Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 195 of 235
Found at i:66437219 original size:20 final size:20
Alignment explanation
Indices: 66437194--66437235 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
66437184 ATTTAAACAT
*
66437194 AGAAACTTATAAATTAATAA
1 AGAAACTCATAAATTAATAA
**
66437214 AGAAACTCATACGTTAATAA
1 AGAAACTCATAAATTAATAA
66437234 AG
1 AG
66437236 CATTAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
AGAAACTCATAAATTAATAA
Found at i:66443383 original size:55 final size:54
Alignment explanation
Indices: 66443284--66443405 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 54
66443274 ACAATTAGCC
** *
66443284 CACGCCCGTGTTAATCTAACAGGTTTGACCACGGTTACTTGGCACGGGCGTGTCA
1 CACG-CCGTGTTAATCTAACAGGTTTGACCACGGTTACAAGGCACAGGCGTGTCA
* * * * * * *
66443339 CACGTCCGTGTTAATTTGACAGGTTTGGCCATGGTTTCAAGGCACAGGTGTGTCT
1 CACG-CCGTGTTAATCTAACAGGTTTGACCACGGTTACAAGGCACAGGCGTGTCA
66443394 CACGCCTGTGTT
1 CACGCC-GTGTT
66443406 GTTTTGGTAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.04
55 53 0.96
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (54 bp):
CACGCCGTGTTAATCTAACAGGTTTGACCACGGTTACAAGGCACAGGCGTGTCA
Found at i:66443740 original size:58 final size:57
Alignment explanation
Indices: 66443671--66443785 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 57
66443661 CCTCTCCATT
*
66443671 GAATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTGCTGTGGATTTCATC
1 GAATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTGCTGTGAATTTCATC
*
66443728 NGAATGGTCATGGTGGTTCGAGGAGTTTATAGTCCTCATTCCTGCTGTGAATTTCATC
1 -GAATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTGCTGTGAATTTCATC
66443786 AAAATAAGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (57 bp):
GAATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTGCTGTGAATTTCATC
Found at i:66449271 original size:68 final size:69
Alignment explanation
Indices: 66449199--66449346 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 69
66449189 CATCATGTGT
* * * *
66449199 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
66449261 ATGTAG
64 ATGTAG
* ** * *
66449267 ACAAGAGAGC--CACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
66449330 GTAG
66 GTAG
66449334 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
66449347 GAGATAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 20 0.30
65 7 0.11
66 6 0.09
67 22 0.33
68 10 0.15
69 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.21
Consensus pattern (69 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
GTAG
Found at i:66449303 original size:64 final size:64
Alignment explanation
Indices: 66449223--66449407 Score: 187
Period size: 67 Copynumber: 2.9 Consensus size: 64
66449213 AGACATTATG
* *
66449223 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCCACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
* * * * * * *
66449287 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCCACGAGAT
66449352 AA
63 AA
* * * *
66449354 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCC
66449408 GAACTATATG
Statistics
Matches: 97, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
Found at i:66455692 original size:49 final size:48
Alignment explanation
Indices: 66455635--66455829 Score: 264
Period size: 49 Copynumber: 4.0 Consensus size: 48
66455625 TAGCCGAAGC
* *
66455635 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* *
66455683 TAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAA
* * *
66455734 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* *
66455783 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
66455830 TCACAATAGT
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 80 0.62
50 7 0.05
51 40 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:66455789 original size:100 final size:100
Alignment explanation
Indices: 66455640--66455827 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
66455630 GAAGCTATCT
66455640 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
*
66455705 TGCACTTAGTACTACACATGTGATCACAGTTTTTG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
* *
66455740 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
66455805 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
66455828 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:66457921 original size:20 final size:20
Alignment explanation
Indices: 66457896--66457935 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
66457886 TCAACCATCC
66457896 AATCATTCATTTCATTCAAT
1 AATCATTCATTTCATTCAAT
66457916 AATCATTCATTTCATTCAAT
1 AATCATTCATTTCATTCAAT
66457936 TTAATCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (20 bp):
AATCATTCATTTCATTCAAT
