Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 141 of 226
Found at i:43876320 original size:88 final size:88
Alignment explanation
Indices: 43875424--43876317 Score: 965
Period size: 88 Copynumber: 10.2 Consensus size: 88
43875414 ATGGGAAGAT
* * * * * * *
43875424 AAGATCTGCTATCTTTAACCTGCTCTGCTACCACCGAGGAAGGCAAGGCTAGTGTCTTCAATCTA
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
** **
43875489 CTTTGCTACCAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * * * *
43875512 AAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGTCAAGGCTAGTGTCTTCAATCAA
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
*
43875577 CTTCACTGTTAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * * **
43875600 AAGATTTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAATCTA
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
*
43875665 CTTCACTTTCAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * *
43875688 AAGATCTGCTAT-TTTCAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * *
43875752 GCTTCGCTG-CTGGTACAGGAAGGC
65 ACTTCACTGTC-AGTACAGGAAGGC
* ** * * * *
43875776 AAGATCTGCTATTTTTAACCTGCTCCGCAACAACTCAGGGAGGCAAGGTTGGTGTCTTAGATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
* * *
43875841 C-TCGCTGTCGGTGCAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * *
43875863 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGAGCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
* * * *
43875928 CTTTACTATCGGTGCAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * * *
43875951 AAGATCT-ATAATTTTTAATCTGCTCCGCTGCAACCCAGAGAGGCAAGGCTGGTCTCCTT-GATC
1 AAGATCTGCT-ATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGT-CTTCGATC
* *
43876014 TACTTCACTGTCGGTATAGGAAGGC
64 TACTTCACTGTCAGTACAGGAAGGC
* ** * * * * *
43876039 AAGATCTAG-TATCTTCAGTCTGCTTCACTGTAACCTAGGGAGGCAAGACTGGTGTCTTCGATCT
1 AAGATCT-GCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
*
43876103 ACTTCACTGTCAGTACAAGAAGGC
65 ACTTCACTGTCAGTACAGGAAGGC
* * * * * *
43876127 AAGATCTGCTATCTTCAATCTGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
** *
43876192 CTTTGCTATCAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* *
43876215 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * * *
43876279 GCTTCACTGCCGGTACAAGAAGGC
65 ACTTCACTGTCAGTACAGGAAGGC
43876303 AAGATCTGCTATCTT
1 AAGATCTGCTATCTT
43876318 CAATGATCTG
Statistics
Matches: 705, Mismatches: 88, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
87 90 0.13
88 606 0.86
89 9 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
CTTCACTGTCAGTACAGGAAGGC
Found at i:43883429 original size:13 final size:12
Alignment explanation
Indices: 43883401--43883438 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
43883391 AATGGCATAG
43883401 AATAATATAAACA
1 AATAA-ATAAACA
43883414 AATAAATAAACGA
1 AATAAATAAAC-A
43883427 AATAAA-AAACA
1 AATAAATAAACA
43883438 A
1 A
43883439 TAATCCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.42
13 12 0.50
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.16
Consensus pattern (12 bp):
AATAAATAAACA
Found at i:43883764 original size:25 final size:26
Alignment explanation
Indices: 43883736--43883825 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 26
43883726 ATATCCATAT
43883736 ATATATAAATT-CGTTAAAAAAATAA
1 ATATATAAATTACGTTAAAAAAATAA
43883761 ATATATATACATGTACG-TAAAAAAATTAA
1 ATATATA-A-AT-TACGTTAAAAAAA-TAA
*
43883790 ATA-AT-AATTACATTAAAAAAATACA
1 ATATATAAATTACGTTAAAAAAATA-A
43883815 TATATATAAAT
1 -ATATATAAAT
43883826 GGAAATAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 17
0.75 0.01 0.24
Matches are distributed among these distances:
24 5 0.09
25 18 0.33
26 5 0.09
27 4 0.07
28 14 0.26
29 8 0.15
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (26 bp):
ATATATAAATTACGTTAAAAAAATAA
Found at i:43883783 original size:29 final size:27
Alignment explanation
Indices: 43883734--43883825 Score: 75
Period size: 27 Copynumber: 3.4 Consensus size: 27
43883724 AAATATCCAT
*
43883734 ATATATATAAATTCGTTAAAAAAATAA
1 ATATATATAAATTCGTAAAAAAAATAA
* *
43883761 ATATATATACATGTACGT-AAAAAAATTA
1 ATATATATAAAT-T-CGTAAAAAAAATAA
* * *
43883789 A-ATA-AT-AATTACATTAAAAAAATAC
1 ATATATATAAATT-CGTAAAAAAAATAA
43883814 ATATATATAAAT
1 ATATATATAAAT
43883826 GGAAATAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
24 4 0.08
25 11 0.21
26 5 0.09
27 16 0.30
28 14 0.26
29 3 0.06
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
ATATATATAAATTCGTAAAAAAAATAA
Found at i:43892337 original size:33 final size:32
Alignment explanation
Indices: 43892295--43892359 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
43892285 AAGAAATGAG
43892295 AAGAAGGAAAAAAAGAAAAAAAGAAATAGAAAA
1 AAGAAGGAAAAAAAGAAAAAAAGAAA-AGAAAA
* * * *
43892328 AAGAAGGAAATAATGTAAAAAGGAAAAGAAAA
1 AAGAAGGAAAAAAAGAAAAAAAGAAAAGAAAA
43892360 TGAAAGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (32 bp):
AAGAAGGAAAAAAAGAAAAAAAGAAAAGAAAA
Found at i:43892339 original size:17 final size:17
Alignment explanation
Indices: 43892295--43892340 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
43892285 AAGAAATGAG
43892295 AAGAAGGAAA-AAAAGA
1 AAGAAGGAAATAAAAGA
* *
43892311 AAAAAAGAAATAGAAA-A
1 AAGAAGGAAATA-AAAGA
43892328 AAGAAGGAAATAA
1 AAGAAGGAAATAA
43892341 TGTAAAAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (17 bp):
AAGAAGGAAATAAAAGA
Found at i:43893378 original size:9 final size:9
Alignment explanation
Indices: 43893366--43893411 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
43893356 AGAAACATCA
*
43893366 TCATCATCC
1 TCATCGTCC
43893375 TCATCGTCC
1 TCATCGTCC
*
43893384 TCATCGTCG
1 TCATCGTCC
43893393 TCATCGTCC
1 TCATCGTCC
*
43893402 TCATTGTCC
1 TCATCGTCC
43893411 T
1 T
43893412 TTTTGCAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.13, C:0.39, G:0.11, T:0.37
Consensus pattern (9 bp):
TCATCGTCC
Found at i:43895911 original size:42 final size:42
Alignment explanation
Indices: 43895865--43895984 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
43895855 GTTATTAAAT
43895865 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
***
43895907 ATTTTAAATTAATTTGT-TATTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCT-TTAATTTGTTATAAATATATAGA
43895949 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATA
43895985 ATAAAAATTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (42 bp):
ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
Found at i:43896849 original size:8 final size:8
Alignment explanation
Indices: 43896836--43896880 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
43896826 TTATTTCCAG
43896836 ATATAAAC
1 ATATAAAC
43896844 ATATAAAC
1 ATATAAAC
43896852 ----AAAC
1 ATATAAAC
*
43896856 ATATAAAT
1 ATATAAAC
43896864 ATATAAAC
1 ATATAAAC
43896872 ATATAAAC
1 ATATAAAC
43896880 A
1 A
43896881 AACATTTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
4 4 0.13
8 27 0.87
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (8 bp):
ATATAAAC
Found at i:43900110 original size:30 final size:29
Alignment explanation
Indices: 43900075--43900131 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
43900065 CTTTTAGGTT
* *
43900075 CTGAACCTGGCAATTGGGTCCACTTTTGTA
1 CTGAACCTGGCAACTAGGTCCA-TTTTGTA
*
43900105 CTGAACTTGGCAACTAGGTCCATTTTG
1 CTGAACCTGGCAACTAGGTCCATTTTG
43900132 GTCCTTGCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (29 bp):
CTGAACCTGGCAACTAGGTCCATTTTGTA
Found at i:43901359 original size:2 final size:2
Alignment explanation
Indices: 43901352--43901382 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43901342 GTTTTGTTTG
43901352 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
43901383 ATATGTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:43919662 original size:23 final size:23
Alignment explanation
Indices: 43919632--43919677 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43919622 GTATTTGAAT
43919632 ATTAAGGAATCTTAAGAACAAAG
1 ATTAAGGAATCTTAAGAACAAAG
43919655 ATTAAGGAATCTTAAGAACAAAG
1 ATTAAGGAATCTTAAGAACAAAG
43919678 TGATAGCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (23 bp):
ATTAAGGAATCTTAAGAACAAAG
Found at i:43924020 original size:9 final size:9
Alignment explanation
Indices: 43924006--43924032 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43923996 CTATAAACAA
43924006 TTATATCAT
1 TTATATCAT
43924015 TTATATCAT
1 TTATATCAT
43924024 TTATATCAT
1 TTATATCAT
43924033 CAAACATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TTATATCAT
Found at i:43929398 original size:28 final size:27
Alignment explanation
Indices: 43929343--43929398 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
43929333 TTAATGTTTA
* ** *
43929343 CATTTTTTTGTCAATTTGACTTTTAAT
1 CATTTTTTAGTCAATTTGACCGTCAAT
43929370 CATTTTTTAGTCAAATTTGACCGTCAAT
1 CATTTTTTAGTC-AATTTGACCGTCAAT
43929398 C
1 C
43929399 TCTTAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (27 bp):
CATTTTTTAGTCAATTTGACCGTCAAT
Found at i:43937533 original size:3 final size:3
Alignment explanation
Indices: 43937525--43937561 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
43937515 TGTCGAAAGA
43937525 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
43937562 TTTTAAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43941960 original size:38 final size:38
Alignment explanation
Indices: 43941939--43942186 Score: 293
Period size: 38 Copynumber: 6.6 Consensus size: 38
43941929 TGTTCTTAAT
43941939 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* *
43941977 AAGCTTTGTGCCAGTGATATTCGGGCTCTATGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* * *
43942015 AGGCTTTGTGTCGGTGATATTCGGGCTCTATGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
** * * *
43942053 AGGCTTCATGCCGGTGATATTTGGGCTCTGTGTCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* * * * * * *
43942091 AAGCTTCGTGCTAGTGGTCTTCGAGCTCTGTGCCTAGT
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
*
43942129 AGGCTTTTTGCC-GTTGATATTCGGGCTCTGTGCCTAGC
1 AGGCTTTGTGCCAG-TGATATTCGGGCTCTGTGCCTAGC
* *
43942167 AGGCTTCGTGCCGGTG-TATT
1 AGGCTTTGTGCCAGTGATATT
43942187 ATATCAGGCT
Statistics
