Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 106 of 253
Found at i:32998249 original size:42 final size:42
Alignment explanation
Indices: 32998138--32998234 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
32998128 TATCTAATTC
*
32998138 GTGTAAGACCATAGCTGGGCTATGGCATCTATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCTATATATGAAGAT
* *
32998180 GTGTAAGACCATAGCCGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCTA-TATATGAAGAT
32998222 GTGTAAGACCATA
1 GTGTAAGACCATA
32998235 ATTGAACTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCTATATATGAAGAT
Found at i:33003039 original size:50 final size:51
Alignment explanation
Indices: 33002962--33003090 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
33002952 GACTATGGCA
*
33002962 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
33003013 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
33003063 ACAACTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
33003091 CTAATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:33003106 original size:31 final size:31
Alignment explanation
Indices: 33003068--33003214 Score: 215
Period size: 31 Copynumber: 4.7 Consensus size: 31
33003058 AAATGACAAC
*
33003068 TGAAAAGTGGTAGCTTCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
**
33003099 TGAAAAGTGGTAGCTTTTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
33003130 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
33003161 TGAAAAATGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAG
* *
33003192 TGAATAGTGGTAGTTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
33003215 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 100 0.97
32 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:33003391 original size:42 final size:43
Alignment explanation
Indices: 33003334--33003447 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 43
33003324 ATCTGATTCG
*
33003334 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATA
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATA
* *
33003376 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATA
* **
33003418 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
33003448 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATA
Found at i:33004999 original size:22 final size:22
Alignment explanation
Indices: 33004973--33005027 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
33004963 ATCACAACTC
33004973 CTTTTCTTTTCTCTCTCATTTT
1 CTTTTCTTTTCTCTCTCATTTT
* * *
33004995 CTTTTCTTTTTTTTTTCATTTT
1 CTTTTCTTTTCTCTCTCATTTT
*
33005017 CACTTTCTTTT
1 C-TTTTCTTTT
33005028 TCCACTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTTCTTTTCTCTCTCATTTT
Found at i:33017804 original size:47 final size:47
Alignment explanation
Indices: 33017741--33018176 Score: 710
Period size: 47 Copynumber: 9.3 Consensus size: 47
33017731 CCCTTCGGGA
* *
33017741 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * ** * *
33017788 CTTATCACATATATACACCTTCACATCCATCACATCAGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
33017835 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
33017882 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
33017929 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
33017976 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
33018023 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
33018070 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
33018117 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
33018164 CTTATCACATATA
1 CTTATCACATATA
33018177 CATATCTTGT
Statistics
Matches: 357, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 357 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:33021589 original size:15 final size:15
Alignment explanation
Indices: 33021569--33021599 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33021559 AATTATGAAA
33021569 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
33021584 GATATGTTTTGTATT
1 GATATGTTTTGGATT
33021599 G
1 G
33021600 GAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:33025835 original size:16 final size:16
Alignment explanation
Indices: 33025814--33025847 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33025804 TATTGATTGA
*
33025814 TCCTGGTTTGACTCAT
1 TCCTGGTTCGACTCAT
*
33025830 TCCTGGTTCGATTCAT
1 TCCTGGTTCGACTCAT
33025846 TC
1 TC
33025848 TTATGTGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (16 bp):
TCCTGGTTCGACTCAT
Found at i:33027748 original size:27 final size:27
Alignment explanation
Indices: 33027718--33028034 Score: 307
Period size: 27 Copynumber: 11.7 Consensus size: 27
33027708 TTAGTTTACC
*
33027718 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
33027745 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33027772 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
33027799 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
33027826 AAATTACCAAAATACCCCCAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33027853 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33027880 AAATTTCCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
33027907 AAATTACCAAAATACCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
33027934 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
33027961 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * **
33027988 AAATTACCAAAGTA-CCCTCGATTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTA
33028015 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
33028035 TAGGGTAGAA
Statistics
Matches: 244, Mismatches: 44, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 3 0.01
27 237 0.97
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:33028046 original size:27 final size:27
Alignment explanation
Indices: 33028024--33028452 Score: 531
Period size: 27 Copynumber: 15.9 Consensus size: 27
33028014 AAAATTACCA
33028024 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
33028051 AAGTACCCTTGTAAGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
33028078 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
** *
33028105 AAATACCCCAATAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
33028132 AAATGCCCCTGTATGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * **
33028159 AAATACCCCTATAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
33028186 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
33028213 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
33028240 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
33028267 -AATACCCCTGTAGGGTAGAATTGCTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * **
33028293 AAATGCCCCTGTAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
33028320 AAATACCCGTGTAGGGTAGAATTAGTG
1 AAATACCCCTGTAGGGTAGAATTACTG
33028347 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* *
33028374 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
33028401 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
33028428 AGATA-CCCTCGTGGGGTAAAATTAC
1 AAATACCCCT-GTAGGGTAGAATTAC
33028453 CATTTTGCCC
Statistics
Matches: 345, Mismatches: 53, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.08
27 316 0.92
28 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:33028933 original size:22 final size:22
Alignment explanation
Indices: 33028881--33028945 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
33028871 TTAAAGCCTT
* *
33028881 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
33028903 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
33028925 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
33028946 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:33029134 original size:27 final size:27
Alignment explanation
Indices: 33029104--33029204 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
33029094 ATTCTGTTAA
* * *
33029104 GTGGCTTTGCCACATTATCTATTTCTT
1 GTGGCTATGCCACAATATCTATTTCTG
*
33029131 GTGGCTATGCCACAAATATCT-GTTCTG
1 GTGGCTATGCCAC-AATATCTATTTCTG
* * *
33029158 GTGGCTCTGCCACAATATCTATATCTA
1 GTGGCTATGCCACAATATCTATTTCTG
* * *
33029185 GTGACTCTGTCACAATATCT
1 GTGGCTATGCCACAATATCT
33029205 GATAACTGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTATTTCTG
Found at i:33029162 original size:54 final size:53
Alignment explanation
Indices: 33029104--33029205 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
33029094 ATTCTGTTAA
* * * * *
33029104 GTGGCTTTGCCACATTATCTATTTCTTGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTAGTGACTATGCCAC-AATATCTGTTCTG
* *
33029158 GTGGCTCTGCCACAATATCTATATCTAGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTAGTGACTATGCCACAATATCTG
33029206 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:33029396 original size:31 final size:31
Alignment explanation
Indices: 33029350--33029515 Score: 215
Period size: 31 Copynumber: 5.4 Consensus size: 31
33029340 ACATTCTAAT
* * *
33029350 TTTTTATTCTGTTACCTGATACTGATTCTAA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
*
33029381 TTTTGATTCTATTACCTGATACTGATACTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
*
33029412 TTTTGTTTCTATTACCTGATACTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* * *
33029443 TTTTGATTCTGTTACCTGATGCTGATTTTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* * * * *
33029474 TTCTGATTCTGTCACCTAATTCTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
33029505 TTTTGATTCTA
1 TTTTGATTCTA
33029516 GTTCTGATAA
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 118 1.00
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
TTTTGATTCTATTACCTGATACTGATTCTGA
Found at i:33029442 original size:6 final size:6
Alignment explanation
Indices: 33029365--33029523 Score: 76
Period size: 6 Copynumber: 25.8 Consensus size: 6
33029355 ATTCTGTTAC
* * * * *
33029365 CTGATA CTGATT CTAATT TTGATT CT-ATT ACCTGATA CTGATA CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * *
