACGTGCACAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
* *
238893576 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
238893616 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
238893656 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
238893695 CCGGATAT
1 CCGGATAT
238893703 CATTCAATTT
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 30 0.29
40 73 0.71
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:238896402 original size:40 final size:40
Alignment explanation
Indices: 238896357--238896522 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
238896347 CGGAATATAA
238896357 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
238896397 CCGGATAGAAT-A-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
238896435 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
238896475 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
238896515 CCGGATAT
1 CCGGATAT
238896523 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 30 0.29
39 2 0.02
40 69 0.67
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:238904394 original size:40 final size:40
Alignment explanation
Indices: 238904349--238904516 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
238904339 CGGAATATAA
238904349 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
238904389 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
238904429 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
238904469 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
238904509 CCGGATAT
1 CCGGATAT
238904517 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:238904499 original size:80 final size:80
Alignment explanation
Indices: 238904365--238904514 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
238904355 ATAATCACGT
*
238904365 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
238904429 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
238904445 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
238904508 CCCGGAT
64 CCCGGAT
238904515 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:238906173 original size:32 final size:32
Alignment explanation
Indices: 238906132--238906197 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
238906122 ATTGTTATGC
238906132 CTCGGTTTTGTGGTCCCGAAACCACATTCCGG
1 CTCGGTTTTGTGGTCCCGAAACCACATTCCGG
238906164 CTCGGTTTTGTGGTCCCGAAACCACATTCCGG
1 CTCGGTTTTGTGGTCCCGAAACCACATTCCGG
238906196 CT
1 CT
238906198 AGGGTCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.32, G:0.24, T:0.29
Consensus pattern (32 bp):
CTCGGTTTTGTGGTCCCGAAACCACATTCCGG
Found at i:238910532 original size:40 final size:40
Alignment explanation
Indices: 238910453--238910656 Score: 290
Period size: 40 Copynumber: 5.1 Consensus size: 40
238910443 TCGGATTTAA
* *
238910453 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
238910492 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
238910532 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
238910572 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
238910612 CCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
238910653 CCGG
1 CCGG
238910657 TTATCATCCA
Statistics
Matches: 152, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.11
40 106 0.70
41 24 0.16
42 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:238914919 original size:27 final size:28
Alignment explanation
Indices: 238914889--238914958 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
238914879 ATAATAAGTC
*
238914889 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
238914916 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
238914944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
238914959 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:238922841 original size:27 final size:28
Alignment explanation
Indices: 238922811--238922880 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
238922801 ATAATAAGTC
*
238922811 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
238922838 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
238922866 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
238922881 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:238926403 original size:32 final size:32
Alignment explanation
Indices: 238926348--238926409 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
238926338 GCCCAATAAT
* * *
238926348 CAAACCCAATACACAGAAGCCCAAACCCCTTA
1 CAAACCCAAAACACAAAAGCCCAAAACCCTTA
* *
238926380 CAAACCCAAAACCCAAAATCCCAAAACCCT
1 CAAACCCAAAACACAAAAGCCCAAAACCCT
238926410 AATCAGCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.47, C:0.42, G:0.03, T:0.08
Consensus pattern (32 bp):
CAAACCCAAAACACAAAAGCCCAAAACCCTTA
Found at i:238940519 original size:73 final size:73
Alignment explanation
Indices: 238940374--238940713 Score: 388
Period size: 73 Copynumber: 4.8 Consensus size: 73
238940364 TTTGGGTACT
* * ** ** *
238940374 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATT--GAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCA
238940437 GGTCACACG
65 GGTCACACG
*
238940446 CTGAGGTATTTTTAATTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
238940511 GTCACACG
66 GTCACACG
*
238940519 CTGAGGTATTTTTAATTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTCAGCCTCAG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
238940584 GT--CACG
66 GTCACACG
* * ** *
238940590 TTGAGGTA--TTTAATTTTTTGTTTC-AAAATCAACTCATATTGCGAG-GGTGAGTTGAGCCTC-
1 CTGAGGTATTTTTAA-TTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCA
**
238940650 GG-GGCACG
65 GGTCACACG
* *
238940658 CTGAGGTA-TTTTAGTTTATGTTT---TAATTGACTC--ATTGCGAGAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
238940714 TTTAATTTTT
Statistics
Matches: 239, Mismatches: 22, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
64 8 0.03
65 13 0.05
66 7 0.03