Matches: 177, Mismatches: 31, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
37 5 0.03
38 171 0.97
39 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.30, T:0.34
Consensus pattern (38 bp):
AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
Found at i:43942119 original size:114 final size:114
Alignment explanation
Indices: 43941947--43942186 Score: 338
Period size: 114 Copynumber: 2.1 Consensus size: 114
43941937 ATAGGCTTTG
* * *
43941947 TGCCAGTGATATTCGGGCTCTGTGCCTAGCAAGCTTTGTGCCAGTGATATTCGGGCTCTATGCCT
1 TGCCGGTGATATTCGGGCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTCGAGCTCTATGCCT
*
43942012 AGCAGGCTTTGTGTCGGTGATATTCGGGCTCTATGCCTAGCAGGCTTCA
66 AGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATGCCTAGCAGGCTTCA
* * * * * *
43942061 TGCCGGTGATATTTGGGCTCTGTGTCTAGCAAGCTTCGTGCTAGTGGTCTTCGAGCTCTGTGCCT
1 TGCCGGTGATATTCGGGCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTCGAGCTCTATGCCT
* * * * *
43942126 AGTAGGCTTTTTGCCGTTGATATTCGGGCTCTGTGCCTAGCAGGCTTCG
66 AGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATGCCTAGCAGGCTTCA
43942175 TGCCGGTG-TATT
1 TGCCGGTGATATT
43942187 ATATCAGGCT
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
113 4 0.04
114 107 0.96
ACGTcount: A:0.13, C:0.23, G:0.30, T:0.34
Consensus pattern (114 bp):
TGCCGGTGATATTCGGGCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTCGAGCTCTATGCCT
AGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATGCCTAGCAGGCTTCA
Found at i:43942194 original size:25 final size:25
Alignment explanation
Indices: 43942166--43942224 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
43942156 CTGTGCCTAG
43942166 CAGGCTTCGTGCCGGTGTATTATAT
1 CAGGCTTCGTGCCGGTGTATTATAT
* * *
43942191 CAGGCTTTGTGCTGGTGTGTTATAT
1 CAGGCTTCGTGCCGGTGTATTATAT
43942216 CAGGCTTCG
1 CAGGCTTCG
43942225 AGCCTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.37
Consensus pattern (25 bp):
CAGGCTTCGTGCCGGTGTATTATAT
Found at i:43944005 original size:30 final size:30
Alignment explanation
Indices: 43943964--43944033 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
43943954 CATGTGTCTT
43943964 AGCCATGTGTGACACATGGCCACACGACAC
1 AGCCATGTGTGACACATGGCCACACGACAC
* * *
43943994 AGCCGTGTGTGACACGTGGCCACGCGACAC
1 AGCCATGTGTGACACATGGCCACACGACAC
*
43944024 AGCCTTGTGT
1 AGCCATGTGT
43944034 CCCTTGTAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (30 bp):
AGCCATGTGTGACACATGGCCACACGACAC
Found at i:43967291 original size:51 final size:50
Alignment explanation
Indices: 43967227--43967421 Score: 239
Period size: 51 Copynumber: 3.9 Consensus size: 50
43967217 TAAATGATAC
* * *
43967227 CCGGTTCACATAGTATCCTGCACATAGTACTACACATGTGACCATTTTCAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCAT
* * * * *
43967278 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATATC-AT
* *
43967329 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-T
* * *
43967379 CTGGTACACGTAGTAGCTTGCACATAGTACTACACATGTGACC
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC
43967422 TAGCAACTTC
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 1 0.01
50 42 0.34
51 79 0.65
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCAT
Found at i:43967358 original size:102 final size:101
Alignment explanation
Indices: 43967235--43967419 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
43967225 ACCCGGTTCA
* * *
43967235 CATAGTATCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATACACATAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGATACACATAGTAGCCTGC
43967299 ACATAGTACTACACACGTGATCAAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCAAAGCTATCCGGTACG
* * * *
43967337 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCTTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGATACACATAGTAGCCTGCAC
*
43967402 ATAGTACTACACATGTGA
66 ATAGTACTACACACGTGA
43967420 CCTAGCAACT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.50
102 33 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:43974315 original size:19 final size:18
Alignment explanation
Indices: 43974291--43974326 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
43974281 TAATTAAAAA
*
43974291 TTAATTAATCATTGTTTAT
1 TTAATTAAACA-TGTTTAT
43974310 TTAATTAAACATGTTTA
1 TTAATTAAACATGTTTA
43974327 ACAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TTAATTAAACATGTTTAT
Found at i:43981738 original size:42 final size:42
Alignment explanation
Indices: 43981663--43981756 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
43981653 ATAGCCTAGC
* *
43981663 ACATGGCCTGGCACACGGGCGTGTAGGGCTATTTCGAGAGTT
1 ACATGGCCTGGCACACAGGCATGTAGGGCTATTTCGAGAGTT
* * *
43981705 ACATGGCTTGGCACACAGGCATGTGGGGTTATTTCGAGAGTT
1 ACATGGCCTGGCACACAGGCATGTAGGGCTATTTCGAGAGTT
* *
43981747 ATACGGCCTG
1 ACATGGCCTG
43981757 ACATACGAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (42 bp):
ACATGGCCTGGCACACAGGCATGTAGGGCTATTTCGAGAGTT
Found at i:43983245 original size:32 final size:31
Alignment explanation
Indices: 43983173--43983283 Score: 98
Period size: 32 Copynumber: 3.5 Consensus size: 31
43983163 TAGAATGGCT
* * * * *
43983173 ACAAGCCATAAGTA-CAGTAATATGGTTGGC
1 ACAAACCATCAGTAGCAGTAATATGATCGAC
*
43983203 ACAAAGCCATCAGTAGCAGTGATATGATCGAC
1 ACAAA-CCATCAGTAGCAGTAATATGATCGAC
*** *
43983235 ACACAACCATCAGTAATGGTAATATGATCGGC
1 ACA-AACCATCAGTAGCAGTAATATGATCGAC
*
43983267 ACAAATCATCAGTAGCA
1 ACAAACCATCAGTAGCA
43983284 TCGTAGAAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
30 4 0.06
31 18 0.29
32 39 0.62
33 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
ACAAACCATCAGTAGCAGTAATATGATCGAC
Found at i:43983479 original size:24 final size:24
Alignment explanation
Indices: 43983452--43983557 Score: 131
Period size: 24 Copynumber: 4.4 Consensus size: 24
43983442 TCATGCTCAG
43983452 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
43983476 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
** *
43983500 AATCAGTCATTTAAATCACATACA
1 AATCAGTCATACAAATCACAGACA
** * *
43983524 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATACAAATCACAGACA
*
43983548 AATCAATCAT
1 AATCAGTCAT
43983558 TTACACTCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:43983528 original size:11 final size:11
Alignment explanation
Indices: 43983459--43983528 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
43983449 CAGAATCAGT
43983459 CATACAAATCA
1 CATACAAATCA
*
43983470 CAGACAAATCA
1 CATACAAATCA
*
43983481 GTCATACCAATCA
1 --CATACAAATCA
*
43983494 CAGACAAATCA
1 CATACAAATCA
**
43983505 GTCATTTAAATCA
1 --CATACAAATCA
43983518 CATACAAATCA
1 CATACAAATCA
43983529 GTCATTTACA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 28 0.62
13 17 0.38
ACGTcount: A:0.49, C:0.26, G:0.06, T:0.20
Consensus pattern (11 bp):
CATACAAATCA
Found at i:43983616 original size:27 final size:27
Alignment explanation
Indices: 43983579--43984098 Score: 395
Period size: 27 Copynumber: 19.3 Consensus size: 27
43983569 AGGCAAAATA
* *
43983579 GTCA-TTTACCCTCCACGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
43983605 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * ** * *
43983632 ATCATTTTACCCTA-TGAGCATTTTTCG
1 GTCATTTTACCCTACAG-GGGTATTACG
*
43983659 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
43983686 ATCATTTTACCCTA-TGGGGTTTTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
43983712 GTCATTTTACCCTATAGGGATATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
43983739 GTTATTTTACCTTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
43983766 GTCATTTTACCCTAC-GAGGGCATTACG
1 GTCATTTTACCCTACAG-GGGTATTACG
* * * **
43983793 GTCATTTTACCCTATAAGGGTTTTTTG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
43983820 ATCATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
43983847 GTTATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
43983874 ATCATTTAACCCT-CTGGGGGTATTATG
1 GTCATTTTACCCTAC-AGGGGTATTACG
* * *
43983901 GTAATTTTACCCTACAGTGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * ** * **
43983928 ATCATTTTATCCTATGGGGGTTTTTTG
1 GTCATTTTACCCTACAGGGGTATTACG
*
43983955 GTCATTTTACCCTACAAGGGG-ATTACT
1 GTCATTTTACCCTAC-AGGGGTATTACG
* *
43983982 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
43984009 ATTATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
** * *
43984036 GTCATTTTACCCTGTAGGGGTTTTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * **
43984063 GTCTTTTTACCTTACAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGTATTACG
43984090 GTCATTTTA
1 GTCATTTTA
43984099 TAAGTATTGG
Statistics
Matches: 372, Mismatches: 112, Indels: 19
0.74 0.22 0.04
Matches are distributed among these distances:
26 31 0.08
27 335 0.90
28 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:43983684 original size:81 final size:80
Alignment explanation
Indices: 43983579--43984098 Score: 445
Period size: 81 Copynumber: 6.5 Consensus size: 80
43983569 AGGCAAAATA
* * * **
43983579 GTCA-TTTACCCTCCACGGGTATTACGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
**
43983643 CTATGAGCATTTTTCG
66 CTAT-AGGGTTTTTCG
* * * *
43983659 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTA-TGGGGTTTTTCGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
* * *
43983723 CTATAGGGATATTACA
66 CTATAGGG-TTTTTCG
* * * *
43983739 GTTATTTTACCTTACAAGGGCATTACGGTCATTTTACCCTAC-GAGGGCATTACGGTCATTTTAC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAG-GGGTATTACGGTCATTTTAC
*
43983803 CCTATAAGGGTTTTTTG
65 CCTAT-AGGGTTTTTCG
* * * * * * * * *
43983820 ATCATTTTACCCTACAGGGGTATTATGGTTATTTTACCTTATAGGGGTATTTCGATCATTTAACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
* * *
43983885 CTCTGGGGGTATTAT-G
66 CTAT-AGGGT-TTTTCG
* * * * ** * **
43983901 GTAATTTTACCCTACAGTGGCATTACGATCATTTTATCCTATGGGGGTTTTTTGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
* ** * *
43983966 CTACAAGGGGATTACT
66 CTA-TAGGGTTTTTCG
* * * * *
43983982 GTCATTTTACCTTACAGGGGCATTACGATTATTTTACCCTACGGGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
*
43984047 CTGTAGGGGTTTTTCG
66 CTATA-GGGTTTTTCG
* * **
43984063 GTCTTTTTACCTTACAGGGGCATTATAGTCATTTTA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTA
43984099 TAAGTATTGG
Statistics