33029414 TTGTTT CT-ATT ACCTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATG
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT
* * * *
33029464 CTGATT TTGATT CTGATT CTG-TCAC CTAATT CTGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
33029513 CT-AGTT CTGAT
1 CTGA-TT CTGAT
33029524 AATGTTTCTT
Statistics
Matches: 114, Mismatches: 25, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
5 9 0.08
6 89 0.78
7 10 0.09
8 6 0.05
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:33033433 original size:15 final size:15
Alignment explanation
Indices: 33033413--33033443 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33033403 AATTATGAAA
*
33033413 GATATGTTTTGGATT
1 GATATGTTTTGCATT
33033428 GATATGTTTTGCATT
1 GATATGTTTTGCATT
33033443 G
1 G
33033444 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (15 bp):
GATATGTTTTGCATT
Found at i:33038123 original size:29 final size:28
Alignment explanation
Indices: 33038086--33038151 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
33038076 AAGTCTACAT
* * *
33038086 ACATGCATATGTCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCA-TAGCCCCAAATC
* *
33038115 ACATTCATATGGCCCATCGCCCCCAATC
1 ACATTCATATGGCCCATAGCCCCAAATC
33038143 ACATTCATA
1 ACATTCATA
33038152 GTCATGCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATAGCCCCAAATC
Found at i:33042476 original size:29 final size:28
Alignment explanation
Indices: 33042411--33042504 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
33042401 AAATCTACAT
* * * *
33042411 ACATGCATGTGGCCCACTAGTCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
33042439 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
33042468 ACATTCATATGGCCCATCAGCCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
33042496 ACATTCATA
1 ACATTCATA
33042505 GTCATGCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 32 0.56
29 25 0.44
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:33044568 original size:40 final size:40
Alignment explanation
Indices: 33044510--33044587 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
33044500 AATCACAGGC
*
33044510 CTGCTCATACAAGCTGATGGTCAGGACGTAACTACTCGAG
1 CTGCTCACACAAGCTGATGGTCAGGACGTAACTACTCGAG
*
33044550 CTGCTCACACAAGTTGATGGTCAGGACGTAACTACTCG
1 CTGCTCACACAAGCTGATGGTCAGGACGTAACTACTCG
33044588 GGCTACTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
CTGCTCACACAAGCTGATGGTCAGGACGTAACTACTCGAG
Found at i:33061167 original size:46 final size:46
Alignment explanation
Indices: 33061001--33061222 Score: 209
Period size: 46 Copynumber: 4.8 Consensus size: 46
33060991 TGTAACCCGC
* * * * * *
33061001 CCATAAGCGAACTCGGAATCAACTCAATGAGCTCGTACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
33061047 CCATCAGTGAACTCGGACTCAACTCAATGCGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
33061097 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* ** *
33061140 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33061186 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33061223 TGCCCAAATA
Statistics
Matches: 145, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 2 0.01
46 100 0.69
47 27 0.19
48 3 0.02
49 1 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33065271 original size:10 final size:10
Alignment explanation
Indices: 33065256--33065284 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
33065246 GTCATCCATA
33065256 CCAAATCATG
1 CCAAATCATG
33065266 CCAAATCATG
1 CCAAATCATG
33065276 CCAAATCAT
1 CCAAATCAT
33065285 AATCTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (10 bp):
CCAAATCATG
Found at i:33067919 original size:50 final size:50
Alignment explanation
Indices: 33067787--33067987 Score: 217
Period size: 50 Copynumber: 4.0 Consensus size: 50
33067777 TATGTAGCCA
* * * *
33067787 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACC-
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * *
33067836 AATTATC-CAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 AACTATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * *
33067886 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * **
33067936 AAGTTATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACACGCGACCT
1 AA-CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT
33067987 A
1 A
33067988 GCTACATATA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 40 0.31
50 46 0.36
51 41 0.32
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:33068005 original size:101 final size:99
Alignment explanation
Indices: 33067787--33067987 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
33067777 TATGTAGCCA
* * * * *
33067787 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATCCAGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCAATTATCCAGTACACA
*
33067852 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * ** **
33067886 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGCGA-CCAA-TTATCCAGTACA
33067951 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
33067987 A
1 A
33067988 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 41 0.47
100 3 0.03
101 43 0.49
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCAATTATCCAGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:33076608 original size:47 final size:47
Alignment explanation
Indices: 33076539--33076658 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 47
33076529 AGGCGCCGAT
* * *
33076539 GCCATGTCCCAGACACGGTCTTACACTGGCTCAT-ATCT-TAAGTCAAA
1 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCTAA-CCAAA
*
33076586 GCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAACCGAA
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-TAACCAAA
33076634 G-CATGTCCCAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
33076659 AGCTTACGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
46 12 0.18
47 47 0.71
48 4 0.06
49 3 0.05
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCTAACCAAA
Found at i:33080773 original size:27 final size:27
Alignment explanation
Indices: 33080740--33080920 Score: 211
Period size: 27 Copynumber: 6.7 Consensus size: 27
33080730 GGGTAAGTTG
* *
33080740 TAGAATTACCGAAATACCCCTATAAGA
1 TAGAATTACCGAAATACCCCTGTAGGA
* *
33080767 TAGAATTATCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGA
* ** * *
33080794 TAAAATTATTGAAATACCCTTATAGGA
1 TAGAATTACCGAAATACCCCTGTAGGA
33080821 TAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGA
* *
33080848 TAGAATTACCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGA
* * *
33080875 TAGAAATATCGAAATACGCCTGTAAGG-
1 TAGAATTACCGAAATACCCCTGT-AGGA
*
33080902 TAGAATTACCGAGATACCC
1 TAGAATTACCGAAATACCC
33080921 TCGTGGGGTA
Statistics
Matches: 129, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 126 0.98
28 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGA
Found at i:33080823 original size:54 final size:54
Alignment explanation
Indices: 33080739--33080921 Score: 249
Period size: 54 Copynumber: 3.4 Consensus size: 54
33080729 TGGGTAAGTT
* *
33080739 GTAGAATTACCGAAATACCCCTATAAGATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTATAGGATAGAATTATCGAAATACCCCTGTAGG
* ** *
33080793 GTAAAATTATTGAAATACCCTTATAGGATAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTATAGGATAGAATTATCGAAATACCCCTGTAGG
* * * * * *
33080847 ATAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACGCCTGTAAG
1 GTAGAATTACCGAAATACCCTTATAGGATAGAATTATCGAAATACCCCTGTAGG
*
33080901 GTAGAATTACCGAGATACCCT
1 GTAGAATTACCGAAATACCCT
33080922 CGTGGGGTAA
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCTTATAGGATAGAATTATCGAAATACCCCTGTAGG
Found at i:33080875 original size:81 final size:81
Alignment explanation
Indices: 33080739--33080920 Score: 262
Period size: 81 Copynumber: 2.2 Consensus size: 81
33080729 TGGGTAAGTT
*
33080739 GTAGAATTACCGAAATACCCCTATAAGATAGAATTATCGAAATACCCCTGTAGGGTA-AAATTAT
1 GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCCTGTAGGGTAGAAA-TAT
*
33080803 TGAAATAC-CCT-TATAG
65 CGAAATACGCCTGTA-AG
* * *
33080819 GATAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATAT
1 G-TAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCCTGTAGGGTAGAAATAT
33080884 CGAAATACGCCTGTAAG
65 CGAAATACGCCTGTAAG
*
33080901 GTAGAATTACCGAGATACCC
1 GTAGAATTACCGAAATACCC
33080921 TCGTGGGGTA
Statistics
Matches: 92, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
80 1 0.01
81 80 0.87
82 9 0.10
83 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCCTGTAGGGTAGAAATATC
GAAATACGCCTGTAAG
Found at i:33081711 original size:32 final size:32
Alignment explanation
Indices: 33081657--33081719 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
33081647 CTCGCTGCAA
*
33081657 TCTGGTGGCTTGCCACACATATATATATCTGC
1 TCTGGTGGCTAGCCACACATATATATATCTGC
*
33081689 TCTGGTGGCCTAGCCACA-ATATATGTATCTG
1 TCTGGTGG-CTAGCCACACATATATATATCTG
33081720 GTGACTTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (32 bp):
TCTGGTGGCTAGCCACACATATATATATCTGC
Found at i:33083710 original size:17 final size:18
Alignment explanation
Indices: 33083688--33083721 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33083678 TGAAGCATAC
33083688 AGAAAG-TCAGAATCGTG
1 AGAAAGATCAGAATCGTG
33083705 AGAAAGATCAGAATCGT
1 AGAAAGATCAGAATCGT
33083722 TTTAGGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (18 bp):
AGAAAGATCAGAATCGTG
Found at i:33086821 original size:22 final size:22
Alignment explanation
Indices: 33086796--33086839 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33086786 ATCGACTTTC
33086796 GAGGCAATTGGGAGGATTACTT
1 GAGGCAATTGGGAGGATTACTT
*
33086818 GAGGCAGTTGGGAGGATTACTT
1 GAGGCAATTGGGAGGATTACTT
33086840 ACCGTTGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.39, T:0.27
Consensus pattern (22 bp):
GAGGCAATTGGGAGGATTACTT