67 2 0.01
68 33 0.14
69 28 0.12
70 9 0.04
71 30 0.13
72 19 0.08
73 90 0.38
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (73 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
GTCACACG
Found at i:238940843 original size:52 final size:51
Alignment explanation
Indices: 238940783--238940942 Score: 176
Period size: 52 Copynumber: 3.0 Consensus size: 51
238940773 GCTGAGGTAT
*
238940783 TTTCAATTTTTTGTTTTTAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTCAATTTTTT-TTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
**** * *
238940835 TTTCAATTTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACC
1 TTTCAATTT-TTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* **
238940887 TTTTAATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTCAATTT-T--TTTTT-TTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
238940942 T
1 T
238940943 CAGGTCACGC
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 50 0.55
53 3 0.03
54 3 0.03
55 35 0.38
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (51 bp):
TTTCAATTTTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:238940866 original size:122 final size:116
Alignment explanation
Indices: 238940601--238940883 Score: 383
Period size: 122 Copynumber: 2.4 Consensus size: 116
238940591 TGAGGTATTT
*
238940601 AATTTTTTGTTTCAAAATCAACTCATATTGCGAG-GGTGAGTTGAGCCTCGGGGCACGCTGAGGT
1 AATTTTAT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
* *
238940665 ATTTTAGTTTATGTTTTAATTGACTCATTGCGAGAGGTGAGTTAAGCCTTTT
65 ATTTTAGTTTATGTTTTAATTAACTCATTGCGAGAGGTGAGTTAAGCCTTTC
*
238940717 AATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGT
1 AA-TTTTATTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
* * *
238940781 ATTTTCAATTTTTTGTTTTTAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
65 ATTTT--AGTTTATG-TTTTAATT-AACTC--ATTGCGAGAGGTGAGTTAAGCCTTTC
*
238940839 AA-TTTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTTATTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGA
238940884 ACCTTTTAAT
Statistics
Matches: 149, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
116 46 0.31
117 20 0.13
118 6 0.04
119 8 0.05
120 12 0.08
122 57 0.38
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (116 bp):
AATTTTATTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
TTTTAGTTTATGTTTTAATTAACTCATTGCGAGAGGTGAGTTAAGCCTTTC
Found at i:238940929 original size:55 final size:52
Alignment explanation
Indices: 238940804--238940938 Score: 200
Period size: 52 Copynumber: 2.5 Consensus size: 52
238940794 TGTTTTTAAT
*
238940804 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATTTTCAAAAAA
1 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTCAATTTATTTTCAAAAAA
* *
238940856 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC-AAAAA
1 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTCAA-TT-TA--TTTTCAAAAAA
238940911 TCAACTCATATTGCGAGAGGTGAGTTGA
1 TCAACTCATATTGCGAGAGGTGAGTTGA
238940939 GCCTCAGGTC
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
52 34 0.45
53 2 0.03
54 2 0.03
55 32 0.43
56 5 0.07
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTCAATTTATTTTCAAAAAA
Found at i:238941009 original size:83 final size:79
Alignment explanation
Indices: 238940900--238941104 Score: 272
Period size: 83 Copynumber: 2.5 Consensus size: 79
238940890 TAATTTCTAC
*
238940900 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC-GAGGTATTTTC
1 TTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGCACGCTGAGGTATTTTC
*
238940964 AATTTCTGTTTTCATTATTA
64 AATTTC--TATT-ATT-TTA
*
238940984 TGTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCACGCTGAGGTATTTTCA
1 T-TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGCACGCTGAGGTATTTTCA
*
238941048 ATTTCTATTATTTTG
65 ATTTCTATTATTTTA
*
238941063 TTTTTCAAAAATCAACTCAT-GTGCGAGAGGTGAGTTGAGCCT
1 TTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
238941105 TTCAATTATT
Statistics
Matches: 112, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
78 4 0.04
79 24 0.21
80 16 0.14
81 3 0.03
82 7 0.06
83 53 0.47
84 1 0.01
85 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (79 bp):
TTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGCACGCTGAGGTATTTTCAA
TTTCTATTATTTTA
Found at i:238941120 original size:53 final size:54
Alignment explanation
Indices: 238941049--238941173 Score: 182
Period size: 54 Copynumber: 2.3 Consensus size: 54
238941039 GTATTTTCAA
*
238941049 TTTCTATTATTTTGTTTTTCAAAAATCAACTCAT-GTGCGAGAGGTGAGTTGAGCC
1 TTTCAATTA-TTT-TTTTTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCC
*
238941104 TTTCAATTATTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTCAATTATTTTTTTTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCC
* *
238941158 TTTTAATT-TCTTTTTT
1 TTTCAATTATTTTTTTT
238941174 NNNNNNNNNN
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
53 27 0.42
54 30 0.46
55 8 0.12
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (54 bp):
TTTCAATTATTTTTTTTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCC
Found at i:238943691 original size:80 final size:80
Alignment explanation
Indices: 238943607--238943755 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
238943597 TATGGTAACC
* * * *
238943607 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
238943671 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
238943687 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
238943752 CCGG
66 CCGG
238943756 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:238943697 original size:40 final size:38
Alignment explanation
Indices: 238943648--238943755 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
238943638 ATCACGATTT
*
238943648 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
238943688 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