Found at i:66460225 original size:6 final size:6
Alignment explanation
Indices: 66460214--66460238 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
66460204 TATTCGAAAT
66460214 TCAGAA TCAGAA TCAGAA TCAGAA T
1 TCAGAA TCAGAA TCAGAA TCAGAA T
66460239 TACACTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TCAGAA
Found at i:66462766 original size:27 final size:27
Alignment explanation
Indices: 66462732--66462870 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
66462722 TGGATAAGTT
66462732 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAAG
*
66462759 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAAG
**
66462786 GTAGAATTTTTGAAATACCCCTGT-AG
1 GTAGAATTACTGAAATACCCCTGTAAG
** * *
66462812 GATAGAATTACCAAAATACCCTTGTAGG
1 G-TAGAATTACTGAAATACCCCTGTAAG
* *
66462840 GTAGAAATACTGAAATACCCTTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAAG
66462867 GTAG
1 GTAG
66462871 CACTACCGAT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.02
27 92 0.96
28 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAAG
Found at i:66462886 original size:54 final size:54
Alignment explanation
Indices: 66462732--66462896 Score: 206
Period size: 54 Copynumber: 3.1 Consensus size: 54
66462722 TGGATAAGTT
*
66462732 GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
** * *
66462786 GTAGAATTTTTGAAATACCCCTGT-AGGATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCCTGTAGG
* * * * ** *
66462840 GTAGAAATACTGAAATACCCTTGTAAGGTAGCACTACCGATTTACCCCTGGAGG
1 GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
66462894 GTA
1 GTA
66462897 AAACGACTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.03
54 87 0.94
55 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (54 bp):
GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:66462886 original size:81 final size:81
Alignment explanation
Indices: 66462733--66462889 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
66462723 GGATAAGTTG
** * * * ***
66462733 TAGAATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTTTTG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACTGAAATACCCCTGTAAGGTAGAACTACCG
66462798 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
* * * *
66462814 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCTTGTAAGGTAGCACTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACTGAAATACCCCTGTAAGGTAGAACTACCG
**
66462879 ATTTACCCCTG
66 AAATACCCCTG
66462890 GAGGGTAAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACTGAAATACCCCTGTAAGGTAGAACTACCG
AAATACCCCTGTAGGA
Found at i:66463267 original size:8 final size:8
Alignment explanation
Indices: 66463254--66463282 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
66463244 GGCCGAAAAC
66463254 GGGCCAAT
1 GGGCCAAT
66463262 GGGCCAAT
1 GGGCCAAT
66463270 GGGCCAAT
1 GGGCCAAT
66463278 GGGCC
1 GGGCC
66463283 CACTTTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.41, T:0.10
Consensus pattern (8 bp):
GGGCCAAT
Found at i:66470348 original size:27 final size:27
Alignment explanation
Indices: 66470314--66470452 Score: 199
Period size: 27 Copynumber: 5.1 Consensus size: 27
66470304 TGGATAAGTT
*
66470314 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGTAGG
66470341 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
*
66470368 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* * *
66470395 ATAGAATTA-CTGAAATACCCTTATAGG
1 GTAGAATTATC-GAAATACCCCTGTAGG
* *
66470422 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
66470449 GTAG
1 GTAG
66470453 CACTACCGAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
27 99 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAGG
Found at i:66470459 original size:27 final size:27
Alignment explanation
Indices: 66470314--66470478 Score: 195
Period size: 27 Copynumber: 6.1 Consensus size: 27
66470304 TGGATAAGTT
* *
66470314 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
66470341 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
66470368 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
66470395 ATAGAATTACTGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
66470422 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * ** *
66470449 GTAGCACTACCGATTTACCCCTGAAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
66470476 GTA
1 GTA
66470479 AAATGACTAT
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:66471155 original size:27 final size:26
Alignment explanation
Indices: 66471111--66471162 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
66471101 CTCGCTGCAA
*
66471111 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
66471138 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