Found at i:33088419 original size:27 final size:27
Alignment explanation
Indices: 33088378--33088550 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
33088368 TGGATAAGTT
33088378 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
33088405 GTAGAATTATTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
33088432 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
33088459 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
33088486 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
33088513 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
33088540 GTAAAATTACC
1 GTAGAATTACC
33088551 ATTTTGCCCC
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:33089289 original size:27 final size:27
Alignment explanation
Indices: 33089259--33089311 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
33089249 CCTCGCTACA
*
33089259 ATCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGACCTAGCCACAATATCTGT
* * *
33089286 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTAGCCACAATATCTG
33089312 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
ATCTGGTGACCTAGCCACAATATCTGT
Found at i:33089291 original size:67 final size:67
Alignment explanation
Indices: 33089174--33089323 Score: 232
Period size: 67 Copynumber: 2.2 Consensus size: 67
33089164 GAGGGAGCGT
*
33089174 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGTCACAA
33089239 TA
66 TA
* *
33089241 TGTGGCAGCCTCGCTACAATCTGGTGGCCT-AGCCACA-ATATCTGTATCTGGTGACTTCGTCAC
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTCA-CCACATATATCTAT-TCTGGTGACTTCGTCAC
33089304 AATA
64 AATA
*
33089308 TCTGGCAGCCTTGCTA
1 TCTGGCAGCCTCGCTA
33089324 TAATTTCTGT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
66 8 0.11
67 68 0.89
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTACAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGTCACAA
TA
Found at i:33097526 original size:28 final size:28
Alignment explanation
Indices: 33097486--33097637 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
33097476 ATATTAAGTC
* *
33097486 CGCACACTCAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33097514 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33097542 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
33097570 TGCATACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
33097598 CGCAAACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33097627 CGCACACTTAG
1 CGCACACTTAG
33097638 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 97 0.87
29 15 0.13
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33104277 original size:28 final size:28
Alignment explanation
Indices: 33104214--33104336 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
33104204 ATATTAAGTC
*
33104214 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33104241 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33104269 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33104297 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33104326 CGCACACTTAG
1 CGCACACTTAG
33104337 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33112220 original size:28 final size:28
Alignment explanation
Indices: 33112187--33112338 Score: 250
Period size: 28 Copynumber: 5.4 Consensus size: 28
33112177 ATATTAAGTC
*
33112187 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33112215 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33112243 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33112271 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33112299 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33112328 CGCACACTTAG
1 CGCACACTTAG
33112339 CGCCAATCTC
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 102 0.86
29 16 0.14
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33118750 original size:40 final size:40
Alignment explanation
Indices: 33118666--33118889 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
33118656 TTGAATGATG
* * * *
33118666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33118706 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
33118746 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33118784 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33118824 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33118865 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33118890 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33118884 original size:80 final size:80
Alignment explanation
Indices: 33118666--33118889 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
33118656 TTGAATGATG
* * * * *
33118666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
33118729 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
33118746 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
33118808 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
33118824 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
33118889 G
66 G
33118890 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:33127530 original size:28 final size:27
Alignment explanation
Indices: 33127467--33127618 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
33127457 ATATTAAGTC
* * * *
33127467 CGCATACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
33127494 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
33127522 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
33127549 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
33127577 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
33127604 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33127619 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:33127560 original size:55 final size:55
Alignment explanation
Indices: 33127467--33127618 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
33127457 ATATTAAGTC
* * * *
33127467 CGCATACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
33127522 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
33127577 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
33127619 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:33129885 original size:40 final size:40
Alignment explanation
Indices: 33129808--33130025 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
33129798 ATGTCTGGGC
* * * * *
33129808 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
* * *
33129848 TAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
33129888 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* *
33129927 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAATCCAGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
33129967 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
33130007 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
33130026 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
39 34 0.22
40 110 0.71
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:33130048 original size:119 final size:119
Alignment explanation
Indices: 33129808--33130031 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 119
33129798 ATGTCTGGGC
* *
33129808 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTTGTGCGAG
* ** * *
33129873 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCGAGT
* *
33129927 TAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAATCCAGG-TTAAG-TCCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACAAAATCC-GGATTAAGAT-CCGAAGGCATTTGTGC
* * *
33129989 GAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
63 GAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAG
33130032 GAGCTATATC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 3 0.03
119 61 0.68
120 26 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCGAGT
Found at i:33141049 original size:47 final size:45
Alignment explanation
Indices: 33140981--33141155 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 45
33140971 GGGCTATTGT
*
33140981 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGA-
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGG--ACATTGAGAC
* *
33141027 GAGCCAGTGTAAAACCATGTCTAGGACATGGCATC-GACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGACATTGAGAC
* * *
33141073 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATC-GACCTCGAGAC
1 GA--GCTAGTGTAAGACATGTCTAGGACATGCATCGGACATTGAGAC
* *
33141119 ATAAG-TCAATGTAAGACATGTCT-GAGACATGCATCGG
1 --GAGCT-AGTGTAAGACATGTCTAG-GACATGCATCGG
33141156 CTACGAGATG
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
45 10 0.09
46 54 0.50
47 29 0.27
48 16 0.15
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGACATTGAGAC
Found at i:33152705 original size:8 final size:8
Alignment explanation
Indices: 33152692--33152729 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
33152682 CTAGATACCG
33152692 TTCTTCTC
1 TTCTTCTC
33152700 TTCTTCTC
1 TTCTTCTC
*
33152708 ATCTTCTC
1 TTCTTCTC
33152716 TTCTTCTC
1 TTCTTCTC
33152724 TT-TTCT
1 TTCTTCT
33152730 ATGCTTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (8 bp):
TTCTTCTC
Found at i:33161706 original size:40 final size:39
Alignment explanation
Indices: 33161636--33161712 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
33161626 ATTGTGCTGA
* * *
33161636 GATTCTATCTGGGTTAGAGACCCGCTGGCTTCATGCTAG
1 GATTCTATCTGGGTTAAAGACCCGCAGGCTTAATGCTAG
* *
33161675 GATTGTATCTGGGTTTAAAGTCCCGCAGGCTTAATGCT
1 GATTCTATCTGGG-TTAAAGACCCGCAGGCTTAATGCT
33161713 GGTGAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 12 0.38
40 20 0.62
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (39 bp):
GATTCTATCTGGGTTAAAGACCCGCAGGCTTAATGCTAG
Found at i:33164087 original size:40 final size:40
Alignment explanation
Indices: 33164032--33164426 Score: 700
Period size: 40 Copynumber: 9.9 Consensus size: 40
33164022 TGAGAGCTAG
*
33164032 ATATCCGGGCTAAGTCTTGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