Matches: 345, Mismatches: 85, Indels: 19
0.77 0.19 0.04
Matches are distributed among these distances:
79 2 0.01
80 70 0.20
81 265 0.77
82 8 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (80 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
CTATAGGGTTTTTCG
Found at i:43983714 original size:107 final size:107
Alignment explanation
Indices: 43983603--43983844 Score: 319
Period size: 107 Copynumber: 2.3 Consensus size: 107
43983593 ACGGGTATTA
* *
43983603 CGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCT-ATGAGCATTTTTCGGTCATTTT
1 CGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCTAAAGAGCA--TTACGGTCATTTT
*
43983667 ACCCTAC-AGGGGCATTACGATCATTTTACCCTAT-GGGGTTTTT
64 ACCCTACGA-GGGCATTACGATCATTTTACCCTATAAGGGTTTTT
* * * * * *
43983710 CGGTCATTTTACCCTATAGGGATATTACAGTTATTTTACCTTACAAGGGCATTACGGTCATTTTA
1 CGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCTA-AAGAGCATTACGGTCATTTTA
*
43983775 CCCTACGAGGGCATTACGGTCATTTTACCCTATAAGGGTTTTT
65 CCCTACGAGGGCATTACGATCATTTTACCCTATAAGGGTTTTT
* *
43983818 TGATCATTTTACCCTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGTATTA
43983845 TGGTTATTTT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
107 80 0.68
108 32 0.27
109 5 0.04
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (107 bp):
CGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCTAAAGAGCATTACGGTCATTTTAC
CCTACGAGGGCATTACGATCATTTTACCCTATAAGGGTTTTT
Found at i:43984483 original size:18 final size:18
Alignment explanation
Indices: 43984454--43984493 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
43984444 ATCTATGTGA
43984454 CCCACAAGCCCACTT-GG
1 CCCACAAGCCCACTTCGG
*
43984471 CCCACACAGCCCATTTCGG
1 CCCACA-AGCCCACTTCGG
43984490 CCCA
1 CCCA
43984494 ACGAGGCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.23, C:0.50, G:0.15, T:0.12
Consensus pattern (18 bp):
CCCACAAGCCCACTTCGG
Found at i:43986646 original size:22 final size:23
Alignment explanation
Indices: 43986618--43986674 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
43986608 TGCATTAATG
43986618 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
*
43986640 AACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
*
43986662 AACGGAGAGCACT
1 AACAGAGAGCACT
43986675 GCCGTGCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCTA
Found at i:43986681 original size:22 final size:22
Alignment explanation
Indices: 43986618--43986709 Score: 80
Period size: 22 Copynumber: 4.0 Consensus size: 22
43986608 TGCATTAATG
*
43986618 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCAC-AGACGTGCTA
*
43986640 AACAGAGAGCACAGATGTGCTA
1 AACAGAGAGCACAGACGTGCTA
* * *
43986662 AACGGAGAGCACTGCCGTGCTA
1 AACAGAGAGCACAGACGTGCTA
43986684 GTAATCAGAGAGCACCA-ACGTGCTA
1 --AA-CAGAGAGCA-CAGACGTGCTA
43986709 A
1 A
43986710 TAATCAGAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
21 1 0.02
22 37 0.65
23 1 0.02
24 2 0.04
25 15 0.26
26 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (22 bp):
AACAGAGAGCACAGACGTGCTA
Found at i:43987599 original size:13 final size:13
Alignment explanation
Indices: 43987581--43987607 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43987571 CTAATTTTCC
43987581 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
43987594 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
43987607 C
1 C
43987608 CCTCTCTGTT
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:43987759 original size:35 final size:35
Alignment explanation
Indices: 43987713--43987879 Score: 261
Period size: 35 Copynumber: 4.9 Consensus size: 35
43987703 ATAAATTGAA
*
43987713 TATTTT-TTGCAGGGAATCTCTCATGTTCACGCAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
*
43987747 TATTTTGTTGCAGGGAATCTCTCCTGTTCACACAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
*
43987782 TATTTTGTTGCAGGGAATCTTTCCTGTTCA--CAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
* *
43987815 CA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
43987849 TATTTTGTTGCAGGGAATCTCTCCTGTTCAC
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCAC
43987880 ATCATTTCTT
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
32 25 0.21
33 4 0.03
34 10 0.08
35 82 0.68
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (35 bp):
TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
Found at i:43987835 original size:67 final size:67
Alignment explanation
Indices: 43987713--43987889 Score: 275
Period size: 67 Copynumber: 2.6 Consensus size: 67
43987703 ATAAATTGAA
* * *
43987713 TATTTT-TTGCAGGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
43987777 CACAT
63 CACAT
* *
43987782 TATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGC
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
43987847 AT
66 AT
43987849 TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTT
43987890 TTTGGACCTG
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
67 70 0.69
68 4 0.04
69 6 0.06
70 21 0.21
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (67 bp):
TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
AT
Found at i:43992771 original size:20 final size:22
Alignment explanation
Indices: 43992734--43992777 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
43992724 TCAGAGCAAA
43992734 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
43992755 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
43992776 TT
1 TT
43992778 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:43998623 original size:40 final size:40
Alignment explanation
Indices: 43998434--43998659 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
43998424 TTGAATGATG
* * *
43998434 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
*
43998474 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
43998514 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
43998554 TCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
43998594 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
43998635 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43998660 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 150 0.91
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:44000251 original size:13 final size:13
Alignment explanation
Indices: 44000216--44000253 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
44000206 GAGATATTTG
*
44000216 TAATTTGAAAGCT
1 TAATTTGAAAACT
44000229 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
44000243 TAATTTGAAAA
1 TAATTTGAAAA
44000254 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:44003957 original size:25 final size:22
Alignment explanation
Indices: 44003900--44003958 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
44003890 TGCACTAATG
44003900 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* **
44003922 AACGGAGAGCACTATCGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
44003944 GTAATCAGAGAGCAC
1 --AA-CAGAGAGCAC
44003959 CAACATGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 19 0.63
24 2 0.07
25 9 0.30
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:44004891 original size:22 final size:22
Alignment explanation
Indices: 44004866--44004908 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
44004856 TCTTTCTCTA
44004866 TTTCGT-TTTTCAATTATGTTTC
1 TTTCGTCTTTTCAATT-TGTTTC
* *
44004888 TTTCTTCTTTTCTATTTGTTT
1 TTTCGTCTTTTCAATTTGTTT
44004909 GTTTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTCGTCTTTTCAATTTGTTTC
Found at i:44004924 original size:5 final size:5
Alignment explanation
Indices: 44004914--44005111 Score: 344
Period size: 5 Copynumber: 39.4 Consensus size: 5
44004904 TGTTTGTTTT
44004914 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
44004964 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
44005014 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
44005064 TATAA TATAA TATAAA TATAA -ATATA TATTA TATTA TATTA TATAA TA
1 TATAA TATAA TAT-AA TATAA TATA-A TATAA TATAA TATAA TATAA TA
44005112 AAAACAAATA
Statistics
Matches: 188, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
4 3 0.02
5 178 0.95
6 7 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:44025438 original size:28 final size:28
Alignment explanation
Indices: 44025407--44025467 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
44025397 AAGGGCCTCC
* *
44025407 CTTTTCAGAGTTCACCACATAGGTTATT
1 CTTTTCAAAGTTCACCACATAGGCTATT
** *
44025435 CTTTTCAAAGTTTGCCATATAGGCTATT
1 CTTTTCAAAGTTCACCACATAGGCTATT
44025463 CTTTT
1 CTTTT
44025468 TAGATTCCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (28 bp):
CTTTTCAAAGTTCACCACATAGGCTATT
Found at i:44030218 original size:15 final size:15
Alignment explanation
Indices: 44030200--44030228 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44030190 TAAAGATTAA
44030200 AATAATAATAAAAGT
1 AATAATAATAAAAGT
44030215 AATAATAATAAAAG
1 AATAATAATAAAAG
44030229 AAAGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAAGT
Found at i:44030236 original size:15 final size:15
Alignment explanation
Indices: 44030203--44030237 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44030193 AGATTAAAAT
* *
44030203 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
44030218 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
44030233 AATAA
1 AATAA
44030238 AGAGAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:44030236 original size:18 final size:18
Alignment explanation
Indices: 44030200--44030237 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
44030190 TAAAGATTAA
*
44030200 AATAATAATAAAAGTAAT
1 AATAATAAAAAAAGTAAT
44030218 AATAATAAAAGAAAG-AAT
1 AATAATAAAA-AAAGTAAT
44030236 AA
1 AA
44030238 AGAGAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AATAATAAAAAAAGTAAT
Found at i:44038636 original size:65 final size:65
Alignment explanation
Indices: 44038545--44038702 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
44038535 CGCCACATGA
** * * * * *
44038545 GTTAATTTTAGATTGCATCTAAAATTGTCACCGCACCTGACAGATGTCTGCATGTCGCTGCACGG
1 GTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTGACAAATGTCTACATGTCGCTGCACGG
* *
44038610 GTTAATTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAAATGTCTACATGTCGCTGCATGG
1 GTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTGACAAATGTCTACATGTCGCTGCACGG
* *
44038675 GTTAATTCCAGATTGCGTTCAGAATTGT
1 GTTAATTCCAGATTGCATCCAGAATTGT
44038703 TATCGCAGCT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (65 bp):
GTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTGACAAATGTCTACATGTCGCTGCACGG
Found at i:44039875 original size:5 final size:6
Alignment explanation
Indices: 44039864--44039904 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
44039854 TTTTATCTCC
44039864 TATTTT TATTTT TATTTT TATTTT TATCCTCTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TAT--T-TT TATTTT TA
44039905 ATACAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 25 0.78
7 1 0.03
8 1 0.03
9 5 0.16
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:44047181 original size:18 final size:20
Alignment explanation
Indices: 44047160--44047209 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
44047150 AAAGGAAGAC
44047160 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
44047178 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
44047198 AGCAAAAAGAGA
1 AG-AAAAAGAGA
44047210 TTGAGATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:44049440 original size:12 final size:12
Alignment explanation
Indices: 44049414--44049448 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
44049404 TTATACACAT
*
44049414 TACACTTGAAGAA
1 TACA-TTGAAAAA
44049427 TACATTGAAAAA
1 TACATTGAAAAA
44049439 TACATTGAAA
1 TACATTGAAA
44049449 TCAGATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (12 bp):
TACATTGAAAAA
Found at i:44069164 original size:12 final size:12
Alignment explanation
Indices: 44069147--44069188 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
44069137 TTCAAGAGTT
44069147 ACACGGCCTACC
1 ACACGGCCTACC
44069159 ACACGGCCTACC
1 ACACGGCCTACC
*
44069171 ACACGGCTTACC
1 ACACGGCCTACC
44069183 ACACGG
1 ACACGG
44069189 GCGTGTGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.26, C:0.45, G:0.19, T:0.10
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:44074684 original size:17 final size:17
Alignment explanation
Indices: 44074662--44074694 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44074652 CACTAACATT
*
44074662 AAAATGCAATGACAATA
1 AAAATGCAAAGACAATA
44074679 AAAATGCAAAGACAAT
1 AAAATGCAAAGACAAT
44074695 GTTCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAAAGACAATA
Found at i:44089687 original size:54 final size:54
Alignment explanation
Indices: 44089605--44089736 Score: 221
Period size: 54 Copynumber: 2.4 Consensus size: 54
44089595 AGGCACCTGT
*
44089605 ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCCTC-AG
1 ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCATCAAG
*
44089658 CATCACTCCATTTTGAACCAGTCCATGAGTTGTTTGCATCATTTGAAGCATCAAG
1 -ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCATCAAG
*
44089713 ATCACTCCATTTTGGACCAGTCCA
1 ATCACTCCATTTTGAACCAGTCCA
44089737 GGGTATCTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
54 72 0.97
55 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (54 bp):
ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCATCAAG
Found at i:44097842 original size:41 final size:41
Alignment explanation
Indices: 44097790--44097897 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
44097780 AAATGGTTTT
* *
44097790 ATAAGTTGTGTATCAGCGAAGCTCCCTTTGAGAACTAATGG
1 ATAAGTTGTGTATCAGCGAAGCTCCCCTTGAGAACTAACGG
* * * *
44097831 ATAAGGTGTGTATCAGCGAAGCTCCCCTTGTGAGCTTACGG
1 ATAAGTTGTGTATCAGCGAAGCTCCCCTTGAGAACTAACGG
*
44097872 GTAAGTTGTGTATCAGCGAAGCTCCC
1 ATAAGTTGTGTATCAGCGAAGCTCCC
44097898 GTGAGCTTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (41 bp):
ATAAGTTGTGTATCAGCGAAGCTCCCCTTGAGAACTAACGG
Found at i:44097922 original size:38 final size:39
Alignment explanation
Indices: 44097790--44097929 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 39
44097780 AAATGGTTTT
* * *
44097790 ATAAGTTGTGTATCAGCGAAGCTCCCTTTGAGAAC-TAATGG
1 ATAAGCTGTGTATCAGCGAAGCTCCCTGTGAG--CTTAGT-G
*
44097831 ATAAGGTGTGTATCAGCGAAGCTCCCCTTGTGAGCTTACG-G
1 ATAAGCTGTGTATCAGCGAAGCT-CCC-TGTGAGCTTA-GTG
* *
44097872 GTAAGTTGTGTATCAGCGAAGCTCCC-GTGAGCTTAGTG
1 ATAAGCTGTGTATCAGCGAAGCTCCCTGTGAGCTTAGTG
* *
44097910 ATAAGCTATGTATCAACGAA
1 ATAAGCTGTGTATCAGCGAA
44097930 ACACGAGCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 26 0.31
40 3 0.04
41 45 0.53
42 5 0.06
43 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (39 bp):
ATAAGCTGTGTATCAGCGAAGCTCCCTGTGAGCTTAGTG
Found at i:44102804 original size:17 final size:17
Alignment explanation
Indices: 44102760--44102805 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
44102750 GAAATAAAAG
*
44102760 ATTAACAAT-TTAATAA
1 ATTAAAAATATTAATAA
* *
44102776 ATTGAAAA-ATTAATCA
1 ATTAAAAATATTAATAA
44102792 ATTAAAAATATTAA
1 ATTAAAAATATTAA
44102806 AATTCTGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
ATTAAAAATATTAATAA
Found at i:44102807 original size:24 final size:25
Alignment explanation
Indices: 44102754--44102807 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
44102744 TAATTAGAAA
44102754 TAAAAGATTAACAATTTAATAAATT
1 TAAAAGATTAACAATTTAATAAATT
*
44102779 GAAAA-ATTAATCAA-TTAA-AAATAT
1 TAAAAGATTAA-CAATTTAATAAAT-T
44102803 TAAAA
1 TAAAA
44102808 TTCTGGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAGATTAACAATTTAATAAATT
Found at i:44103521 original size:28 final size:29
Alignment explanation
Indices: 44103472--44103526 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
44103462 GTTGTTTTAA
*
44103472 AATATTTACAGAAAAAGACAACTAATTTC
1 AATATTTACAGAAAAAGACAACCAATTTC
*
44103501 AATATTTACA-AAAATGACAACCAATT
1 AATATTTACAGAAAAAGACAACCAATT
44103527 ATTGCAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (29 bp):
AATATTTACAGAAAAAGACAACCAATTTC
Found at i:44105110 original size:20 final size:20
Alignment explanation
Indices: 44105085--44105127 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
44105075 GGGGTCACAT
44105085 GCCGTGTGGAATCACCCTAG
1 GCCGTGTGGAATCACCCTAG
44105105 GCCGTGTGGAATCACCCTAG
1 GCCGTGTGGAATCACCCTAG
44105125 GCC
1 GCC
44105128 TTGTAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.19
Consensus pattern (20 bp):
GCCGTGTGGAATCACCCTAG
Found at i:44107057 original size:95 final size:95
Alignment explanation
Indices: 44106870--44107050 Score: 344
Period size: 95 Copynumber: 1.9 Consensus size: 95
44106860 TTCAAATCCT
44106870 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
1 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
44106935 TTTTTAAAATAAATATAGAAAAATTATTCC
66 TTTTTAAAATAAATATAGAAAAATTATTCC
*
44106965 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCGTGCAACATGCCTTG
1 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
*
44107030 TTTTTAAAATAAATATTGAAA
66 TTTTTAAAATAAATATAGAAA
44107051 TTTTATTTCA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (95 bp):
TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
TTTTTAAAATAAATATAGAAAAATTATTCC
Found at i:44135850 original size:13 final size:13
Alignment explanation
Indices: 44135832--44135856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44135822 TAAAAACTAA
44135832 AAATTAACTAAGT
1 AAATTAACTAAGT
44135845 AAATTAACTAAG
1 AAATTAACTAAG
44135857 AAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATTAACTAAGT
Found at i:44143238 original size:43 final size:43
Alignment explanation
Indices: 44143175--44143289 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
44143165 ATGTTTCAAT
*
44143175 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTAGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTAGC
* * *
44143218 ATCGATTTGAGATTTTGTGTAAGACAATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTAGC
* *
44143261 ATCGATATGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CGTGTAAGACCAT
44143290 GTCTGAGACA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 53 0.84
44 10 0.16
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTAGC
Found at i:44145460 original size:27 final size:27
Alignment explanation
Indices: 44145423--44145627 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
44145413 TAAATTGTAC
* *
44145423 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACCATGT
44145450 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACCATGT
* * ** **
44145477 TGCACTAAGTATGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACCATGT
* *
44145503 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACCATGT
* *
44145531 GGCACTAAGTGTGCGAGTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACCATGT
**
44145558 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACCATGT
* * ** *
44145586 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACCATGT
*
44145613 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44145628 GACTTAATAT
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 127 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACCATGT
Found at i:44145484 original size:54 final size:54
Alignment explanation
Indices: 44145424--44145627 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 54
44145414 AAATTGTACA
* * *
44145424 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
* ** ** * *
44145478 GCACTAAGTATGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
* **
44145532 GCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
44145587 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
44145628 GACTTAATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 78 0.62
55 46 0.37
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:44145536 original size:81 final size:81
Alignment explanation
Indices: 44145424--44145573 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
44145414 AAATTGTACA
* * * * * *
44145424 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTTGCACTAAGTAT
1 GCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTAT
44145489 GCGAAATGAAAATGAT
66 GCGAAATGAAAATGAT
* *
44145505 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGT
1 GCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTAT
44145570 GCGA
66 GCGA
44145574 GTTTGATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTAT
GCGAAATGAAAATGAT
Found at i:44153448 original size:27 final size:27
Alignment explanation
Indices: 44153415--44153619 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
44153405 TAAATTGTAC
* *
44153415 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACCATGT
44153442 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACCATGT
* ** **
44153469 TGCACTAAGTGTGCGAAATGAAAATGGT
1 AGCACTAAGTGTGCGATTTGACCAT-GT
* * *
44153497 -CCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACCATGT
* *
44153523 GGCACTAAGTGTGCGAGTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACCATGT
**
44153550 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACCATGT
* * ** *
44153578 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACCATGT
*
44153605 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44153620 GACTTAATAT
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 125 0.83
28 25 0.17
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACCATGT
Found at i:44153476 original size:54 final size:54
Alignment explanation
Indices: 44153416--44153619 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 54
44153406 AAATTGTACA
* * *
44153416 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * * *
44153470 GCACTAAGTGTGCGAAATGAAAATGGT-CCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTAT-GTAGCACTAAGTGTGCGATTTGACCATGTG
* **
44153524 GCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
44153579 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
44153620 GACTTAATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
53 2 0.02
54 76 0.61
55 47 0.38
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:44153528 original size:81 final size:81
Alignment explanation
Indices: 44153417--44153565 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
44153407 AATTGTACAG
* * * * * *
44153417 CACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTTGCACTAAGTGTG
1 CACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGTG
44153482 CGAAATGAAAATGGTC
66 CGAAATGAAAATGGTC
*
44153498 CACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGTG
1 CACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGTG
44153563 CGA
66 CGA
44153566 GTTTGATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (81 bp):
CACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGTG
CGAAATGAAAATGGTC
Found at i:44166181 original size:50 final size:49
Alignment explanation
Indices: 44166055--44166351 Score: 229
Period size: 50 Copynumber: 5.9 Consensus size: 49
44166045 GATAATAACA
* * ** * *
44166055 TGCCAAAGCCATGTCCCAGACACGGTCTTACATGGGATGTTTCA-T-GTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCACTCG--G
* * * **
44166104 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCACATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAC-TCGG
* ** *
44166154 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-CTCGG
* * * * *
44166204 TGCCAACGACATGTCCTAGAGATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-ACTCGG
* * *
44166254 TGCCAATGACATGTCCCAGGCATGGTCTTACATGGGATCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CTC-TCA-CTC--GG
* * * *
44166309 ATGCAAATTCCATGTCCCTGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44166352 TTACCCAAAT
Statistics
Matches: 197, Mismatches: 39, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
49 36 0.18
50 112 0.57
51 3 0.02
52 4 0.02
53 5 0.03
54 3 0.02
55 2 0.01
56 32 0.16
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCACTCGG
Found at i:44166234 original size:100 final size:99
Alignment explanation
Indices: 44166055--44166298 Score: 292
Period size: 100 Copynumber: 2.5 Consensus size: 99
44166045 GATAATAACA
* * * * * * *
44166055 TGCCAAAGCCATGTCCCAGACACGGTCTTACATGGGATGTTTCATGTACTGCCAATGCCATATCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTACTGCCAACGACATATCC
* **
44166120 TAGATATGGTCTTACATGGGAGTTCTC-ACATCGG
66 TAGAGATGGTCTTACATGGGACCTCTCGAC-TCGG
* ** * * *
44166154 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGACATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCT-ACTGCCAACGACATATC
*
44166219 CTAGAGATGGTCTTACATGGGACCTCTCGTCTCGG
65 CTAGAGATGGTCTTACATGGGACCTCTCGACTCGG
* *
44166254 TGCCAATGACATGTCCCAGGCATGGTCTTACATGGGATCTCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCAT
44166299 GATCTCAAGG
Statistics
Matches: 120, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
99 38 0.32
100 81 0.68
101 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (99 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTACTGCCAACGACATATCC
TAGAGATGGTCTTACATGGGACCTCTCGACTCGG
Found at i:44169203 original size:23 final size:23
Alignment explanation
Indices: 44169174--44169219 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44169164 GTGGTAAGAA
44169174 AATTTTTCTCCTAAATTTCAATT
1 AATTTTTCTCCTAAATTTCAATT
44169197 AATTTTTCTCCTAAATTTCAATT
1 AATTTTTCTCCTAAATTTCAATT
44169220 TTATTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTTCTCCTAAATTTCAATT
Found at i:44185018 original size:24 final size:25
Alignment explanation
Indices: 44184965--44185043 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
44184955 TCAGGTCAAG
* *
44184965 AGAGCTTACCGATATT-CAGCTTGCA
1 AGAGCTTACCGAT-TTACAGCTCGTA
*
44184990 TGAGCTTACCG-TTTACAGCTCGTA
1 AGAGCTTACCGATTTACAGCTCGTA
* * *
44185014 AGAGCATACCGATTCAGAGCTCGTA
1 AGAGCTTACCGATTTACAGCTCGTA
*
44185039 TGAGC
1 AGAGC
44185044 ATACATGTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.05
24 17 0.39
25 25 0.57
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AGAGCTTACCGATTTACAGCTCGTA
Found at i:44185043 original size:25 final size:24
Alignment explanation
Indices: 44184989--44185047 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
44184979 TTCAGCTTGC
* *
44184989 ATGAGCTTACCGTTTACAGCTCGT
1 ATGAGCATACCGTTCACAGCTCGT
* *
44185013 AAGAGCATACCGATTCAGAGCTCGT
1 ATGAGCATACCG-TTCACAGCTCGT
44185038 ATGAGCATAC
1 ATGAGCATAC
44185048 ATGTACAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
ATGAGCATACCGTTCACAGCTCGT
Found at i:44193132 original size:22 final size:22
Alignment explanation
Indices: 44193104--44193225 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
44193094 TTCCACATCC
44193104 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
44193126 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
44193150 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
44193173 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
44193197 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
44193220 ATCACA
1 ATCACA
44193226 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:44193139 original size:47 final size:47
Alignment explanation
Indices: 44193076--44193766 Score: 961
Period size: 47 Copynumber: 14.6 Consensus size: 47
44193066 CCCTTCGGGA
* * *
44193076 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
44193123 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
44193170 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
44193217 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
44193264 CTTATCACACATACT-CATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACATGTTCACATTCATCACATTGGCCATTCGGC
*
44193311 CTTAT-ATCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCA-CATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
44193358 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
44193405 CTTATCACACATACT-CATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACATGTTCACATTCATCACATTGGCCATTCGGC
* *
44193452 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
44193499 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGT
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
44193546 CTTATCACATATATATATACACT-TTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC----ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
44193597 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
44193644 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
44193691 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
44193740 CTTATCACATATATACACT-TTCACATT
1 CTTATCACATATATACA-TGTTCACATT
44193767 TATTCAAATA
Statistics
Matches: 602, Mismatches: 28, Indels: 28
0.91 0.04 0.04
Matches are distributed among these distances:
46 4 0.01
47 509 0.85
48 1 0.00
49 46 0.08
51 41 0.07
52 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:44195282 original size:56 final size:56
Alignment explanation
Indices: 44195215--44195334 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44195205 TATTAGTTTA
44195215 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44195271 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44195327 TTGCCCAT
1 TTGCCCAT
44195335 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:44195857 original size:36 final size:36
Alignment explanation
Indices: 44195811--44195884 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
44195801 TCACTATTAG
44195811 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
1 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
44195847 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
1 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
44195883 TA
1 TA
44195885 CTCATAATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (36 bp):
TAATGTCGTGACAATTACATAATAATCCAAGAAACA
Found at i:44202629 original size:19 final size:19
Alignment explanation
Indices: 44202605--44202644 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
44202595 ATGTCGTGAC
44202605 AATTACATAATAATCCAAG
1 AATTACATAATAATCCAAG
44202624 AATTACATAATAATCCAAG
1 AATTACATAATAATCCAAG
44202643 AA
1 AA
44202645 ACATACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (19 bp):
AATTACATAATAATCCAAG
Found at i:44210067 original size:50 final size:50
Alignment explanation
Indices: 44209992--44210134 Score: 196
Period size: 50 Copynumber: 2.9 Consensus size: 50
44209982 TATTGAGGTA
* *
44209992 ATGAGACGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* ** * *
44210042 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATTGGCACCGAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * *
44210092 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
44210135 TAGTACAGGA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:44217737 original size:50 final size:50
Alignment explanation
Indices: 44217678--44217871 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
44217668 TATTGAGGTT
*
44217678 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
44217728 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * * *
44217778 ATGAGAACTCCCATGTAATACCATATCTGGGATATGGAATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** * *
44217827 AGGAAACATCCCATGTAAGACCATGTCTGGTACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44217872 TGTTATTATC
Statistics
Matches: 117, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.31
50 80 0.68
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:44218098 original size:20 final size:20
Alignment explanation
Indices: 44218073--44218121 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44218063 TGAGTTATTT
44218073 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
44218093 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
44218113 AA-TAAGCAA
1 AAGTAAGCAA
44218122 TGGCCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.57, C:0.06, G:0.22, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:44222001 original size:18 final size:19
Alignment explanation
Indices: 44221975--44222011 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44221965 AATTTCGGAA
44221975 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
44221993 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
44222012 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:44223385 original size:103 final size:103
Alignment explanation
Indices: 44223268--44223473 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
44223258 TTTCATTTGC
44223268 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
1 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
*
44223333 ATCATCAAATCTACAAGTTAGTGCATTTGTACATGGTT
66 ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
* *
44223371 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCATAATTCCTATACAAC
1 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
44223436 ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
66 ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
44223474 CAAATGAATT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (103 bp):
ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
Found at i:44228681 original size:46 final size:46
Alignment explanation
Indices: 44228565--44228726 Score: 172
Period size: 45 Copynumber: 3.6 Consensus size: 46
44228555 CGAAGTGTGG
* * *
44228565 CATAGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGTCT-TGATGC
1 CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTGT-TGTGATGC
* * *
44228610 TATAATGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGTTGC
1 CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGATGC
*
44228656 CATAGTGTCTTTCAACCATGGTC-T-TAT-TTCTTTGATTCGTGATGC
1 CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTG-TT-GTGATGC
* * *
44228701 CATAGCGTCTTTCAGCTATGGTCTTA
1 CATAGTGTCTTTCAACCATGGTCTTA
44228727 CTCGATAGAA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
43 6 0.06
44 5 0.05
45 55 0.56
46 32 0.33
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (46 bp):
CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGATGC
Found at i:44228749 original size:45 final size:45
Alignment explanation
Indices: 44228695--44228818 Score: 196
Period size: 45 Copynumber: 2.8 Consensus size: 45
44228685 CTTTGATTCG
*
44228695 TGATGCCATAGCGTCTTTCAG-CTATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCA
* *
44228740 TGATTCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
*
44228785 TGATGCCATAACATCTTTCAGTCATGGTCTTACT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
44228819 TGTTTCTGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 71 0.99
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:44228849 original size:45 final size:46
Alignment explanation
Indices: 44228808--44228907 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
44228798 TCTTTCAGTC
* * * *
44228808 ATGGTCTTACTTGTT-TCTGGTATGGTGTCATAGTGTATTTCAACT
1 ATGGTCTTACTTCTTCTCTGGTATAGTGCCATAATGTATTTCAACT
* *
44228853 ATGGTCTTATTTCTTCTCTGGTATAGTGCCATAATGTCTTTCAACT
1 ATGGTCTTACTTCTTCTCTGGTATAGTGCCATAATGTATTTCAACT
44228899 ATGGTCTTA
1 ATGGTCTTA
44228908 ATCATTTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 13 0.27
46 35 0.73
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (46 bp):
ATGGTCTTACTTCTTCTCTGGTATAGTGCCATAATGTATTTCAACT
Found at i:44232389 original size:35 final size:35
Alignment explanation
Indices: 44232341--44232462 Score: 127
Period size: 35 Copynumber: 3.5 Consensus size: 35
44232331 CCTTGGACAT
* **
44232341 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGTTGC
1 GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGC
* * *
44232376 GTCTATCCGAACCTTTTAAAGGTTACCTTAGACGG
1 GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGC
* ** * *
44232411 GTCTATCCCAGCCTTTTTAAAATTTCCTTAGACGG
1 GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGC
* *
44232446 GTCTACCCCAACATTTT
1 GTCTATCCCAACCTTTT
44232463 CTAAAAGTCG
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (35 bp):
GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGC
Found at i:44234670 original size:17 final size:17
Alignment explanation
Indices: 44234650--44234682 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44234640 TTTATTTAAC
*
44234650 TAAATTAATTTCTCAAT
1 TAAATTAACTTCTCAAT
44234667 TAAATTAACTTCTCAA
1 TAAATTAACTTCTCAA
44234683 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAACTTCTCAAT
Found at i:44242039 original size:28 final size:26
Alignment explanation
Indices: 44241986--44242051 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
44241976 ATTTACATTT
**
44241986 ATATAATTTATTTTATAAAAATAAAA
1 ATATAATTTATAATATAAAAATAAAA
*
44242012 ATATAATATTATAATATAAATATTAAAA
1 ATATAAT-TTATAATATAAA-AATAAAA
*
44242040 ATATAAGTTATA
1 ATATAATTTATA
44242052 TATTCAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.21
27 15 0.44
28 12 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAATTTATAATATAAAAATAAAA
Found at i:44242067 original size:28 final size:28
Alignment explanation
Indices: 44241986--44242045 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
44241976 ATTTACATTT
** *
44241986 ATATAAT-TTATTTTATAAA-AATAAAA
1 ATATAATATTATAATATAAATATTAAAA
44242012 ATATAATATTATAATATAAATATTAAAA
1 ATATAATATTATAATATAAATATTAAAA
44242040 ATATAA
1 ATATAA
44242046 GTTATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.24
27 10 0.34
28 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATAATATTATAATATAAATATTAAAA
Found at i:44245433 original size:43 final size:43
Alignment explanation
Indices: 44245304--44245432 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 43
44245294 AGGGTAAATC
* * *
44245304 CAACAACCTATGTTTATC-TCTTCCTCGTTTTAAATTCTTTTTT
1 CAACAACCTAAGATTATCTTC-TCCTCTTTTTAAATTCTTTTTT
* *
44245347 CAACAACCAAAAATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
44245390 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTGCTTTTT
1 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATT-CTTTTT
44245433 CTAGGATAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
43 69 0.90
44 8 0.10
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.48
Consensus pattern (43 bp):
CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:44248514 original size:40 final size:40
Alignment explanation
Indices: 44248470--44248734 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
44248460 GCTCCTCGTT
*
44248470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44248510 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
44248550 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
44248590 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
44248630 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44248669 CAAATGCC-TCCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44248710 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44248735 CATCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
38 4 0.02
39 28 0.14
40 155 0.77
41 15 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44248725 original size:119 final size:121
Alignment explanation
Indices: 44248470--44248734 Score: 351
Period size: 119 Copynumber: 2.2 Consensus size: 121
44248460 GCTCCTCGTT
*
44248470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
44248534 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCCGGACTTAACCCGGATATAGTAACTAGCA
* * *
44248590 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * ** * *
44248653 GAATTAGTATCTTGCACAAATGCC-TCCGGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCCGGA-CTTAACCCGGATATAGTAAC-TAGCA
44248710 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44248735 CATCATTCAA
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
118 5 0.04
119 64 0.50
120 56 0.44
121 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCCGGACTTAACCCGGATATAGTAACTAGCA
Found at i:44256527 original size:40 final size:40
Alignment explanation
Indices: 44256483--44256746 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
44256473 GCTCCTCGTT
*
44256483 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44256523 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44256563 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44256603 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44256643 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
44256681 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44256722 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44256747 CATCATTCAA
Statistics
Matches: 202, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 25 0.12
39 21 0.10
40 143 0.71
41 13 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44256730 original size:118 final size:121
Alignment explanation
Indices: 44256483--44256746 Score: 351