66471163 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:66475242 original size:20 final size:20
Alignment explanation
Indices: 66475217--66475254 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
66475207 AACCATTCAA
66475217 TCATTCATTTCATTCAATAG
1 TCATTCATTTCATTCAATAG
66475237 TCATTCATTTCATTCAAT
1 TCATTCATTTCATTCAAT
66475255 TTAATCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (20 bp):
TCATTCATTTCATTCAATAG
Found at i:66476591 original size:19 final size:19
Alignment explanation
Indices: 66476546--66476583 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
66476536 GAAATACATT
66476546 AAGTTGGCCTTGGGCCATG
1 AAGTTGGCCTTGGGCCATG
66476565 AAGTTGGCCTTGGGCCATG
1 AAGTTGGCCTTGGGCCATG
66476584 GTATTGGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.26
Consensus pattern (19 bp):
AAGTTGGCCTTGGGCCATG
Found at i:66490623 original size:45 final size:46
Alignment explanation
Indices: 66490519--66490623 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 46
66490509 TAGCTTAAGA
* * *
66490519 TCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGG
1 TCGAATGGCCAATGTGATGAATGTGAAAG-GTGAAAATGTGATAAAG
* *
66490566 CCGAATGGCCAATGTGAT-ATATGTGTAA-GTGAAAATGTGATAAAG
1 TCGAATGGCCAATGTGATGA-ATGTGAAAGGTGAAAATGTGATAAAG
*
66490611 TCGAATGACCAAT
1 TCGAATGGCCAAT
66490624 TATGAAAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 25 0.50
46 1 0.02
47 24 0.48
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (46 bp):
TCGAATGGCCAATGTGATGAATGTGAAAGGTGAAAATGTGATAAAG
Found at i:66493380 original size:40 final size:40
Alignment explanation
Indices: 66493325--66493589 Score: 372
Period size: 40 Copynumber: 6.9 Consensus size: 40
66493315 CTCGCCGATG
*
66493325 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
66493365 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
66493405 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
66493445 ATCCAGGCTAATTCCCGAAGAGCATTCATGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
66493485 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT-G-G----
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
66493519 A-----GTTAAGTCCCGAAGAGCATTTGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
66493554 ATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
66493590 ATGTGTATTC
Statistics
Matches: 199, Mismatches: 15, Indels: 22
0.84 0.06 0.09
Matches are distributed among these distances:
29 23 0.12
30 1 0.01
31 1 0.01
34 1 0.01
35 1 0.01
38 1 0.01
39 1 0.01
40 170 0.85
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:66493535 original size:29 final size:29
Alignment explanation
Indices: 66493493--66493552 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
66493483 ATATCCGGGC
*
66493493 TAAGTCTCGAAGAGCATTCGTGCTGGAGT
1 TAAGTCCCGAAGAGCATTCGTGCTGGAGT
* *
66493522 TAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TAAGTCCCGAAGAGCATTCGTGCTGGAGT
66493551 TA
1 TA
66493553 TATCCGGGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (29 bp):
TAAGTCCCGAAGAGCATTCGTGCTGGAGT
Found at i:66493573 original size:69 final size:69
Alignment explanation
Indices: 66493457--66493587 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
66493447 CCAGGCTAAT
* *
66493457 TCCCGAAGAGCATTCATGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGT
1 TCCCGAAGAGCATTCATGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGAGT
66493522 TAAG
66 TAAG
** *
66493526 TCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGG
1 TCCCGAAGAGCATTCATGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGG
66493588 TGATGTGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (69 bp):
TCCCGAAGAGCATTCATGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGAGT
TAAG
Found at i:66493803 original size:25 final size:25
Alignment explanation
Indices: 66493753--66493803 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
66493743 TGTGTAACAA
* *
66493753 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
66493778 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
66493803 C
1 C
66493804 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:66499858 original size:12 final size:12
Alignment explanation
Indices: 66499841--66499868 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
66499831 TTGGTTATTG
66499841 CTGTAGCAGCTT
1 CTGTAGCAGCTT
66499853 CTGTAGCAGCTT
1 CTGTAGCAGCTT
66499865 CTGT
1 CTGT
66499869 TTTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (12 bp):
CTGTAGCAGCTT
Found at i:66507613 original size:18 final size:18
Alignment explanation
Indices: 66507590--66507636 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
66507580 TGTGGCCTGC
66507590 CCGTGTGGCCCCACACAT
1 CCGTGTGGCCCCACACAT
*