33164072 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
* *
33164112 ATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
33164152 ATATCCGAGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
33164192 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTTCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
33164232 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
33164272 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
33164312 ACATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
33164352 ATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
* * *
33164392 ATATCCGGGCTAGGTCCCGAAGAGCATTCATGCTG
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTG
33164427 AATGATGTGT
Statistics
Matches: 339, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 339 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
Found at i:33166231 original size:47 final size:45
Alignment explanation
Indices: 33166178--33166298 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
33166168 TGGCCATGAT
33166178 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
33166225 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTATGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
* *
33166270 AGGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
33166299 AAAGTGTGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
45 19 0.31
46 7 0.11
47 35 0.57
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:33166431 original size:39 final size:40
Alignment explanation
Indices: 33166372--33166456 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
33166362 AAATGAATTG
* * * * *
33166372 TGCTGAGATTCTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTCTATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
33166411 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTCTATCCGGGTTTAAAGACCCGCAGGCTTAA
33166451 TGCTGG
1 TGCTGG
33166457 TGAATTAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTCTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:33172247 original size:46 final size:45
Alignment explanation
Indices: 33172188--33172401 Score: 193
Period size: 46 Copynumber: 4.6 Consensus size: 45
33172178 GGGCTATTGT
* *
33172188 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTGTGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC--ATTGAGAC
*
33172234 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTGAGAC
* * * *
33172280 GAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCC-TCGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
* * * *
33172326 GTAAGTCAGTGTAAGACATGTCTGGGACATGCATCAGCTA-CGAGAT
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
* * *
33172372 GTGTCAGTGTAAGACCATGTTTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
33172402 GTATCGGCAC
Statistics
Matches: 143, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
44 12 0.08
45 20 0.14
46 62 0.43
47 32 0.22
48 17 0.12
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
Found at i:33177405 original size:18 final size:18
Alignment explanation
Indices: 33177382--33177419 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33177372 CAAAAGGAAT
* *
33177382 TTTTCATTTTCATTTTTA
1 TTTTCAATTTCAATTTTA
33177400 TTTTCAATTTCAATTTTA
1 TTTTCAATTTCAATTTTA
33177418 TT
1 TT
33177420 ATTTTGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCAATTTCAATTTTA
Found at i:33185988 original size:46 final size:46
Alignment explanation
Indices: 33185935--33186157 Score: 195
Period size: 46 Copynumber: 4.8 Consensus size: 46
33185925 ATTTGTTTGT
* *
33185935 GAGCTAGTGTAAGACATGTTTGGGATATGCATCGGCATTGAGA-CAA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-TTGAGATCAA
**
33185981 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGTCTTGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTTGAGATCAA
* * * *
33186028 -AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGAT-TA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-TGAGATCAA
* * * * *
33186073 TAG-TCAGTGTAAGACTGTGTCTGGGACATGGCATTGACTTGAGAT-AT
1 GAGCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTTGAGATCAA
* * *
33186120 GAACCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
33186158 ACCTTACCCA
Statistics
Matches: 148, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.03
46 88 0.59
47 48 0.32
48 8 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGATCAA
Found at i:33198185 original size:79 final size:82
Alignment explanation
Indices: 33198074--33198258 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
33198064 GCTACTCGTT
* *
33198074 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33198137 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
33198154 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGGACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33198217 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33198234 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33198259 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33198258 original size:40 final size:40
Alignment explanation
Indices: 33198055--33198258 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
33198045 CGGAATTTAA
** *
33198055 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33198095 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33198135 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33198174 CCGGA-ATTAGTATCTCGGACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33198214 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33198254 CCGGA
1 CCGGA
33198259 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33200910 original size:15 final size:14
Alignment explanation
Indices: 33200892--33200931 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
33200882 TTTTTGTGTC
*
33200892 TTGGATTTCTTTAT
1 TTGGATTTCTATAT
33200906 GTTGGATTTCTATAT
1 -TTGGATTTCTATAT
33200921 TCTGGATTTCT
1 T-TGGATTTCT
33200932 CCGTTATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.57
Consensus pattern (14 bp):
TTGGATTTCTATAT
Found at i:33208416 original size:27 final size:27
Alignment explanation
Indices: 33208371--33208462 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
33208361 GTACAAATCT
* * * * *
33208371 GTCATTTTAACTTACAGGGGTATTACA
1 GTCATTTTACCATATAGGGGTATTTCG
33208398 GTCATTTTACCATATAGGGGTATTTCG
1 GTCATTTTACCATATAGGGGTATTTCG
** *
33208425 GTCATTCAACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCATATAG-GGGTATTTCG
33208452 GTCATTTTACC
1 GTCATTTTACC
33208463 TTACAAGGCA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATATAGGGGTATTTCG
Found at i:33212761 original size:46 final size:46
Alignment explanation
Indices: 33212711--33212879 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
33212701 TTGAGCATCC
* *
33212711 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
* * * * *
33212757 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATGCCT
* * * *
33212802 CCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
*
33212849 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33212880 GGGGCGGTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 79 0.79
47 5 0.05
49 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
Found at i:33212869 original size:92 final size:93
Alignment explanation
Indices: 33212705--33212874 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
33212695 GGATGGTTGA
* * * *
33212705 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
33212770 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
33212798 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
33212862 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33212875 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 65 0.92
93 6 0.08
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33218214 original size:46 final size:46
Alignment explanation
Indices: 33218164--33218336 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
33218154 TGGTTGAGCA
33218164 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33218210 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33218255 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
33218303 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33218337 GGGCGGGTTA
Statistics
Matches: 109, Mismatches: 9, 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 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33218320 original size:93 final size:93
Alignment explanation
Indices: 33218161--33218331 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
33218151 GGATGGTTGA
* *
33218161 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33218226 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33218254 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33218319 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33218332 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33221306 original size:14 final size:15
Alignment explanation
Indices: 33221287--33221339 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 15
33221277 GTATCTTGGG
33221287 TTCTTTATTCTGGA-
1 TTCTTTATTCTGGAT
33221301 TTCTTTATTCT-GAT
1 TTCTTTATTCTGGAT
*
33221315 TTCTCTA-TCTTGGAT
1 TTCTTTATTC-TGGAT
33221330 TTCTTTATTC
1 TTCTTTATTC
33221340 GGTTTCCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 4 0.12
14 18 0.55
15 9 0.27
16 2 0.06
ACGTcount: A:0.13, C:0.17, G:0.09, T:0.60
Consensus pattern (15 bp):
TTCTTTATTCTGGAT
Found at i:33223841 original size:47 final size:47
Alignment explanation
Indices: 33223723--33223895 Score: 191
Period size: 45 Copynumber: 3.7 Consensus size: 47
33223713 GGATGGTTGA
*
33223723 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
33223771 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
33223814 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
33223863 -C-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