238943728 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
238943756 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:238952140 original size:26 final size:26
Alignment explanation
Indices: 238952111--238952163 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
238952101 CTTGTCCAAT
238952111 TGTGGCCCTCTTAGCTCTTGAGCTAA
1 TGTGGCCCTCTTAGCTCTTGAGCTAA
238952137 TGTGGCCCTCTTAGCTCTTGAGCTAA
1 TGTGGCCCTCTTAGCTCTTGAGCTAA
238952163 T
1 T
238952164 TCAAACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (26 bp):
TGTGGCCCTCTTAGCTCTTGAGCTAA
Found at i:238957698 original size:17 final size:17
Alignment explanation
Indices: 238957676--238957710 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
238957666 AATTCAAACT
238957676 AATAAACTTCTTCATCA
1 AATAAACTTCTTCATCA
238957693 AATAAACTTCTTCATCA
1 AATAAACTTCTTCATCA
238957710 A
1 A
238957711 GGTCGTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAACTTCTTCATCA
Found at i:238961965 original size:39 final size:39
Alignment explanation
Indices: 238961911--238962073 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
238961901 TGTGAATGAA
238961911 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
238961950 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
238961989 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
238962028 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
238962068 TGTGCG
1 TGTGCG
238962074 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:238962089 original size:40 final size:39
Alignment explanation
Indices: 238961911--238962103 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
238961901 TGTGAATGAA
* *
238961911 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
238961950 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
238961989 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
238962028 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
238962068 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
238962104 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:238965330 original size:40 final size:40
Alignment explanation
Indices: 238965236--238965462 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
238965226 CGGATGCTAA
* * * *
238965236 CGGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
238965275 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
238965315 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
*
238965355 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
* * *
238965394 CGGGCTAAGTCCC-AAGGCATTTGTGCTAGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
* * *
238965433 CGGGCTAAGACCCGACGGC-CTTGTGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
238965463 GGTTATATCC
Statistics
Matches: 171, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 21 0.12
39 71 0.42
40 79 0.46
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:238965398 original size:79 final size:79
Alignment explanation
Indices: 238965236--238965487 Score: 316
Period size: 79 Copynumber: 3.2 Consensus size: 79
238965226 CGGATGCTAA
* *
238965236 CGGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTAATT-CGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
238965300 GCGAGTTACTA-ATT
66 GCGAGTTACTATA-T
* *
238965314 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
*
238965379 TGCGAATTACTATAT
65 TGCGAGTTACTATAT
* * * *
238965394 CGGGCTAAGTCCC-AAGGCATTTGTGCTAGTGAC-CATATCCGGGCTAAGACCCGACGGC-CTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
***
238965456 TGCGAGTGGTTATAT
65 TGCGAGTTACTATAT
* *
238965471 CCGGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAG
238965488 ATAATTGGGT
Statistics
Matches: 152, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
77 27 0.18
78 40 0.26
79 48 0.32
80 36 0.24
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:238973463 original size:40 final size:41
Alignment explanation
Indices: 238973406--238973591 Score: 256
Period size: 40 Copynumber: 4.7 Consensus size: 41
238973396 CTAACGGGGT
* *
238973406 TAAGTCCCGAAGACATTTGTGCTAGTGACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
238973446 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
238973486 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
238973526 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
238973566 TAAGACCCGACGGC-CTTGTGCGAGTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTG
238973592 GTTATATCCG
Statistics
Matches: 135, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 12 0.09
40 123 0.91
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:238981603 original size:29 final size:27
Alignment explanation
Indices: 238981569--238981671 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
238981559 TACTCAATCA
*
238981569 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
238981598 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
238981627 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
238981656 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
238981672 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:238989595 original size:29 final size:27
Alignment explanation
Indices: 238989561--238989663 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
238989551 TACTCAATCA
*
238989561 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
238989590 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
238989619 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
238989648 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
238989664 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:238993409 original size:28 final size:27
Alignment explanation
Indices: 238993327--238993415 Score: 151
Period size: 27 Copynumber: 3.3 Consensus size: 27
238993317 AGTCCGCACC
* *
238993327 TAGTGCTATATAATCAACTCGCACACT
1 TAGTGCTACATGATCAACTCGCACACT