66507608 CCGTGTGGCGCCACACAT
1 CCGTGTGGCCCCACACAT
*
66507626 CCGTATGGCCC
1 CCGTGTGGCCC
66507637 ACAGGGCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.15, C:0.43, G:0.26, T:0.17
Consensus pattern (18 bp):
CCGTGTGGCCCCACACAT
Found at i:66513757 original size:38 final size:38
Alignment explanation
Indices: 66513707--66513802 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 38
66513697 CTAACTCCGT
* **
66513707 CCAACCCA-ACACACCATGTGGGGATAAAATTGACCCAC
1 CCAA-CCATACACACCATATGGGGATAAAATCAACCCAC
* *
66513745 CCATCCATACACACCAAATATGGGGATAAAATCAACCCAT
1 CCAACCATACACACC--ATATGGGGATAAAATCAACCCAC
*
66513785 CCAACCCTACACACCATA
1 CCAACCATACACACCATA
66513803 GTGTACCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 3 0.06
38 13 0.27
40 32 0.67
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (38 bp):
CCAACCATACACACCATATGGGGATAAAATCAACCCAC
Found at i:66513772 original size:40 final size:40
Alignment explanation
Indices: 66513725--66513800 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
66513715 ACACACCATG
** *
66513725 TGGGGATAAAATTGACCCACCCATCCATACACACCAAATA
1 TGGGGATAAAATCAACCCACCCAACCATACACACCAAATA
* *
66513765 TGGGGATAAAATCAACCCATCCAACCCTACACACCA
1 TGGGGATAAAATCAACCCACCCAACCATACACACCA
66513801 TAGTGTACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCATACACACCAAATA
Found at i:66515859 original size:27 final size:27
Alignment explanation
Indices: 66515825--66515881 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
66515815 AAATTTTAAC
*
66515825 TTTAAAATT-AAATATAAAAATTAATGAA
1 TTTAAATTTAAAAT-TAAAAA-TAATGAA
*
66515853 TTTAAATTTAAAATTTAAAATAATGAA
1 TTTAAATTTAAAATTAAAAATAATGAA
66515880 TT
1 TT
66515882 AATAACTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 13 0.50
29 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (27 bp):
TTTAAATTTAAAATTAAAAATAATGAA
Found at i:66515863 original size:34 final size:35
Alignment explanation
Indices: 66515819--66515884 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
66515809 CTATGAAAAT
*
66515819 TTTAACTTTAAAA-TTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAATTTAAA-ATAATAAATTAATGAA
*
66515853 TTTAAATTTAAAATTTAAAATAATGAATTAAT
1 TTTAAATTTAAAATTTAAAATAATAAATTAAT
66515885 AACTCAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (35 bp):
TTTAAATTTAAAATTTAAAATAATAAATTAATGAA
Found at i:66516273 original size:13 final size:14
Alignment explanation
Indices: 66516240--66516283 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
66516230 CTAAATTTAA
66516240 AATTATAAAAATA-
1 AATTATAAAAATAT
**
66516253 AAAAATAAAAA-AT
1 AATTATAAAAATAT
66516266 AATTATAAAAATAT
1 AATTATAAAAATAT
66516280 AATT
1 AATT
66516284 TAACATAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTATAAAAATAT
Found at i:66516350 original size:12 final size:12
Alignment explanation
Indices: 66516329--66516368 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
66516319 TAAAATTATA
*
66516329 AAAATAAAAAAT
1 AAAATAAAAATT
*
66516341 AAAATCAAAATT
1 AAAATAAAAATT
*
66516353 AAAATTAAAATT
1 AAAATAAAAATT
66516365 AAAA
1 AAAA
66516369 ATTTAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:66516356 original size:18 final size:18
Alignment explanation
Indices: 66516329--66516368 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66516319 TAAAATTATA
66516329 AAAATAAAAAATAAAATC
1 AAAATAAAAAATAAAATC
* * *
66516347 AAAATTAAAATTAAAATT
1 AAAATAAAAAATAAAATC
66516365 AAAA
1 AAAA
66516369 ATTTAAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATAAAAAATAAAATC
Found at i:66520077 original size:21 final size:21
Alignment explanation
Indices: 66520051--66520105 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
66520041 AACAGCGGTG
*
66520051 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
66520072 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
66520093 GCGGTGAGATTAG
1 GCGGTGAGATTAG
66520106 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:66520221 original size:32 final size:32
Alignment explanation
Indices: 66520185--66520313 Score: 258
Period size: 32 Copynumber: 4.0 Consensus size: 32
66520175 ATTAAGGACA
66520185 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
66520217 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
66520249 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
66520281 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
66520313 T
1 T
66520314 TAAATTATTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 97 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (32 bp):
TCATATTAGAATTGATATATAATAGAAGTTAT
Found at i:66520226 original size:16 final size:16
Alignment explanation
Indices: 66520191--66520307 Score: 111