33223896 TAGGGGGGGT
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 33 0.31
46 30 0.28
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:33227753 original size:55 final size:54
Alignment explanation
Indices: 33227645--33227852 Score: 217
Period size: 55 Copynumber: 3.8 Consensus size: 54
33227635 ATTAGGGTTT
* * * *
33227645 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATCGGTATGGTT-TCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTA-AGTTCTATAAGGA
* * *
33227700 AAGGATACCATGTAAGACCATGTCAAGACATGTCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG-A
* * * *
33227756 AAGG-T-CTCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATAC-CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
* * *
33227808 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
33227853 TCAAAAGGAT
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 8 0.06
55 69 0.54
56 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
Found at i:33227851 original size:108 final size:109
Alignment explanation
Indices: 33227653--33227852 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 109
33227643 TTAAGGATAC
33227653 CATGTAAGACCATGCCAAGGCATGGCAATCGGTATGGTTTCTAAGGAAAGGATACCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCAATCGGTA-GGTTTCTAAGGAAAGGATACCATGTAAGAC
* *
33227718 CATGTCAAGACATGTCATTGATAAGTTACTATAAGGCAAAGGTCT
65 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
* * *
33227763 CATGTAAGACTATGCCAAGGCATGGC-ATTGGT-GAG-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATCGGTAG-GTTTC-TAAGGAAAGGATACCATGTAAGA
* *
33227825 CCATGTCGAGACATGGCAATGGTAAGTT
64 CCATGTCAAGACATGGCAATGATAAGTT
33227853 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 4 0.05
108 47 0.58
109 5 0.06
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCAATCGGTAGGTTTCTAAGGAAAGGATACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:33242784 original size:20 final size:20
Alignment explanation
Indices: 33242761--33242809 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
33242751 AGCTCGAACT
*
33242761 AGCTCACTTGAGCTTAATTC
1 AGCTCACTTGAGCCTAATTC
*
33242781 AGCTCA-TCTGAGCCTAATTT
1 AGCTCACT-TGAGCCTAATTC
*
33242801 AGCTTACTT
1 AGCTCACTT
33242810 TCAGCTCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (20 bp):
AGCTCACTTGAGCCTAATTC
Found at i:33243537 original size:21 final size:23
Alignment explanation
Indices: 33243497--33243542 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
33243487 AAGTCTTATA
* *
33243497 CTTAGTTATTAAGTCTATTTCAG
1 CTTAGTTATTAAGCCTATTTAAG
33243520 CTTA-TTATT-AGCCTATTTAAG
1 CTTAGTTATTAAGCCTATTTAAG
33243541 CT
1 CT
33243543 GAACAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (23 bp):
CTTAGTTATTAAGCCTATTTAAG
Found at i:33245413 original size:15 final size:14
Alignment explanation
Indices: 33245387--33245426 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 14
33245377 AAATTAAATG
33245387 AGAAAAGAAAAAGA
1 AGAAAAGAAAAAGA
33245401 AGAAAATGAAAAAG-
1 AGAAAA-GAAAAAGA
33245415 A-AAAAGAAAAAG
1 AGAAAAGAAAAAG
33245427 TACGTCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.28
13 4 0.16
14 7 0.28
15 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (14 bp):
AGAAAAGAAAAAGA
Found at i:33245417 original size:12 final size:12
Alignment explanation
Indices: 33245311--33245426 Score: 56
Period size: 12 Copynumber: 10.3 Consensus size: 12
33245301 ATCGTGAAAT
33245311 AAAG-AAATGAA
1 AAAGAAAATGAA
*
33245322 AATGAAAATGAA
1 AAAGAAAATGAA
33245334 ACAA-AAAATG--
1 A-AAGAAAATGAA
33245344 AAA-AAAA-GAA
1 AAAGAAAATGAA
* *
33245354 AGA-AAAATAGCA
1 AAAGAAAAT-GAA
*
33245366 AAAGAAAGTG-A
1 AAAGAAAATGAA
**
33245377 AAATTAAATGAGA
1 AAAGAAAATGA-A
33245390 AAAG-AAA--AA
1 AAAGAAAATGAA
*
33245399 GAAGAAAATGAA
1 AAAGAAAATGAA
*
33245411 AAAGAAAAAGAA
1 AAAGAAAATGAA
33245423 AAAG
1 AAAG
33245427 TACGTCTAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
8 1 0.01
9 10 0.12
10 11 0.14
11 11 0.14
12 38 0.47
13 9 0.11
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (12 bp):
AAAGAAAATGAA
Found at i:33248434 original size:20 final size:20
Alignment explanation
Indices: 33248395--33248439 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33248385 CAGCTTGAAC
**
33248395 CAGCTCATTTGAGCTTAATT
1 CAGCTCATTTGAGCCCAATT
33248415 CAGCTCATTTGAGCCCAATT
1 CAGCTCATTTGAGCCCAATT
*
33248435 TAGCT
1 CAGCT
33248440 TACTTTCAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (20 bp):
CAGCTCATTTGAGCCCAATT
Found at i:33257951 original size:25 final size:25
Alignment explanation
Indices: 33257922--33257969 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33257912 TTATAACATG
* * *
33257922 AAAATGACTATTTTGCTCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
33257947 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
33257970 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:33258032 original size:11 final size:10
Alignment explanation
Indices: 33258000--33258054 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
33257990 CATGAGATTT
33258000 TGATAT-ACA
1 TGATATGACA
*
33258009 TGATTTGACA
1 TGATATGACA
33258019 TGATATGCACA
1 TGATATG-ACA
*
33258030 TGATATG-TA
1 TGATATGACA
33258039 TGATATGCACA
1 TGATATG-ACA
33258050 TGATA
1 TGATA
33258055 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:33261231 original size:48 final size:48
Alignment explanation
Indices: 33261165--33261351 Score: 221
Period size: 48 Copynumber: 3.9 Consensus size: 48
33261155 GTGAATTGCT
* *
33261165 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAACGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATCGTC
* * * * * * *
33261213 GGTGCTATGTCCCAAACATGGTCTTACACTTGCTCTCACAACATTGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATCGTC
* * * * *
33261261 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATCGTC
* * *
33261309 GACGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
33261352 CCCAAATGTC
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATCGTC
Found at i:33261329 original size:96 final size:96
Alignment explanation
Indices: 33261165--33261338 Score: 267
Period size: 96 Copynumber: 1.8 Consensus size: 96
33261155 GTGAATTGCT
* ** *
33261165 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAACGTCGGTGCTATGTCCCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAACGCCGACGCCATGTCCCAAAC
33261230 ATGGTCTTACACTTGCTCTCACAACATTGTC
66 ATGGTCTTACACTTGCTCTCACAACATTGTC
* * ** *
33261261 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCGACGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAACGCCGACGCCATGTCCCAAAC
33261326 ATGGTCTTACACT
66 ATGGTCTTACACT
33261339 AGCACACATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAACGCCGACGCCATGTCCCAAAC
ATGGTCTTACACTTGCTCTCACAACATTGTC
Found at i:33261708 original size:30 final size:31
Alignment explanation
Indices: 33261669--33261727 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
33261659 ATAATTCATA
*
33261669 TTTTGACAAAATGACCATTTTGCCCCTAGAC
1 TTTTGACAAAATGACCATTTTACCCCTAGAC
* *
33261700 TTTT-ACAAAATTACTATTTTACCCCTAG
1 TTTTGACAAAATGACCATTTTACCCCTAG
33261728 GCTTGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (31 bp):
TTTTGACAAAATGACCATTTTACCCCTAGAC
Found at i:33267478 original size:67 final size:64
Alignment explanation
Indices: 33267340--33267598 Score: 220
Period size: 68 Copynumber: 3.9 Consensus size: 64
33267330 ATATAGTTCG
* * * * *
33267340 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGCCA-ATTTATCTTGT
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCTTGT
33267402 A
64 A
* * * *
33267403 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCTG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCTTG
33267468 TA
63 TA
* *
33267470 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATAATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT-AT-A--TCTT
33267535 GTA
62 GTA
* * ** * ** *
33267538 GCTCTCTTGTAC-ACATGATGTGCACCCAGCACCATACATGTGACCTAGCTACATACTATCT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATA-TATCT
33267599 GTATCATCCA
Statistics
Matches: 161, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.11
64 29 0.18
65 5 0.03
66 24 0.15
67 33 0.20
68 50 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCTTGTA
Found at i:33280771 original size:13 final size:13
Alignment explanation
Indices: 33280753--33280779 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33280743 GGACCAATCG
33280753 CACACGGGCGTGT
1 CACACGGGCGTGT
33280766 CACACGGGCGTGT
1 CACACGGGCGTGT
33280779 C
1 C
33280780 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:33281173 original size:12 final size:13
Alignment explanation
Indices: 33281137--33281174 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
33281127 AAATATTTGA
33281137 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
33281150 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
33281164 CTTG-TCTTAAT
1 CTTGTTCTTAAT
33281175 ACTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:33295857 original size:27 final size:27
Alignment explanation
Indices: 33295826--33296003 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33295816 TAAATTGTAC
33295826 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33295853 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33295879 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33295907 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33295935 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33295962 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33295989 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33296004 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33295940 original size:82 final size:81
Alignment explanation
Indices: 33295827--33295982 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33295817 AAATTGTACA