Period size: 118 Copynumber: 2.2 Consensus size: 121
44256473 GCTCCTCGTT
*
44256483 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
44256547 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
65 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAATTAGCAC
* * *
44256604 CAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCAC-AATGCCTTCGGG-CTTAGCCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* ** * *
44256666 AATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-
66 AATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGT-AATTAGCAC
44256722 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
44256747 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
117 3 0.02
118 69 0.55
119 18 0.14
120 31 0.25
121 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAATTAGCAC
Found at i:44256925 original size:21 final size:23
Alignment explanation
Indices: 44256883--44256929 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
44256873 AAAACATGAT
44256883 CTAATCAAATGCTTAAAATTTAAG
1 CTAATCAAATGCTT-AAATTTAAG
44256907 CTAATCAAAT-CTT-AATTTAAG
1 CTAATCAAATGCTTAAATTTAAG
44256928 CT
1 CT
44256930 CTCTTACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.43
23 3 0.13
24 10 0.43
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (23 bp):
CTAATCAAATGCTTAAATTTAAG
Found at i:44261707 original size:18 final size:17
Alignment explanation
Indices: 44261684--44261733 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
44261674 AGTGAATGGA
* *
44261684 AAAGTGAATTTGATATTT
1 AAAGTGAATTTGA-AATG
44261702 AAAGTGAATTTTGAAATG
1 AAAGTGAA-TTTGAAATG
44261720 AAAGTGAATTTGAA
1 AAAGTGAATTTGAA
44261734 TTGTGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.21
18 18 0.62
19 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (17 bp):
AAAGTGAATTTGAAATG
Found at i:44264308 original size:42 final size:43
Alignment explanation
Indices: 44264207--44264335 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 43
44264197 AGGGTAAATC
* * * *
44264207 CAACAACCC-ATGTTGATCTTTTCGTCGTTTTAAATTCTTTTTT
1 CAACAACCCAATATT-ATCTTCTCCTCTTTTTAAATTCTTTTTT
* *
44264250 CAACAACCAAAGATTATCTTCTCCTCTTTTTAAATT-TTTTTT
1 CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTTTTTT
*
44264292 CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTCTTTT
1 CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTTTTTT
44264335 C
1 C
44264336 TAGGATAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 40 0.53
43 32 0.43
44 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.04, T:0.47
Consensus pattern (43 bp):
CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:44267310 original size:17 final size:18
Alignment explanation
Indices: 44267282--44267316 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44267272 TTTTCCCCAG
*
44267282 AAATATAATTTATTCTAT
1 AAATATAATTTATGCTAT
44267300 AAATA-AATTTATGCTAT
1 AAATATAATTTATGCTAT
44267317 TTTCTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATATAATTTATGCTAT
Found at i:44268448 original size:17 final size:17
Alignment explanation
Indices: 44268426--44268458 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44268416 GTGGAATTGT
44268426 GTATGCATGTAATATGG
1 GTATGCATGTAATATGG
44268443 GTATGCATGTAATATG
1 GTATGCATGTAATATG
44268459 ATTAGCGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (17 bp):
GTATGCATGTAATATGG
Found at i:44275644 original size:20 final size:20
Alignment explanation
Indices: 44275619--44275661 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44275609 CTTTCCCTCC
*
44275619 TTCTTCCTTTTGTTTATTTT
1 TTCTTCCTTTTCTTTATTTT
* *
44275639 TTCTTCTTTTTCTTTCTTTT
1 TTCTTCCTTTTCTTTATTTT
44275659 TTC
1 TTC
44275662 CTTTTTAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (20 bp):
TTCTTCCTTTTCTTTATTTT
Found at i:44280007 original size:16 final size:16
Alignment explanation
Indices: 44279988--44280019 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44279978 AAATGAATAC
*
44279988 ATGTGCAAATGTGATA
1 ATGTGCAAATATGATA
44280004 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
44280020 TTTTGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:44281335 original size:30 final size:30
Alignment explanation
Indices: 44281299--44281364 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
44281289 CTACACAGCC
44281299 AGACACACAGGCATGTGACTTGGTAGTGTG
1 AGACACACAGGCATGTGACTTGGTAGTGTG
** *
44281329 AGACACACAGGTGTGTGACTTGGTGGTGTG
1 AGACACACAGGCATGTGACTTGGTAGTGTG
44281359 AGACAC
1 AGACAC
44281365 GCGGCTAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.23
Consensus pattern (30 bp):
AGACACACAGGCATGTGACTTGGTAGTGTG
Found at i:44285600 original size:19 final size:19
Alignment explanation
Indices: 44285548--44285601 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
44285538 GCGCTAACGC
* *
44285548 GCCAGGATGCACTTCATGT
1 GCCAGTATGCACTTTATGT
*
44285567 GCCAGTATGCACTTTGTGT
1 GCCAGTATGCACTTTATGT
44285586 GCCAGTATGCACTTTA
1 GCCAGTATGCACTTTA
44285602 CATGCTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (19 bp):
GCCAGTATGCACTTTATGT
Found at i:44296285 original size:7 final size:8
Alignment explanation
Indices: 44296267--44296301 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
44296257 TAGACATGGA
44296267 TTTAATTT
1 TTTAATTT
44296275 TTTAATTT
1 TTTAATTT
*
44296283 TTAAATTT
1 TTTAATTT
44296291 TTTAATTT
1 TTTAATTT
44296299 TTT
1 TTT
44296302 TATTATAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTAATTT
Found at i:44297597 original size:16 final size:15
Alignment explanation
Indices: 44297576--44297618 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
44297566 AATAACTTTT
44297576 AAAAGTTACCTAACAA
1 AAAAGTT-CCTAACAA
* *
44297592 AAAAGTTTCTAATAA
1 AAAAGTTCCTAACAA
*
44297607 AAAAGTTTCTAA
1 AAAAGTTCCTAA
44297619 TAGTCGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (15 bp):
AAAAGTTCCTAACAA
Found at i:44297619 original size:15 final size:15
Alignment explanation
Indices: 44297585--44297620 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
44297575 TAAAAGTTAC
*
44297585 CTAACAAAAAAGTTT
1 CTAATAAAAAAGTTT
44297600 CTAATAAAAAAGTTT
1 CTAATAAAAAAGTTT
44297615 CTAATA
1 CTAATA
44297621 GTCGAATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (15 bp):
CTAATAAAAAAGTTT
Found at i:44299504 original size:18 final size:18
Alignment explanation
Indices: 44299483--44299517 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44299473 AATAAATACT
*
44299483 ATTTACTAAATTAATTTA
1 ATTTAATAAATTAATTTA
*
44299501 ATTTAATTAATTAATTT
1 ATTTAATAAATTAATTT
44299518 TCCAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAATAAATTAATTTA
Found at i:44302752 original size:47 final size:47
Alignment explanation
Indices: 44302699--44303497 Score: 1274
Period size: 47 Copynumber: 16.7 Consensus size: 47
44302689 TTAGGATTCT
44302699 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44302746 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
44302795 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44302842 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
44302891 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCG
* * *
44302942 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44302989 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
44303038 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44303085 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
44303134 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44303181 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44303228 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44303275 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44303322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44303369 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
44303416 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
44303463 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44303498 TCCCGAAGGG
Statistics
Matches: 708, Mismatches: 34, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
47 482 0.68
49 177 0.25
51 49 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:44303234 original size:94 final size:94
Alignment explanation
Indices: 44302699--44303497 Score: 1274
Period size: 96 Copynumber: 8.4 Consensus size: 94
44302689 TTAGGATTCT
44302699 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
44302764 TGTATATATATGTGATAAGGCCGAATAGCCG
66 TG--TATATATGTGATAAGGCCGAATGGCCG
* *
44302795 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
44302860 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCGAATGGCCG
44302891 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
44302956 AAAGTGTGTATATGTGATAAGGCCGAATGGCCA
62 AAAGTGTATATATGTGATAAGGCCGAATGGCCG
*
44302989 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44303054 AGTGTATATATGTGATAAGGCCGAATGGCCA
64 AGTGTATATATGTGATAAGGCCGAATGGCCG
*
44303085 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44303150 AGTGTATATATGTGATAAGGCCTAATAGCCG
64 AGTGTATATATGTGATAAGGCCGAATGGCCG
* *
44303181 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
44303246 TGTATATATGTGATAAGGCCTAATAGCCG
66 TGTATATATGTGATAAGGCCGAATGGCCG
*
44303275 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
44303340 TGTATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCGAATGGCCG
44303369 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * *
44303434 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGTGATAAGGCCGAATGGCCG
* * *
44303463 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44303498 TCCCGAAGGG
Statistics
Matches: 668, Mismatches: 31, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
94 283 0.42
96 296 0.44
98 44 0.07
100 45 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCGAATGGCCG
Found at i:44303666 original size:37 final size:37
Alignment explanation
Indices: 44303616--44303716 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
44303606 CCGAGCTCTA
44303616 AAGACCCGATGACTACGTGTGGAGATTATGTCCCGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCCGGT
*
44303653 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCCGGT
*