Period size: 16 Copynumber: 7.3 Consensus size: 16
66520181 GACATCATAT
66520191 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
66520207 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
66520223 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
66520239 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
66520255 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
66520271 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
66520287 TAGAATTGATATATAA
1 TAGAATTGATATATAA
66520303 TAGAA
1 TAGAA
66520308 GTTATTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
15 9 0.11
16 65 0.78
17 9 0.11
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (16 bp):
TAGAATTGATATATAA
Found at i:66520854 original size:29 final size:29
Alignment explanation
Indices: 66520796--66521090 Score: 481
Period size: 29 Copynumber: 10.2 Consensus size: 29
66520786 GAATAAACCG
66520796 AATACAGTACATATATTTTTTTATTTTTAA
1 AATACAGTACATATA-TTTTTTATTTTTAA
*
66520826 AATACACTACATATATTTTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
66520855 AATACAGTACATATATTTTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
* *
66520884 AATACACTAAATATATTTTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
*
66520913 AATACACTACATATATTTTTTTATTTTT-A
1 AATACAGTACATATA-TTTTTTATTTTTAA
66520942 AATACAGTACATATATTTTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
66520971 AATACAGTACATATATTTTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
66521000 AATACAGTACATATATTTTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
*
66521029 AATACAGTAC--ATA-TCTTTATTTTTAA
1 AATACAGTACATATATTTTTTATTTTTAA
*
66521055 AATACATTACATATATTTTTTTATTTTTAA
1 AATACAGTACATATA-TTTTTTATTTTTAA
66521085 AATACA
1 AATACA
66521091 CAAATACAAT
Statistics
Matches: 250, Mismatches: 9, Indels: 12
0.92 0.03 0.04
Matches are distributed among these distances:
26 21 0.08
27 3 0.01
28 15 0.06
29 167 0.67
30 44 0.18
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (29 bp):
AATACAGTACATATATTTTTTATTTTTAA
Found at i:66521173 original size:7 final size:7
Alignment explanation
Indices: 66521161--66521239 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
66521151 CGTGCCCTCC
66521161 TCCCATT
1 TCCCATT
66521168 TCCCA-T
1 TCCCATT
66521174 TCCCATT
1 TCCCATT
*
66521181 TCCCCTCT
1 TCCCAT-T
66521189 T-CCATCGAT
1 TCCCAT---T
* *
66521198 TCCCCTCC
1 TCCCAT-T
66521206 TCCCATT
1 TCCCATT
66521213 TCCCA-T
1 TCCCATT
66521219 TCCCATT
1 TCCCATT
66521226 TCCCA-T
1 TCCCATT
66521232 TCCCATT
1 TCCCATT
66521239 T
1 T
66521240 ACGGTTGCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
6 18 0.32
7 27 0.47
8 7 0.12
9 2 0.04
10 3 0.05
ACGTcount: A:0.13, C:0.48, G:0.01, T:0.38
Consensus pattern (7 bp):
TCCCATT
Found at i:66521179 original size:13 final size:13
Alignment explanation
Indices: 66521161--66521239 Score: 77
Period size: 13 Copynumber: 5.6 Consensus size: 13
66521151 CGTGCCCTCC
66521161 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
66521174 TCCCATTTCCCCT
1 TCCCATTTCCCAT
* *
66521187 CTTCCATCGATTCCCCT
1 -TCCCAT---TTCCCAT
66521204 CCTCCCATTTCCCAT
1 --TCCCATTTCCCAT
66521219 TCCCATTTCCCAT
1 TCCCATTTCCCAT
66521232 TCCCATTT
1 TCCCATTT
66521240 ACGGTTGCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
13 33 0.58
14 5 0.09
15 6 0.11
17 7 0.12
18 6 0.11
ACGTcount: A:0.13, C:0.48, G:0.01, T:0.38
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:66521198 original size:60 final size:57
Alignment explanation
Indices: 66521104--66521239 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 57
66521094 ATACAATGCA
* * *
66521104 ATTTCCCCATTCCCATCTTCCCTTTTCCATCGATTCCCCTCTTCCACCGTGCCC-TCCTCCC
1 ATTT-CCCATTCCCAT-TTCCCTCTTCCATCGATTCCCCTCCTCC-CAGTGCCCAT--TCCC
* *
66521165 ATTTCCCATTCCCATTTCCCCTCTTCCATCGATTCCCCTCCTCCCATTTCCCATTCCC
1 ATTTCCCATTCCCATTT-CCCTCTTCCATCGATTCCCCTCCTCCCAGTGCCCATTCCC
66521223 ATTTCCCATTCCCATTT
1 ATTTCCCATTCCCATTT
66521240 ACGGTTGCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
58 21 0.31
59 7 0.10
60 36 0.53
61 4 0.06
ACGTcount: A:0.12, C:0.49, G:0.03, T:0.37
Consensus pattern (57 bp):
ATTTCCCATTCCCATTTCCCTCTTCCATCGATTCCCCTCCTCCCAGTGCCCATTCCC
Found at i:66521212 original size:45 final size:43
Alignment explanation
Indices: 66521137--66521229 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 43
66521127 TTTCCATCGA
*
66521137 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTCCCAT
*
66521180 TTCCCCTCTTCCATCGATTCCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCG--TCCCCTCCTCCCATTTCCCATTCCCAT
66521225 TTCCC
1 TTCCC
66521230 ATTCCCATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 15 0.33
45 31 0.67
ACGTcount: A:0.10, C:0.53, G:0.03, T:0.34