* *
33295827 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33295891 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33295908 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33295973 TGCGAGTTGA
65 TGCGAATTGA
33295983 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33295994 original size:82 final size:81
Alignment explanation
Indices: 33295823--33296003 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33295813 GATTAAATTG
* *
33295823 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33295888 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33295904 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33295968 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33295986 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33296004 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33307838 original size:40 final size:40
Alignment explanation
Indices: 33307794--33308017 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
33307784 GCCACTAGCT
* *
33307794 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
33307834 CAAATGCCTTCGTGACTTAGCCCGGTA-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
33307873 CAAATACCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
33307913 CAAATGCCTTTGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* ** * *
33307953 CAAATGCCTTCGGGACTTAGCCCAGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
33307993 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
33308018 TTATCATCCG
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.22
40 126 0.78
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33317665 original size:34 final size:33
Alignment explanation
Indices: 33317620--33317708 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 33
33317610 GTTTCAGTTA
*
33317620 AGGCCTTAGCCCATTTCAGAATCAAAAATAGTG
1 AGGCCTAAGCCCATTTCAGAATCAAAAATAGTG
* * ** *
33317653 TAGGCCTGAGCCCATTTTAGTAA-CAGTATTAGTG
1 -AGGCCTAAGCCCATTTCAG-AATCAAAAATAGTG
*
33317687 AGGCCTAAGCCCATTACAGAAT
1 AGGCCTAAGCCCATTTCAGAAT
33317709 TAGTACAGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
32 2 0.04
33 16 0.36
34 25 0.56
35 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (33 bp):
AGGCCTAAGCCCATTTCAGAATCAAAAATAGTG
Found at i:33318137 original size:27 final size:26
Alignment explanation
Indices: 33318105--33318266 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 26
33318095 GTAGGGAAAA
*
33318105 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
33318132 ACAGTCATTTTACCCTATATGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* * *
33318159 ACAGTCATTTTACCTTATAGGTGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
33318186 TCAATCATTTTACCCTATGGGAGTATT
1 TCAGTCATTTTACCCTAAGGG-GTATT
* *
33318213 TCGGTCATTTTACCCTATGGGGTATT
1 TCAGTCATTTTACCCTAAGGGGTATT
* *
33318239 TCGGTCATTTTACCCTATGAGGGTATT
1 TCAGTCATTTTACCCTAAG-GGGTATT
33318266 T
1 T
33318267 TGGCCCAACA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 26 0.22
27 93 0.78
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (26 bp):
TCAGTCATTTTACCCTAAGGGGTATT
Found at i:33318168 original size:54 final size:52
Alignment explanation
Indices: 33318106--33318265 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
33318096 TAGGGAAAAT
*
33318106 CAGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATATGGGTATTA
1 CAGTCATTTTACCTTA-AGGGGTATTTCAGTCATTTTACCCTATA-GGGTATTA
* * * *
33318160 CAGTCATTTTACCTTATAGGTGTATTTCAATCATTTTACCCTATGGGAGTATTT
1 CAGTCATTTTACCTTA-AGGGGTATTTCAGTCATTTTACCCTATAGG-GTATTA
* * * *
33318214 CGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATT
1 CAGTCATTTTACCTTAAGGGGTATTTCAGTCATTTTACCCTAT-AGGGTATT
33318266 TTGGCCCAAC
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 30 0.33
54 61 0.67
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (52 bp):
CAGTCATTTTACCTTAAGGGGTATTTCAGTCATTTTACCCTATAGGGTATTA
Found at i:33318220 original size:81 final size:80
Alignment explanation
Indices: 33318109--33318266 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 80
33318099 GGAAAATCAG
* * *
33318109 TCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATATGGGTATTACAGTCATTTTACCT
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTAT-GGGGTATTACAGTCATTTTACCC
33318174 TAT-AGGTGTATTTCAA
65 TATGAGG-GTATTTCAA
* * * * *
33318190 TCATTTTACCCTA-TGGGAGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTACAGGG-GTATTACAGTCATTTTACCCTATGGGGTATTACAGTCATTTTACCC
33318254 TATGAGGGTATTT
65 TATGAGGGTATTT
33318267 TGGCCCAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 31 0.46
81 36 0.54
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATGGGGTATTACAGTCATTTTACCCT
ATGAGGGTATTTCAA
Found at i:33326922 original size:46 final size:46
Alignment explanation
Indices: 33326872--33327044 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
33326862 TGGTTGAGCA
33326872 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33326918 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33326963 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
33327011 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33327045 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33327028 original size:93 final size:93
Alignment explanation
Indices: 33326869--33327039 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
33326859 GGATGGTTGA
* *
33326869 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33326934 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
33326962 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33327027 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33327040 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:33333728 original size:194 final size:196
Alignment explanation
Indices: 33333406--33333781 Score: 544
Period size: 194 Copynumber: 1.9 Consensus size: 196
33333396 GCACTTCTAT
* * * * *
33333406 AAAATCGCTGCTATAGATCGAGCATTAGTGACGCTTTTTAAAAAATGCCGCTATATGTCGACCAA
1 AAAATCGCCGCTATAGATCGAGCATTAGAGACGCTTTTTAAAAAACGCCGCTATAGGTCAACCAA
* * *
33333471 TAGCGGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCT
66 TAGCAGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAGCT
* *
33333536 TTAGTTGCATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATCGAGCATTAACAATGCTTGTAG
131 TTAGTTGCATTAGCGGCACTTTTTGGAAAACGCCACTATAGATCGAGCATTAACAATGCTTGTAG
33333601 A
196 A
* * *
33333602 AAAAT-GCCGCTATATATCGAGCATTA-AG-CGGTTTTTTAAAAACGCCGCTATAGGTCAACCCA
1 AAAATCGCCGCTATAGATCGAGCATTAGAGACGCTTTTTAAAAAACGCCGCTATAGGTCAA-CCA
* * * *
33333664 TTAGCAGTGCTTTTTCAAAAAACGCCGCAA-AAAATTAAGCACAACGCCATTGTTTTACGTTGAG
65 ATAGCAGCGCTTGTTC-AAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAG
*
33333728 CTTTAGTTGCATTAGCGGCACTTTTTGGAAAACGCTACTATAGATCGAGCATTA
129 CTTTAGTTGCATTAGCGGCACTTTTTGGAAAACGCCACTATAGATCGAGCATTA
33333782 GCGGCGCTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
193 25 0.16
194 98 0.61
195 32 0.20
196 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (196 bp):
AAAATCGCCGCTATAGATCGAGCATTAGAGACGCTTTTTAAAAAACGCCGCTATAGGTCAACCAA
TAGCAGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAGCT
TTAGTTGCATTAGCGGCACTTTTTGGAAAACGCCACTATAGATCGAGCATTAACAATGCTTGTAG
A
Found at i:33334095 original size:7 final size:7
Alignment explanation
Indices: 33334074--33334270 Score: 50
Period size: 7 Copynumber: 27.7 Consensus size: 7
33334064 TTAATTATCA
*
33334074 TTATAGT
1 TTATGGT
*
33334081 TTAGGGT
1 TTATGGT
33334088 TTATGGT
1 TTATGGT
*
33334095 TTA-GGG
1 TTATGGT
* *
33334101 ATATGAT
1 TTATGGT
*
33334108 TTAGGGT
1 TTATGGT
33334115 TTAAT-GT
1 TT-ATGGT
33334122 TTATGGT
1 TTATGGT
*
33334129 ATATGGT
1 TTATGGT
33334136 TT-TGGAT
1 TTATGG-T
*
33334143 TTTTGGAT
1 TTATGG-T
33334151 TT-TGGGT
1 TTAT-GGT
* *
33334158 TCAGTGATT
1 TTA-TG-GT
33334167 ATTATGGT
1 -TTATGGT
33334175 TTA-GGAT
1 TTATGG-T
*
33334182 TTA--AT
1 TTATGGT
*
33334187 TTGTGGGT
1 TTATGG-T
*
33334195 TTAGGGT
1 TTATGGT
* *
33334202 TTACGAT
1 TTATGGT
*
33334209 TTAGGGT
1 TTATGGT
*
33334216 TTAGGGT
1 TTATGGT
33334223 TTATGGT
1 TTATGGT
33334230 TTATGGT
1 TTATGGT
* *
33334237 TTAGGGG
1 TTATGGT
*
33334244 TTA-GAGG
1 TTATG-GT
*
33334251 TTAGGGGT
1 TTA-TGGT
33334259 TTATGGT
1 TTATGGT
33334266 TTATG
1 TTATG
33334271 ATCTGGATTT
Statistics
Matches: 142, Mismatches: 31, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
5 3 0.02
6 12 0.08
7 99 0.70
8 21 0.15
9 5 0.04
10 2 0.01
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:33334096 original size:14 final size:14
Alignment explanation
Indices: 33334074--33334268 Score: 87
Period size: 14 Copynumber: 13.7 Consensus size: 14
33334064 TTAATTATCA
*
33334074 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
33334088 TTATGGTTTAGGG-
1 TTATGGTTTAGGGT
* *
33334101 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
*
33334115 TTAAT-GTTTATGGT
1 TT-ATGGTTTAGGGT
* * *
33334129 ATATGGTTTTGGAT
1 TTATGGTTTAGGGT
* *
33334143 TTTTGGATTTTGGGT
1 TTATGG-TTTAGGGT
* * *
33334158 TCAGTGATTATTATGGT
1 TTA-TG-GT-TTAGGGT
*
33334175 TTA-GGATTTA--AT
1 TTATGG-TTTAGGGT
*
33334187 TTGTGGGTTTAGGGT
1 TTAT-GGTTTAGGGT
* *
33334202 TTACGATTTAGGGT
1 TTATGGTTTAGGGT
* *
33334216 TTAGGGTTTATGGT
1 TTATGGTTTAGGGT
*
33334230 TTATGGTTTAGGGG
1 TTATGGTTTAGGGT
*
33334244 TTA-GAGGTTAGGGGT
1 TTATG-GTTTA-GGGT
33334259 TTATGGTTTA
1 TTATGGTTTA
33334269 TGATCTGGAT
Statistics
Matches: 131, Mismatches: 35, Indels: 29
0.67 0.18 0.15
Matches are distributed among these distances:
12 3 0.02
13 18 0.14
14 74 0.56
15 25 0.19
16 4 0.03
17 7 0.05
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:33334123 original size:27 final size:28
Alignment explanation
Indices: 33334080--33334133 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
33334070 ATCATTATAG