238993354 TAGTGCTACATGATCAACTCGCACACT
1 TAGTGCTACATGATCAACTCGCACACT
238993381 TAGTGCTACATGATCAAACTCGCACACT
1 TAGTGCTACATGATC-AACTCGCACACT
238993409 TAGTGCT
1 TAGTGCT
238993416 GTACAAGTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 40 0.68
28 19 0.32
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
TAGTGCTACATGATCAACTCGCACACT
Found at i:238995300 original size:15 final size:15
Alignment explanation
Indices: 238995280--238995337 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
238995270 TATTTTCTTC
238995280 TGGATTTCTTTATGT-
1 TGGATTTCTTTAT-TA
* *
238995295 TGGATTTCTATATTC
1 TGGATTTCTTTATTA
*
238995310 TGGATTTCTCTATTA
1 TGGATTTCTTTATTA
*
238995325 TGGATTTCCTTAT
1 TGGATTTCTTTAT
238995338 CTTGAATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 1 0.03
15 36 0.97
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (15 bp):
TGGATTTCTTTATTA
Found at i:238998009 original size:40 final size:40
Alignment explanation
Indices: 238997930--238998087 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
238997920 TTCGAATGAT
* * * *
238997930 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
238997970 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
238998010 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
238998050 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
238998088 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:238998108 original size:80 final size:80
Alignment explanation
Indices: 238997930--238998117 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
238997920 TTCGAATGAT
* *
238997930 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
238997995 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
238998010 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
238998071 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
238998091 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
238998118 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:239005995 original size:40 final size:40
Alignment explanation
Indices: 239005916--239006073 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
239005906 TTCGAATGAT
* * * *
239005916 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
239005956 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
239005996 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
239006036 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
239006074 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:239006094 original size:80 final size:80
Alignment explanation
Indices: 239005916--239006103 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
239005906 TTCGAATGAT
* *
239005916 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
239005981 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
239005996 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
239006057 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
239006077 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
239006104 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:239010568 original size:29 final size:28
Alignment explanation
Indices: 239010466--239010569 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
239010456 GTGACAAGAT
*
239010466 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
239010495 TGGCACTAAGTGTGCGAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
239010524 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
239010553 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
239010570 AATCGATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:239018555 original size:29 final size:28
Alignment explanation
Indices: 239018453--239018556 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
239018443 GTGACAAGAT
*
239018453 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
239018482 TGGCACTAAGTGTGCGAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
239018511 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
239018540 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
239018557 AATCGATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:239022524 original size:30 final size:30
Alignment explanation
Indices: 239022461--239022567 Score: 130
Period size: 29 Copynumber: 3.6 Consensus size: 30
239022451 GTGACAAGAT
*
239022461 TGGCACTAAGTGTGC-AAGCTTGAAA-TATA
1 TGGCACTAAGTGTGCGAAACTT-AAATTATA
*
239022490 TGGCACTAAGTGTGCGAAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAAACTTAAATTATA
* * * *
239022520 TGGCACTATGTGTGCG-AGCTTAAATCACA
1 TGGCACTAAGTGTGCGAAACTTAAATTATA
239022549 TGGCACTAAGTGTGCGAAA
1 TGGCACTAAGTGTGCGAAA
239022568 TCGATTATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
29 42 0.64
30 24 0.36
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAAACTTAAATTATA
Found at i:239031080 original size:71 final size:71
Alignment explanation
Indices: 239030994--239031157 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
239030984 CGATTTGTCT
239030994 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
239031059 CTTTCA
66 CTTTCA
239031065 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
239031130 CTTTCA
66 CTTTCA
239031136 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
239031158 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:239031195 original size:71 final size:70
Alignment explanation
Indices: 239030994--239031191 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
239030984 CGATTTGTCT
* * * *
239030994 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
239031059 CTTTCA
65 CTTTCA
* * * *
239031065 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
239031130 CTTTCA
65 CTTTCA
* *
239031136 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
239031192 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:239038646 original size:71 final size:71