44303690 AAGACCCGATGACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
44303717 TCGTCTGAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCCGGT
Found at i:44314095 original size:289 final size:289
Alignment explanation
Indices: 44313606--44314140 Score: 910
Period size: 289 Copynumber: 1.9 Consensus size: 289
44313596 TTAAAACGCC
* * * * *
44313606 TGTTTCAATGGTTACAAATTAATTTTAAGGGACTAGATATCATTTAAAACTCATAGTAAGTCGAA
1 TGTTTCAATGGCTACAAATTAAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAAGTCGAA
* * * *
44313671 TGGTTACCTTCGATGGAAGAAAAATGAGCTTTGATGCAAATCTAGAAAAAGCCACGTTTGGAGAA
66 TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCAGAAAAAACCACGTTTGGAGAA
* *
44313736 GATGATGTAGATGATGAAGTTTTTAGTTGATTTTCTTGGTTTTTATAGAGGTTTATAACTTAAGA
131 GATGATGTAGATGATGAAGTTTTTAGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAGA
*
44313801 GATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTTAAAATTGATTGAAATAGCAATTAAACGA
196 GATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAATAGCAATTAAACGA
44313866 TCCAATTTTTAGATTTTAATTTAAAGATT
261 TCCAATTTTTAGATTTTAATTTAAAGATT
* * *
44313895 TGTTTCAATGGCTACAAATTTAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAATTTGAA
1 TGTTTCAATGGCTACAAATTAAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAAGTCGAA
44313960 TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCA-AAAAAACTCACGTTTGGAGA
66 TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCAGAAAAAAC-CACGTTTGGAGA
*
44314024 AGATGATGTAGATGATGAAGTTTTTGGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAG
130 AGATGATGTAGATGATGAAGTTTTTAGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAG
44314089 AGATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAA
195 AGATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAA
44314141 CAGTAAGAGA
Statistics
Matches: 229, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
288 6 0.03
289 223 0.97
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (289 bp):
TGTTTCAATGGCTACAAATTAAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAAGTCGAA
TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCAGAAAAAACCACGTTTGGAGAA
GATGATGTAGATGATGAAGTTTTTAGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAGA
GATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAATAGCAATTAAACGA
TCCAATTTTTAGATTTTAATTTAAAGATT
Found at i:44316371 original size:16 final size:16
Alignment explanation
Indices: 44316352--44316386 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44316342 CATATAATAA
*
44316352 ATTATATTAATAATTT
1 ATTATATTAATAAGTT
*
44316368 ATTATTTTAATAAGTT
1 ATTATATTAATAAGTT
44316384 ATT
1 ATT
44316387 TAATATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTATATTAATAAGTT
Found at i:44316494 original size:15 final size:15
Alignment explanation
Indices: 44316474--44316530 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44316464 ATTCAATATT
44316474 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44316489 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
44316508 AATATATTAATAATA
1 AATATTTTAATAATA
*
44316523 AATGTTTT
1 AATATTTT
44316531 GTAGTAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44318371 original size:610 final size:610
Alignment explanation
Indices: 44317206--44318425 Score: 2037
Period size: 610 Copynumber: 2.0 Consensus size: 610
44317196 TGGCAAACTC
**
44317206 TAGTATATTTAAATAAGGTTGTTGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
1 TAGTATATTTAAATAAGGTTGTCATCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
*
44317271 TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTCTTCTCCCTATAAATAGATGACACCGG
66 TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTATTCTCCCTATAAATAGATGACACCGG
* * *
44317336 TAGAACTAAATACACAATTTTAAGATATTGTTATTCTGCTCGAAAATAGTGAGAATTTATTTTCT
131 TAAAACTAAATACACAATTTTAAGATATTGTTATTCTGCCCGAAAACAGTGAGAATTTATTTTCT
* * * *
44317401 AAGTATAAATTATGATTTCCGTAATAGCAATTCTATTGGTTTCTATTAAAGAGAATTTATTTTTC
196 AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAATTTATTTTTC
* * * *
44317466 CTATTGAAAGTAAAGTAAATTATTTCTGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
261 CTACTAAAAGTAAAGTAAATAATTTATGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
* *
44317531 CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAAACCGTTTGGTTAAAAGCCAAGAATGACAAGG
326 CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAAACAGTTTAGTTAAAAGCCAAGAATGACAAGG
* *
44317596 ATCCGTTTAGTCAAAAACTCATTTGCAATTTCGAGAAATGTTTACTGCTATAAATATCACAAACC
391 ATCCGTCTAGTCAAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAACC
* *
44317661 AACTTAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTTGAACCAGATTTTTTC
456 AACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTTC
44317726 CAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGTC
521 CAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGTC
44317791 TTGTTTTGGGACCTTCTCCCACTGA
586 TTGTTTTGGGACCTTCTCCCACTGA
* *
44317816 TAGTATATTTAACTAAGGTTGTCATCCCTCTCTCTCCTAGTTAAACTAGGATTTTGTTTTTCTAT
1 TAGTATATTTAAATAAGGTTGTCATCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
* * * *
44317881 TTAAATAGGTTTCTACTAACTCAACTAGGGTTTTACTTATTCTCCCTATAAATAGATGACACCGG
66 TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTATTCTCCCTATAAATAGATGACACCGG
*
44317946 TAAAACTAAATACACAATTTTGAGATATTGTTATTCTGCCCGAAAACAGTGAGAATTTATTTTCT
131 TAAAACTAAATACACAATTTTAAGATATTGTTATTCTGCCCGAAAACAGTGAGAATTTATTTTCT
*
44318011 AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAGTTTATTTTTC
196 AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAATTTATTTTTC
* *
44318076 CTACTAAAAGTAAAGTAAATAATTTATGCTTCTGTATTTGATTTGAATTCGTTCGATCCCACACT
261 CTACTAAAAGTAAAGTAAATAATTTATGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
**
44318141 CGAAGAGGTTCATGGTAGGAGAATAGTGGAG-AAGACAGTTTAGTTAAAAGCCAAGAATGACAAG
326 CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAA-ACAGTTTAGTTAAAAGCCAAGAATGACAAG
* ** * * *
44318205 GATTCGTCTAGTTGAAAACTTATTTGCAATTTTGAGAAAAGTTTATTGCTATAAATATCACAAAC
390 GATCCGTCTAGTCAAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAAC
* *
44318270 CAACTCAGTTTTCAAAATTTTAATTTTTCGCTGTGCAAGAAAATCATTTTCGAACCAGATTTTTT
455 CAACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTT
* * *
44318335 CCAGCAAAATTGACTTGAAACATTATCATTCCATTGCACAAAGAGCATTAATGGATGTTGTAGGT
520 CCAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGT
44318400 CTTGTTTTGGGACCTTCTCCCACTGA
585 CTTGTTTTGGGACCTTCTCCCACTGA
44318426 ATATTTTAAA
Statistics
Matches: 566, Mismatches: 43, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
609 2 0.00
610 564 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (610 bp):
TAGTATATTTAAATAAGGTTGTCATCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTATTCTCCCTATAAATAGATGACACCGG
TAAAACTAAATACACAATTTTAAGATATTGTTATTCTGCCCGAAAACAGTGAGAATTTATTTTCT
AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAATTTATTTTTC
CTACTAAAAGTAAAGTAAATAATTTATGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAAACAGTTTAGTTAAAAGCCAAGAATGACAAGG
ATCCGTCTAGTCAAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAACC
AACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTTC
CAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGTC
TTGTTTTGGGACCTTCTCCCACTGA
Found at i:44319447 original size:36 final size:36
Alignment explanation
Indices: 44319400--44319472 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
44319390 AAGGGGTTGG
44319400 ACGGTTTTGACAGATTTATTTAAGAGCTAATTTCTA
1 ACGGTTTTGACAGATTTATTTAAGAGCTAATTTCTA
44319436 ACGGTTTTGACAGATTTATTTAAGAGCTAATTTCTA
1 ACGGTTTTGACAGATTTATTTAAGAGCTAATTTCTA
44319472 A
1 A
44319473 TTTTCTTCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (36 bp):
ACGGTTTTGACAGATTTATTTAAGAGCTAATTTCTA
Found at i:44321775 original size:26 final size:26
Alignment explanation
Indices: 44321745--44321815 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
44321735 GGTCTTTGAA
44321745 ACAAGTAGATGTTGCCCAATTTTGGC
1 ACAAGTAGATGTTGCCCAATTTTGGC
44321771 ACAAGTAGATGTTGCCCAATTTTGGC
1 ACAAGTAGATGTTGCCCAATTTTGGC
* *
44321797 ATAAGTAGATGCTGCCCAA
1 ACAAGTAGATGTTGCCCAA
44321816 AAATATTAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
ACAAGTAGATGTTGCCCAATTTTGGC
Found at i:44333581 original size:19 final size:19
Alignment explanation
Indices: 44333559--44333608 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
44333549 ATTAATTTTA
44333559 AATTTTTATTTTTAACT-TT
1 AATTTTTATTTTTAA-TGTT
*
44333578 AATTTATATTTTTAATGTT
1 AATTTTTATTTTTAATGTT
44333597 AA-TTTTATTTTT
1 AATTTTTATTTTT
44333609 TTATGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
AATTTTTATTTTTAATGTT
Found at i:44333609 original size:19 final size:19
Alignment explanation
Indices: 44333562--44333615 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
44333552 AATTTTAAAT
44333562 TTTTA-TTTTTAACT-TTAA
1 TTTTATTTTTTAA-TGTTAA
44333580 -TTTATATTTTTAATGTTAA
1 TTTTAT-TTTTTAATGTTAA
*
44333599 TTTTATTTTTTTATGTT
1 TTTTATTTTTTAATGTT
44333616 GAATAAAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 21 0.68
20 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTATTTTTTAATGTTAA
Found at i:44339602 original size:38 final size:37
Alignment explanation
Indices: 44339549--44339642 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 37
44339539 TGAGATTTGA
* * *
44339549 TTGCATGTTAAACATGGCCTACATGACATAATCCGAT
1 TTGCATGTAAAACATGCCCTACATGACATAATCCAAT
* * *
44339586 TTGCATGCTAAAACATGCCCTACATGATATTATTCAAT
1 TTGCATG-TAAAACATGCCCTACATGACATAATCCAAT
**
44339624 TTGCATGTTCAACATGCCC
1 TTGCATGTAAAACATGCCC
44339643 AATGTGACAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 17 0.35
38 31 0.65
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (37 bp):
TTGCATGTAAAACATGCCCTACATGACATAATCCAAT
Found at i:44346355 original size:17 final size:17
Alignment explanation
Indices: 44346333--44346368 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
44346323 ATTTGACTTG
44346333 TAAATATTAAATAATAA
1 TAAATATTAAATAATAA
44346350 TAAATATTAAATAATAA
1 TAAATATTAAATAATAA
44346367 TA
1 TA
44346369 TTTATGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATATTAAATAATAA
Done.