33334080 TTTAGGGTTTATGGTTTA-GGGATATGA
1 TTTAGGGTTTATGGTTTATGGGATATGA
*
33334107 TTTAGGGTTTAAT-GTTTATGGTATATG
1 TTTAGGGTTT-ATGGTTTATGGGATATG
33334134 GTTTTGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTATGGTTTATGGGATATGA
Found at i:33334217 original size:21 final size:20
Alignment explanation
Indices: 33334172--33334268 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
33334162 TGATTATTAT
* *
33334172 GGTTTAGGATTTA-ATTTGTG
1 GGTTTAGGGTTTAGATTT-AG
33334192 GGTTTAGGGTTTACGATTTAG
1 GGTTTAGGGTTTA-GATTTAG
* *
33334213 GGTTTAGGGTTTATGGTTTAT
1 GGTTTAGGGTTTA-GATTTAG
* *
33334234 GGTTTAGGGGTTAGAGGTTAGG
1 GGTTTAGGGTTTAGA-TTTA-G
*
33334256 GGTTTATGGTTTA
1 GGTTTAGGGTTTA
33334269 TGATCTGGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.21
21 34 0.55
22 15 0.24
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (20 bp):
GGTTTAGGGTTTAGATTTAG
Found at i:33334283 original size:35 final size:36
Alignment explanation
Indices: 33334206--33334303 Score: 96
Period size: 35 Copynumber: 2.8 Consensus size: 36
33334196 TAGGGTTTAC
* *
33334206 GATTTAG-GGTTTA-GGGTTTATGGTTTATGGTTTAG
1 GATTTAGAGG-TTAGGGGTTTATGGTTTATGATCTAG
**
33334241 GGGTTAGAGGTTAGGGGTTTATGGTTTATGATCT-G
1 GATTTAGAGGTTAGGGGTTTATGGTTTATGATCTAG
* *
33334276 GATTTAGAGGATAGAGGG-TTAGGGTTTA
1 GATTTAGAGGTTAG-GGGTTTATGGTTTA
33334304 GTGTTTAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 29 0.56
36 23 0.44
ACGTcount: A:0.20, C:0.01, G:0.38, T:0.41
Consensus pattern (36 bp):
GATTTAGAGGTTAGGGGTTTATGGTTTATGATCTAG
Found at i:33334295 original size:36 final size:37
Alignment explanation
Indices: 33334218--33334303 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 37
33334208 TTTAGGGTTT
* * * *
33334218 AGGGTTTATGGTTTATGGTTTAGGGGTTAGAGGTTAG
1 AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
*
33334255 -GGGTTTATGGTTTATGATCT-GGATTTAGAGGATAG
1 AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
*
33334290 AGGG-TTAGGGTTTA
1 AGGGTTTATGGTTTA
33334304 GTGTTTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 21 0.50
36 21 0.50
ACGTcount: A:0.21, C:0.01, G:0.38, T:0.40
Consensus pattern (37 bp):
AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
Found at i:33334310 original size:42 final size:42
Alignment explanation
Indices: 33334209--33334310 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 42
33334199 GGTTTACGAT
* * * *
33334209 TTAGGGTTTAGGGTTTATGGTTTATGGTTTAGGGGTTAGAGG
1 TTAGGGTTTAGTGTTTATGGTATATGGTTTAGAGGATAGAGG
*
33334251 TTAGGGGTTTA-TGGTTTAT-G-ATCTGGATTTAGAGGATAGAGGG
1 TTA-GGGTTTAGT-GTTTATGGTATATGG-TTTAGAGGATAGA-GG
33334294 TTAGGGTTTAGTGTTTA
1 TTAGGGTTTAGTGTTTA
33334311 AAGTAATTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
41 4 0.08
42 27 0.54
43 19 0.38
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (42 bp):
TTAGGGTTTAGTGTTTATGGTATATGGTTTAGAGGATAGAGG
Found at i:33334353 original size:9 final size:9
Alignment explanation
Indices: 33334339--33334374 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
33334329 AATTTATATA
33334339 TTAAATTAT
1 TTAAATTAT
33334348 TTAAATTAT
1 TTAAATTAT
33334357 TT-AATTAT
1 TTAAATTAT
33334365 ATTAAATTAT
1 -TTAAATTAT
33334375 GCAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.24
9 13 0.52
10 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAAATTAT
Found at i:33334365 original size:27 final size:27
Alignment explanation
Indices: 33334334--33334401 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
33334324 TTTTTAATTT
** **
33334334 ATATATTAAATTAT-TTAAATTATTTA
1 ATATATTAAATTATGCAAAATTATGCA
33334360 ATTATATTAAATTATGCAAAATTATGCA
1 A-TATATTAAATTATGCAAAATTATGCA
33334388 ATATATTAAATTAT
1 ATATATTAAATTAT
33334402 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 26 0.72
28 9 0.25
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
ATATATTAAATTATGCAAAATTATGCA
Found at i:33334369 original size:18 final size:17
Alignment explanation
Indices: 33334337--33334374 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
33334327 TTAATTTATA
33334337 TATTAAATTATTTAAAT
1 TATTAAATTATTTAAAT
*
33334354 TATTTAATTATATTAAAT
1 TATTAAATTAT-TTAAAT
33334372 TAT
1 TAT
33334375 GCAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATTATTTAAAT
Found at i:33334524 original size:7 final size:7
Alignment explanation
Indices: 33334482--33334532 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
33334472 GCGGGATTTG
*
33334482 GGGTTTG
1 GGGTTTA
33334489 GGGTTTAA
1 GGGTTT-A
*
33334497 GGGTTAA
1 GGGTTTA
*
33334504 GGGTTAA
1 GGGTTTA
33334511 GGG-TTA
1 GGGTTTA
*
33334517 GTGTTTA
1 GGGTTTA
33334524 GGGTTTA
1 GGGTTTA
33334531 GG
1 GG
33334533 ATTACCAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 4 0.11
7 28 0.76
8 5 0.14
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:33334531 original size:14 final size:14
Alignment explanation
Indices: 33334482--33334532 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
33334472 GCGGGATTTG
*
33334482 GGGTTTGGGGTTTAA
1 GGGTTTAGGGTTT-A
* *
33334497 GGGTTAAGGGTTAA
1 GGGTTTAGGGTTTA
*
33334511 GGG-TTAGTGTTTA
1 GGGTTTAGGGTTTA
33334524 GGGTTTAGG
1 GGGTTTAGG
33334533 ATTACCAATG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 10 0.36
14 8 0.29
15 10 0.36
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (14 bp):
GGGTTTAGGGTTTA
Found at i:33334784 original size:115 final size:113
Alignment explanation
Indices: 33334641--33335028 Score: 351
Period size: 115 Copynumber: 3.4 Consensus size: 113
33334631 AGCAGCATCG
* *
33334641 TTTTTATCCTT-TTCTTTAGCGGTGTTTCCTCAAAAACGCCGCAACAA-GTTGTTCTTTACCGGC
1 TTTTTAT-CTTGTT-TTTAGTGGCGTTTCCTCAAAAACGCCGCAA-AAGGTTGTTCTTTACCGGC
* *
33334704 GTTTTCAACAAAAATGCCGCAAATATGCATTAAGAGTGCAAAACGTCGTCA
63 GTTTTCAACAAAAACGCCGCAAATATGCATTAAGAGTGCAAAATGTCGTCA
* * * * * ***
33334755 TTTTCCATGCTTGTTTTTAGTGGCGTTTCCTTAGAAACGTCGCAAAATGTTGTTCTTTATTAGCG
1 TTTT-TAT-CTTGTTTTTAGTGGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCGGCG
** * * * * *
33334820 TTCACAACAAAAACGCCACAAAAATGCATTAAGAGTACAAAATGTTGTCGT
64 TTTTCAACAAAAACGCCGCAAATATGCATTAAGAGTGCAAAATGTCGTC-A
* * ***
33334871 TTTTTATCATTG-TTTTAGTGGC-TTTCCACAAAAAATGCCGCAAAAGGTTGTGGATTACCGGCG
1 TTTTTATC-TTGTTTTTAGTGGCGTTTCCTC-AAAAACGCCGCAAAAGGTTGTTCTTTACCGGCG
* *
33334934 TTTTCAA-AAAAACGCCGCTAAGT-TGTATTAAGAGTGCAAAATGTTCG-CA
64 TTTTCAACAAAAACGCCGC-AAATATGCATTAAGAGTGCAAAATG-TCGTCA
* *
33334983 TTTTTATCCTTGTTTTTAGTGGCATTT-TTGACAAAAACGCCGCAAA
1 TTTTTAT-CTTGTTTTTAGTGGCGTTTCCT--CAAAAACGCCGCAAA
33335029 TATGTATTGT
Statistics
Matches: 217, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
112 10 0.05
113 45 0.21
114 65 0.30
115 91 0.42
116 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (113 bp):
TTTTTATCTTGTTTTTAGTGGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCGGCGTT
TTCAACAAAAACGCCGCAAATATGCATTAAGAGTGCAAAATGTCGTCA
Found at i:33335024 original size:74 final size:73
Alignment explanation
Indices: 33334941--33335185 Score: 253
Period size: 74 Copynumber: 3.3 Consensus size: 73
33334931 GCGTTTTCAA
* * *
33334941 AAAAACGCCGCTAAGT-TGTATTAAGAGTGCAAAATGTTCGCATTTTTATCCTTGTTTTTAGTGG
1 AAAAACGCCGC-AAATATGTATTAAGAGAGCAAAATGTTCGC-TTTTTATCATTGTTTTTAGTGG
*
33335005 CATTTTTGAC
64 CATTTTCGAC
** *
33335015 AAAAACGCCGCAAATATGTATTGTGAGAGAAAAATGATGTCG-TTTTTATCATTGTTTTTAGTGG
1 AAAAACGCCGCAAATATGTATTAAGAGAGCAAAATG-T-TCGCTTTTTATCATTGTTTTTAGTGG
*
33335079 CATTTTCGGC
64 CATTTTCGAC
* * ** **
33335089 ATAAACGCTGCAAATATGTATTAAGAGAGCAAAGCG-TCGTCGTTTTTATCATTGTTTTTACCGG
1 AAAAACGCCGCAAATATGTATTAAGAGAGCAAAATGTTCG-C-TTTTTATCATTGTTTTTAGTGG
* *
33335153 CGTTTTCAAC
64 CATTTTCGAC
* *
33335163 AAAAACGCCGCAGATGTGTATTA
1 AAAAACGCCGCAAATATGTATTA
33335186 GTTGTTTATG
Statistics
Matches: 141, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
71 3 0.02
73 3 0.02
74 131 0.93
75 1 0.01
76 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (73 bp):
AAAAACGCCGCAAATATGTATTAAGAGAGCAAAATGTTCGCTTTTTATCATTGTTTTTAGTGGCA
TTTTCGAC
Found at i:33337455 original size:19 final size:19
Alignment explanation
Indices: 33337433--33337494 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
33337423 ATTTTTAAAA
*
33337433 TTATATAATTTGGATTAAT
1 TTATATAATTTGAATTAAT
*
33337452 TTATTTAAATATT-AATTAAT
1 TTATAT-AAT-TTGAATTAAT
* *
33337472 TAATATAATTTGCATTAAT
1 TTATATAATTTGAATTAAT
33337491 TTAT
1 TTAT
33337495 TTAAATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.50
20 13 0.38
21 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATATAATTTGAATTAAT
Found at i:33337469 original size:20 final size:20
Alignment explanation
Indices: 33337446--33337511 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
33337436 TATAATTTGG
33337446 ATTAATTTATTTAAATATTA
1 ATTAATTTATTTAAATATTA
* * *
33337466 ATTAATTAATAT-AAT-TTGC
1 ATTAATTTATTTAAATATT-A
33337485 ATTAATTTATTTAAATATTA
1 ATTAATTTATTTAAATATTA
*
33337505 TTTAATT
1 ATTAATT
33337512 AGAATAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTAATTTATTTAAATATTA
Found at i:33337483 original size:39 final size:39
Alignment explanation
Indices: 33337431--33337521 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
33337421 CAATTTTTAA
*
33337431 AATT-ATATAATTTGGATTAATTTATTTAAATATTAATT
1 AATTAATATAATTTGCATTAATTTATTTAAATATTAATT
*
33337469 AATTAATATAATTTGCATTAATTTATTTAAATATTATTT
1 AATTAATATAATTTGCATTAATTTATTTAAATATTAATT
33337508 AATTAGA-ATAATTT
1 AATTA-ATATAATTT
33337522 TTATAAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
38 4 0.08
39 44 0.90
40 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (39 bp):
AATTAATATAATTTGCATTAATTTATTTAAATATTAATT
Found at i:33337507 original size:15 final size:15
Alignment explanation
Indices: 33337489--33337537 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
33337479 ATTTGCATTA
33337489 ATTTATTTAAATATT
1 ATTTATTTAAATATT
*
33337504 ATTTAATTAGAATA--