Consensus pattern (43 bp):
TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTCCCAT
Found at i:66521916 original size:17 final size:17
Alignment explanation
Indices: 66521894--66521931 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
66521884 CTAAGAAACA
66521894 GAGAAAGTAAATCGTGG
1 GAGAAAGTAAATCGTGG
66521911 GAGAAAGTAAATCGTGG
1 GAGAAAGTAAATCGTGG
66521928 GAGA
1 GAGA
66521932 CGATATTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.37, T:0.16
Consensus pattern (17 bp):
GAGAAAGTAAATCGTGG
Found at i:66522412 original size:6 final size:7
Alignment explanation
Indices: 66522381--66522424 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
66522371 TAGGATTGCA
66522381 ATTTTCC
1 ATTTTCC
66522388 ATTTTCC
1 ATTTTCC
66522395 ATTTTCC
1 ATTTTCC
66522402 ATTTT-C
1 ATTTTCC
66522408 ATTTT--
1 ATTTTCC
*
66522413 AATTTCC
1 ATTTTCC
66522420 ATTTT
1 ATTTT
66522425 TTGGAACCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 4 0.12
6 6 0.18
7 23 0.70
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTTCC
Found at i:66524388 original size:33 final size:35
Alignment explanation
Indices: 66524351--66524447 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
66524341 ATGGTTATAT
66524351 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
66524384 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
66524419 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
66524448 AAAACATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:66526635 original size:19 final size:18
Alignment explanation
Indices: 66526613--66526692 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 18
66526603 ATTTTCTAAG
66526613 TTTTAGTAAATTTTAATTT
1 TTTTA-TAAATTTTAATTT
*
66526632 TTTTATCAAATTTTAATAAT
1 TTTTAT-AAATTTTAAT-TT
*
66526652 TTTTATAAATTTTATTTAT
1 TTTTATAAATTTTAATT-T
*
66526671 TTTTAT-TATTTATAATTT
1 TTTTATAAATTT-TAATTT
66526689 TTTT
1 TTTT
66526693 GTCACATTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
18 10 0.19
19 35 0.67
20 7 0.13
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTTATAAATTTTAATTT
Found at i:66530592 original size:89 final size:88
Alignment explanation
Indices: 66530433--66530594 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 88
66530423 TAAGTCTCTG
* * **
66530433 CTTTTTTTTTCACTCATTTCAGTACTTAAACTTTAAAAATGCATAAAAAAGGCCTCAAACCTTTT
1 CTTTTTTTTTCACTCAATTCAGTACTTAAACTTTAAAAATGCATAAAAAAGCCCTCAAACCTTAA
*
66530498 CAAAAAAAGTAATTATGCCCCTT
66 AAAAAAAAGTAATTATGCCCCTT
** * * *
66530521 CTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAA-CTT
1 CTTTTTTTTT-CACTCAATTCAGTACTTAAACTTTAAAAATGCATAAAAAAG-CCCTCAAACCTT
66530585 AAAAAAAAAA
64 AAAAAAAAAA
66530595 TTTAAGCCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
88 10 0.16
89 45 0.73
90 7 0.11
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (88 bp):
CTTTTTTTTTCACTCAATTCAGTACTTAAACTTTAAAAATGCATAAAAAAGCCCTCAAACCTTAA
AAAAAAAAGTAATTATGCCCCTT
Found at i:66533284 original size:16 final size:16
Alignment explanation
Indices: 66533263--66533293 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66533253 TTTTATAAAA
66533263 TTTTACAATTTTTATT
1 TTTTACAATTTTTATT
66533279 TTTTACAATTTTTAT
1 TTTTACAATTTTTAT
66533294 AAAAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTACAATTTTTATT
Found at i:66533329 original size:19 final size:19
Alignment explanation
Indices: 66533279--66533330 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
66533269 AATTTTTATT
66533279 TTTTACAATTTTTATAAAAAA
1 TTTTA-AATTTTT-TAAAAAA
* *
66533300 TTCT-AA-TTTTTAATAAA
1 TTTTAAATTTTTTAAAAAA
66533317 TTTTAAATTTTTTA
1 TTTTAAATTTTTTA
66533331 TATTTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 9 0.35
18 6 0.23
19 8 0.31
21 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAAATTTTTTAAAAAA
Found at i:66533335 original size:27 final size:28
Alignment explanation
Indices: 66533305--66533357 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
66533295 AAAAATTCTA
* *
66533305 ATTTTTAATAAATTTTAA-ATTTTTTAT
1 ATTTCTAATAAAATTTAATATTTTTTAT
*
66533332 ATTTCTATTAAAATTTAATATTTTTT
1 ATTTCTAATAAAATTTAATATTTTTT
66533358 TCTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTCTAATAAAATTTAATATTTTTTAT
Found at i:66533354 original size:19 final size:20
Alignment explanation
Indices: 66533330--66533374 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
66533320 TAAATTTTTT
66533330 ATATTTCTAT-TAAAATTTA
1 ATATTTCTATCTAAAATTTA
* *
66533349 ATATTTTTTTCTAAAATTTA
1 ATATTTCTATCTAAAATTTA
*
66533369 TTATTT
1 ATATTT
66533375 ATTATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATTTCTATCTAAAATTTA
Found at i:66533562 original size:89 final size:88
Alignment explanation