Alignment explanation
Indices: 239038562--239038725 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
239038552 CGATTTGTCT
239038562 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
239038627 CTTTCA
66 CTTTCA
239038633 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
239038698 CTTTCA
66 CTTTCA
239038704 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
239038726 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:239038763 original size:71 final size:70
Alignment explanation
Indices: 239038562--239038759 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
239038552 CGATTTGTCT
* * * *
239038562 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
239038627 CTTTCA
65 CTTTCA
* * * *
239038633 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
239038698 CTTTCA
65 CTTTCA
* *
239038704 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
239038760 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:239043635 original size:39 final size:39
Alignment explanation
Indices: 239043554--239043716 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
239043544 TATGGTAACC
* *
239043554 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
239043594 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
239043633 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
239043672 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
239043711 CGCACA
1 CGCACA
239043717 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:239051373 original size:38 final size:39
Alignment explanation
Indices: 239051276--239051437 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
239051266 TATGGTAACC
* *
239051276 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
239051316 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
239051355 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
239051393 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
239051432 CGCACA
1 CGCACA
239051438 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:239051435 original size:77 final size:78
Alignment explanation
Indices: 239051284--239051439 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
239051274 CCCGCACAAA
239051284 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
239051349 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
239051362 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
239051426 ACAATTCGCACAT
66 ACAACTCGCACAT
239051439 T
1 T
239051440 CATACACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:239053135 original size:46 final size:45
Alignment explanation
Indices: 239052991--239053140 Score: 153
Period size: 46 Copynumber: 3.2 Consensus size: 45
239052981 GGCTATCACA
*
239052991 CAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACT
1 CAACGAGTTC-GGCATTCGCATCCATAAGTGAACTCGGACTCAACT
* * * * *
239053037 CAACGAGTTCGG-ATGC-CTAGTTACATTTCA-CGAACTCAGACTCAACT
1 CAACGAGTTCGGCATTCGC-A--TCCA--TAAGTGAACTCGGACTCAACT
*
239053084 CAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACT
1 CAACGAGTTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACT
239053130 CAACGAGTTCG
1 CAACGAGTTCG
239053141 AATGCTCAAC
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.05
45 3 0.04
46 38 0.46
47 30 0.36
48 2 0.02
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CAACGAGTTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACT
Found at i:239053598 original size:30 final size:30
Alignment explanation
Indices: 239053564--239053623 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
239053554 ATTTAATACG
239053564 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
239053594 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
239053624 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:239069237 original size:27 final size:27
Alignment explanation
Indices: 239069206--239069258 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
239069196 AGAAATATGT
239069206 ATGTCCAATGATTATTGATGTATGTGA
1 ATGTCCAATGATTATTGATGTATGTGA
*
239069233 ATGTCTAATGATTATTGATGTATGTG
1 ATGTCCAATGATTATTGATGTATGTG
239069259 TGCTATAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (27 bp):
ATGTCCAATGATTATTGATGTATGTGA
Found at i:239070486 original size:77 final size:80
Alignment explanation
Indices: 239070353--239070534 Score: 205
Period size: 77 Copynumber: 2.3 Consensus size: 80
239070343 TTGAATGATG
* * * *
239070353 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTTC
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
239070417 GT-GAGTTAATA-AA
66 GTCGAGTTAATATAA
* **
239070430 TCCGGGCTAAGCCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
239070493 CGTGCGAGTTACTATAA
65 CGT-CGAGTTAATATAA
**
239070510 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
239070535 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
76 1 0.01
77 49 0.55
78 7 0.08
79 16 0.18
80 16 0.18
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTCGAGTTAATATAA
Found at i:239070490 original size:40 final size:40
Alignment explanation
Indices: 239070353--239070534 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
239070343 TTGAATGATG
* *
239070353 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * *
239070392 TCCGGACTAAGAT-CCGAAGGCGTTCGTG--AGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
239070430 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * *
239070469 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
**
239070510 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
239070535 AGCGAGTCGT
Statistics
Matches: 119, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
37 13 0.11
38 17 0.14
39 28 0.24
40 54 0.45
41 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:239075850 original size:46 final size:46
Alignment explanation
Indices: 239075797--239075972 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