1 ATTTATTTA-AATATT
33337518 ATTT-TTATAAATATT
1 ATTTATT-TAAATATT
33337533 ATTTA
1 ATTTA
33337538 ACTAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 12 0.44
16 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTATTTAAATATT
Found at i:33337520 original size:29 final size:29
Alignment explanation
Indices: 33337487--33337553 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
33337477 TAATTTGCAT
* *
33337487 TAATTTATT-TAAATATTATTTAATTAGAA
1 TAATTT-TTATAAATATTATTTAACTAAAA
33337516 TAATTTTTATAAATATTATTTAACTAAAA
1 TAATTTTTATAAATATTATTTAACTAAAA
33337545 TAAATTTTT
1 T-AATTTTT
33337554 TCCAGGTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 2 0.06
29 25 0.74
30 7 0.21
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAACTAAAA
Found at i:33337742 original size:9 final size:9
Alignment explanation
Indices: 33337728--33337953 Score: 105
Period size: 9 Copynumber: 25.8 Consensus size: 9
33337718 TACATGATAT
33337728 CATAACTTA
1 CATAACTTA
33337737 CATAACTTA
1 CATAACTTA
33337746 CATAA--TA
1 CATAACTTA
*
33337753 CATAA-ATA
1 CATAACTTA
* * *
33337761 TATATCATA
1 CATAACTTA
*
33337770 TGATAACTTA
1 -CATAACTTA
**
33337780 TGTAACTTA
1 CATAACTTA
33337789 CATAACTTA
1 CATAACTTA
33337798 CATAA--TA
1 CATAACTTA
*
33337805 CATAA-ATA
1 CATAACTTA
* *
33337813 TATATCATATA
1 CATAAC-T-TA
33337824 -ATAACTTA
1 CATAACTTA
33337832 CATAACTTA
1 CATAACTTA
33337841 CATAACTTA
1 CATAACTTA
*
33337850 CGTAA--TA
1 CATAACTTA
*
33337857 CATAA-ATA
1 CATAACTTA
* ** *
33337865 TATTTCATA
1 CATAACTTA
*
33337874 TCATAATTTA
1 -CATAACTTA
33337884 CATAACTTA
1 CATAACTTA
*
33337893 CATACCTTA
1 CATAACTTA
*
33337902 CATAAATT-
1 CATAACTTA
* * *
33337910 TATATCATA
1 CATAACTTA
*
33337919 TCATAGCTTA
1 -CATAACTTA
33337929 CATAACTTA
1 CATAACTTA
*
33337938 CAAAACTTA
1 CATAACTTA
*
33337947 CTTAACT
1 CATAACT
33337954 CACGTAATAC
Statistics
Matches: 166, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
7 20 0.12
8 20 0.12
9 104 0.63
10 20 0.12
11 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:33337787 original size:52 final size:52
Alignment explanation
Indices: 33337728--33337972 Score: 298
Period size: 52 Copynumber: 4.7 Consensus size: 52
33337718 TACATGATAT
*
33337728 CATAACTTACATAACTTACATAATACATAAATATATATCATATGATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
**
33337780 TGTAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
* * * *
33337832 CATAACTTACATAACTTACGTAATACATAAATATATTTCATATCATAATTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
* **
33337884 CATAACTTACATACCTTACAT-A-A-ATTTATATCATATCATAGCTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATAT-ATATCATA---TA-ATAACTTA
* * * *
33337938 CAAAACTTACTTAACTCACGTAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
33337973 CACTTGAAAA
Statistics
Matches: 162, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
49 6 0.04
50 8 0.05
51 1 0.01
52 114 0.70
53 1 0.01
54 23 0.14
55 1 0.01
56 2 0.01
57 6 0.04
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (52 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
Found at i:33337919 original size:45 final size:43
Alignment explanation
Indices: 33337790--33337939 Score: 147
Period size: 45 Copynumber: 3.2 Consensus size: 43
33337780 TGTAACTTAC
33337790 ATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTAC
1 ATAACTTACATAATACATAAATATATATC-----AT-A--T-CATAACTTAC
* * *
33337842 ATAACTTACGTAATACATAAATATATTTCATATCATAATTTAC
1 ATAACTTACATAATACATAAATATATATCATATCATAACTTAC
* * *
33337885 ATAACTTACATACCTTACATAAATTTATATCATATCATAGCTTAC
1 ATAACTTACATA--ATACATAAATATATATCATATCATAACTTAC
33337930 ATAACTTACA
1 ATAACTTACA
33337940 AAACTTACTT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
43 20 0.23
44 1 0.01
45 36 0.41
46 1 0.01
47 2 0.02
52 27 0.31
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (43 bp):
ATAACTTACATAATACATAAATATATATCATATCATAACTTAC
Found at i:33337947 original size:45 final size:45
Alignment explanation
Indices: 33337832--33337947 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
33337822 TAATAACTTA
* *
33337832 CATAACTTACATAACTTACGTAA--TACATAAATATATTTCATAT
1 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
* * *
33337875 CATAATTTACATAACTTACATACCTTACATAAATTTATATCATAT
1 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
* *
33337920 CATAGCTTACATAACTTACAAAACTTAC
1 CATAACTTACATAACTTACATAACTTAC
33337948 TTAACTCACG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 20 0.32
45 42 0.68
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (45 bp):
CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
Found at i:33343320 original size:13 final size:14
Alignment explanation
Indices: 33343304--33343332 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33343294 TTATAAATAT
33343304 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
33343317 TTATAATGGTTTAA
1 TTATAATGGTTTAA
33343331 TT
1 TT
33343333 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:33362704 original size:29 final size:29
Alignment explanation
Indices: 33362659--33362774 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
33362649 TACCTGTATC
* *
33362659 TGGCCCATTATGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
33362687 TGGCCCCTTTAGGCCCAAATCACCTGT-ATA
1 TGG-CCCATTAGGCCCAAATCACAT-TCATA
*
33362717 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
33362746 TGGCCCGTTAGGCTC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
33362774 T
1 T
33362775 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.22
29 45 0.61
30 12 0.16
31 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:33363009 original size:16 final size:16
Alignment explanation
Indices: 33362985--33363027 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
33362975 GTAGCCAAAC
*
33362985 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
33363001 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
33363017 TTTCAACTTTT
1 TTTCAGCTTTT
33363028 ACCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:33368471 original size:26 final size:26
Alignment explanation
Indices: 33368439--33368509 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
33368429 CGGTCACCTA
33368439 TTCTCTCCCTTGCTGAATTCTTTTAC
1 TTCTCTCCCTTGCTGAATTCTTTTAC
* *
33368465 TTTTCTCCCTTG-TCGAATTCTTTTTC
1 TTCTCTCCCTTGCT-GAATTCTTTTAC
*
33368491 TTCTCTCCCTTGCCGAATT
1 TTCTCTCCCTTGCTGAATT
33368510 TATTTGCTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.10, C:0.31, G:0.08, T:0.51
Consensus pattern (26 bp):
TTCTCTCCCTTGCTGAATTCTTTTAC
Found at i:33373139 original size:23 final size:23
Alignment explanation
Indices: 33373087--33373139 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
33373077 AACATGGACA
* **
33373087 ACATTAAGACAATGTTTAAATGC
1 ACATTAAGACAAGGTTTAAACAC
33373110 ACATTAAGACAAGGTTTAAACAC
1 ACATTAAGACAAGGTTTAAACAC
*
33373133 ACTTTAA
1 ACATTAA
33373140 TTTGTAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
ACATTAAGACAAGGTTTAAACAC
Found at i:33373297 original size:38 final size:39
Alignment explanation
Indices: 33373200--33373312 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 39
33373190 TGTAAACAAG
* *
33373200 TATTAAAGATGTTCAAACTATGACATAATTAAAGACCCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
* *
33373239 TATTAATGATGTTCAGATTATGACATAATTAAA-ACTCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
*
33373277 TATTAATGATATTCAAATTATGACATAATTAAAGAC
1 TATTAATGATGTTCAAATTATGACATAATTAAAGAC
33373313 TTAAACTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 35 0.52
39 32 0.48
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (39 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
Found at i:33373558 original size:21 final size:21
Alignment explanation
Indices: 33373495--33373562 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
33373485 AACTTAAATA
33373495 AATAATAATACTATACATAATAAT
1 AATAATAA-ACTA-A-ATAATAAT
33373519 AATAGGA-AAACT-AATAATAAT
1 AATA--ATAAACTAAATAATAAT
*
33373540 AATAATAAACTAAAAAATAAT
1 AATAATAAACTAAATAATAAT
33373561 AA
1 AA
33373563 ATAAAATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 22 0.56
22 1 0.03
24 7 0.18
25 2 0.05
26 1 0.03
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (21 bp):
AATAATAAACTAAATAATAAT
Found at i:33379244 original size:20 final size:20
Alignment explanation
Indices: 33379219--33379267 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
33379209 AGAGATTTGG
*
33379219 TATCGATACATTGACTCGAA
1 TATCGATACATTGACCCGAA
* *
33379239 TATCGATACCTTGACCCGAG
1 TATCGATACATTGACCCGAA
33379259 TATCGATAC
1 TATCGATAC
33379268 TCGTGGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (20 bp):
TATCGATACATTGACCCGAA
Found at i:33380910 original size:30 final size:30
Alignment explanation
Indices: 33380876--33380938 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
33380866 ACAAAGTACC
33380876 TATTTATAATATCTATCAATCAACATAAGT
1 TATTTATAATATCTATCAATCAACATAAGT
33380906 TATTTATAATATCTATCAATCAACATAAGT
1 TATTTATAATATCTATCAATCAACATAAGT
33380936 TAT
1 TAT
33380939 ACTCAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTTATAATATCTATCAATCAACATAAGT
Found at i:33393959 original size:46 final size:47
Alignment explanation
Indices: 33393907--33394001 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
33393897 GTTGAATTTA
* **
33393907 AAGCTTGCTAAA-TTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGCTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
* *
33393953 AAGCTTGTTAAATTTGCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGCTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
33394000 AA
1 AA
33394002 ATAAAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 11 0.26
47 32 0.74
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGCTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Done.