Indices: 66533403--66533596 Score: 239
Period size: 89 Copynumber: 2.2 Consensus size: 88
66533393 AAGAGTAGGC
* * ** *
66533403 GCTTAATTGCTGTTTTGAAAAATTTTAAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCA
1 GCTTAATTGCTTTTTTGAAAAATTTGAAGGGTCTTTTTTATGCATTTTGAAACCTCAACTACCCA
*
66533468 GTTGAGTG-AAAAAAAAAGCAAGA
66 ATTGAGTGAAAAAAAAAAG-AAGA
* * * *
66533491 GCTTAATTTCTTTTTCTGAAAAAGTTTGAA-GGTCTTTTTTATGCATTTTGAAACCTCGACTGCT
1 GCTTAATTGCTTTTT-TGAAAAA-TTTGAAGGGTCTTTTTTATGCATTTTGAAACCTCAACTACC
*
66533555 CAATTGAGTGCAAAAAAAAAAGAGGA
64 CAATTGAGTG-AAAAAAAAAAGAAGA
66533581 GCTTAATTGCTTTTTT
1 GCTTAATTGCTTTTTT
66533597 TGTTTGTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 13 0.14
89 45 0.50
90 22 0.24
91 10 0.11
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (88 bp):
GCTTAATTGCTTTTTTGAAAAATTTGAAGGGTCTTTTTTATGCATTTTGAAACCTCAACTACCCA
ATTGAGTGAAAAAAAAAAGAAGA
Found at i:66537954 original size:12 final size:12
Alignment explanation
Indices: 66537937--66537962 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66537927 AAAATTGGTT
66537937 TTTGTAAAATGA
1 TTTGTAAAATGA
66537949 TTTGTAAAATGA
1 TTTGTAAAATGA
66537961 TT
1 TT
66537963 GAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTGTAAAATGA
Found at i:66538429 original size:124 final size:124
Alignment explanation
Indices: 66538209--66538456 Score: 451
Period size: 124 Copynumber: 2.0 Consensus size: 124
66538199 ACTCTATTAC
* *
66538209 TAATTGCATAAAATATCTACTAATACTTATCGAAACTGTAAACTAATCTGCATAAAACTTCTAAA
1 TAATTGCATAAAATATCTACTAATAATTAACGAAACTGTAAACTAATCTGCATAAAACTTCTAAA
*
66538274 TACAGATTAATTCGTTAGTTACGATTAGCATACGTGGTACTCGTGGACAGGGTACTAGA
66 CACAGATTAATTCGTTAGTTACGATTAGCATACGTGGTACTCGTGGACAGGGTACTAGA
*
66538333 TAATTGCATAAAATATCTACTAATAATTAACGAAACTGTAAACTAATGTGCATAAAACTTCTAAA
1 TAATTGCATAAAATATCTACTAATAATTAACGAAACTGTAAACTAATCTGCATAAAACTTCTAAA
*
66538398 CACAGATTAGTTCGTTAGTTACGATTAGCATACGTGGTACTCGTGGACAGGGTACTAGA
66 CACAGATTAATTCGTTAGTTACGATTAGCATACGTGGTACTCGTGGACAGGGTACTAGA
66538457 GGCCGAGGTA
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (124 bp):
TAATTGCATAAAATATCTACTAATAATTAACGAAACTGTAAACTAATCTGCATAAAACTTCTAAA
CACAGATTAATTCGTTAGTTACGATTAGCATACGTGGTACTCGTGGACAGGGTACTAGA
Found at i:66560338 original size:24 final size:24
Alignment explanation
Indices: 66560311--66560366 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
66560301 TTATTAGGTT
*
66560311 TCACCCTAATCCGGCAAAATCTTA
1 TCACCCTAATCCAGCAAAATCTTA
66560335 TCACCCTAATCCAGCAAAATCTTA
1 TCACCCTAATCCAGCAAAATCTTA
66560359 TCACCCTA
1 TCACCCTA
66560367 TCTCTAGGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.25
Consensus pattern (24 bp):
TCACCCTAATCCAGCAAAATCTTA
Found at i:66562935 original size:17 final size:17
Alignment explanation
Indices: 66562892--66562955 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 17
66562882 AACGAAAGGG
*
66562892 GAAAACAAGAA-AAAAA
1 GAAAAGAAGAAGAAAAA
66562908 GAAAAG-A-AAGAAAAA
1 GAAAAGAAGAAGAAAAA
* **
66562923 GGAAAGAAGAAGAGGAA
1 GAAAAGAAGAAGAAAAA
* *
66562940 GAAAACAAAAAGAAAA
1 GAAAAGAAGAAGAAAA
66562956 TTTAAAAATA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 6 0.17
17 17 0.47
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (17 bp):
GAAAAGAAGAAGAAAAA
Found at i:66564255 original size:18 final size:17
Alignment explanation
Indices: 66564232--66564266 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
66564222 TAACTTTAGA
*
66564232 AAGTTATTATTAATAAAT
1 AAGTTATGATT-ATAAAT
66564250 AAGTTATGATTATAAAT
1 AAGTTATGATTATAAAT
66564267 CTATAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
AAGTTATGATTATAAAT
Found at i:66564484 original size:24 final size:24
Alignment explanation
Indices: 66564438--66564484 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
66564428 TAAATTTGAA
* *
66564438 ATTTTTTTAGGATTTATATAATAT
1 ATTTTTTTAGGATTTAGAAAATAT
*
66564462 ATTTTTTTAGGGTTTAGAAAATA
1 ATTTTTTTAGGATTTAGAAAATA
66564485 AAAATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (24 bp):
ATTTTTTTAGGATTTAGAAAATAT
Found at i:66565587 original size:10 final size:10
Alignment explanation
Indices: 66565572--66565596 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
66565562 GAAATTACTA
66565572 TTATTTGATT
1 TTATTTGATT
66565582 TTATTTGATT
1 TTATTTGATT
66565592 TTATT
1 TTATT
66565597 ATATTACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
TTATTTGATT
Found at i:66566311 original size:7 final size:7
Alignment explanation
Indices: 66566301--66566392 Score: 89
Period size: 7 Copynumber: 13.3 Consensus size: 7
66566291 TTGGATTTTG
*
66566301 GGTTCGA
1 GGTTCAA
66566308 GGTTCAA
1 GGTTCAA
*
66566315 GGTACAA
1 GGTTCAA
66566322 GGTTCAA
1 GGTTCAA