239075787 ATATTGGGCA
239075797 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
239075843 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
239075890 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
239075936 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
239075973 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:239075952 original size:93 final size:93
Alignment explanation
Indices: 239075793--239075964 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
239075783 TGGGATATTG
* *
239075793 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
239075858 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
239075886 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
239075951 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
239075965 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:239078946 original size:15 final size:15
Alignment explanation
Indices: 239078926--239078994 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
239078916 ATATCTTGGG
239078926 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
239078941 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
239078956 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
239078971 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
239078986 TTTCTTTAT
1 TTTCTTTAT
239078995 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:239078995 original size:30 final size:30
Alignment explanation
Indices: 239078917--239079004 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
239078907 CATAGTATCA
* * * *
239078917 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
239078947 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
239078977 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
239079005 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:239080292 original size:28 final size:28
Alignment explanation
Indices: 239080246--239080314 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
239080236 TTTAAAACCC
*
239080246 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
239080273 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
239080301 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
239080315 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:239081959 original size:20 final size:20
Alignment explanation
Indices: 239081936--239081973 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
239081926 CACATCCAAA
*
239081936 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
239081956 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
239081974 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:239088293 original size:28 final size:28
Alignment explanation
Indices: 239088247--239088315 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
239088237 TTTAAAACCC
*
239088247 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
239088274 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
239088302 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
239088316 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:239096430 original size:40 final size:40
Alignment explanation
Indices: 239096322--239096531 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
239096312 CGGGATTTAA
* * * * *
239096322 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
239096362 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239096402 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239096442 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239096482 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239096522 CCGGATATAT
1 CCGGATATAT
239096532 TTGTTCACTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:239104560 original size:40 final size:40
Alignment explanation
Indices: 239104452--239104661 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
239104442 CGGGATTTAA
* * * * *
239104452 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
239104492 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239104532 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239104572 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239104612 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
239104652 CCGGATATAT
1 CCGGATATAT
239104662 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:239109827 original size:30 final size:29
Alignment explanation
Indices: 239109759--239109869 Score: 195
Period size: 30 Copynumber: 3.7 Consensus size: 29
239109749 GTGCGGTTTG
239109759 ATATATAGCACTAAGTGTGCGAGTGCTGAAA
1 ATATATAGCACTAAGTGTGCGA--GCTGAAA
239109790 ATATATAGCACTAAGTGTGCGAGCTGAAA
1 ATATATAGCACTAAGTGTGCGAGCTGAAA
239109819 ATTATATAGCACTAAGTGTGCGAGCTGAAA
1 A-TATATAGCACTAAGTGTGCGAGCTGAAA
239109849 ATATATAGCACTAAGTGTGCG
1 ATATATAGCACTAAGTGTGCG
239109870 GATTCACTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
29 28 0.35
30 29 0.37
31 22 0.28
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (29 bp):
ATATATAGCACTAAGTGTGCGAGCTGAAA
Found at i:239109881 original size:29 final size:29
Alignment explanation
Indices: 239109740--239109869 Score: 178
Period size: 30 Copynumber: 4.5 Consensus size: 29
239109730 ATTGGTCTCG
239109740 GCACTAAGTGTGCG-GTTTG---ATATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
239109766 GCACTAAGTGTGCGAGTGCTGAAAATATATA
1 GCACTAAGTGTGCGAGT--TGAAAATATATA
*
239109797 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
239109827 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
239109856 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
239109870 GATTCACTAT
Statistics
Matches: 96, Mismatches: 1, Indels: 11
0.89 0.01 0.10
Matches are distributed among these distances:
26 15 0.16
27 1 0.01
28 2 0.02
29 26 0.27
30 29 0.30
31 23 0.24
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Done.