*
66566329 GGTACAA
1 GGTTCAA
66566336 GGTTCAA
1 GGTTCAA
* *
66566343 -GTTGAG
1 GGTTCAA
*
66566349 GGTTTAA
1 GGTTCAA
66566356 GGATTCAA
1 GG-TTCAA
*
66566364 GGTTGAA
1 GGTTCAA
*
66566371 GGTTTAA
1 GGTTCAA
66566378 -GTTCAA
1 GGTTCAA
66566384 GGTTCAA
1 GGTTCAA
66566391 GG
1 GG
66566393 GTTTGGGGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 9 0.13
7 54 0.78
8 6 0.09
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.28
Consensus pattern (7 bp):
GGTTCAA
Found at i:66567306 original size:29 final size:28
Alignment explanation
Indices: 66567273--66567357 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 28
66567263 ATTTAGAGAT
* *
66567273 TTAATGAGATTTTAAAAAAAATTATAAG
1 TTAATGAGATATTAAAAAAAATTAAAAG
* * * *
66567301 TCTAATTAAAATGTTCAAAAAAATTAAAAG
1 T-TAA-TGAGATATTAAAAAAAATTAAAAG
66567331 TTAGATGAGA-ATTAACAAAAAATTAAA
1 TTA-ATGAGATATTAA-AAAAAATTAAA
66567358 GGGGTTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 4 0.09
29 19 0.43
30 21 0.48
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (28 bp):
TTAATGAGATATTAAAAAAAATTAAAAG
Found at i:66568483 original size:20 final size:20
Alignment explanation
Indices: 66568460--66568504 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66568450 TAAAGTGAAA
66568460 AAAATCAAAATAAAAAGATT
1 AAAATCAAAATAAAAAGATT
* * *
66568480 AAAATTAAAATTAAAATATT
1 AAAATCAAAATAAAAAGATT
66568500 AAAAT
1 AAAAT
66568505 ATTAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAATCAAAATAAAAAGATT
Found at i:66568512 original size:8 final size:8
Alignment explanation
Indices: 66568489--66568513 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
66568479 TAAAATTAAA
66568489 ATTAAAAT
1 ATTAAAAT
66568497 ATTAAAAT
1 ATTAAAAT
66568505 ATTAAAAT
1 ATTAAAAT
66568513 A
1 A
66568514 AAGCTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAAAT
Found at i:66570150 original size:119 final size:120
Alignment explanation
Indices: 66569974--66570196 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
66569964 TACTCGTTCA
** * * * *
66569974 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCACACAAATACCTTCGGGACTTAGCCCGGAT
*
66570039 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
66570094 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCACACAAATACTTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCACACAAATACCTTCGGGA-CTTAGCCCGG
* *
66570156 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
66570197 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 63 0.72
120 22 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCACACAAATACCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:66570196 original size:40 final size:40
Alignment explanation
Indices: 66569953--66570196 Score: 255
Period size: 40 Copynumber: 6.1 Consensus size: 40
66569943 CAGAATTTAA
** *
66569953 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66569993 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66570033 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66570073 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
66570112 CCAGA-ATTAGTAACTCACACAAATACTTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
66570152 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAAC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66570192 CCGGA
1 CCGGA
66570197 CATCATTCAA
Statistics
Matches: 171, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 29 0.17
40 129 0.75
41 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66572343 original size:37 final size:35
Alignment explanation
Indices: 66572290--66572358 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
66572280 TAATACACAA
* *
66572290 ACATCAATCAATAAATAAAAAAGTACAAAGAGAGAAC
1 ACATCAATAAACAAAT-AAAAAGTA-AAAGAGAGAAC
*
66572327 ACATCAATAAACAAATAAAATGTAAAAGAGAG
1 ACATCAATAAACAAATAAAAAGTAAAAGAGAG
66572359 CGCAAACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 8 0.28
36 7 0.24
37 14 0.48
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.14
Consensus pattern (35 bp):
ACATCAATAAACAAATAAAAAGTAAAAGAGAGAAC
Found at i:66578036 original size:20 final size:20
Alignment explanation
Indices: 66578011--66578050 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
66578001 TAATCTCGCT
66578011 GTAAGAGTGAGGTTCACAGG
1 GTAAGAGTGAGGTTCACAGG
66578031 GTAAGAGTGAGGTTCACAGG
1 GTAAGAGTGAGGTTCACAGG
66578051 AGTGTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.40, T:0.20
Consensus pattern (20 bp):
GTAAGAGTGAGGTTCACAGG
Found at i:66578283 original size:38 final size:38
Alignment explanation
Indices: 66578232--66578306 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
66578222 AGTGTATGTG
66578232 ATAGGGAATTTATACTATGCATGTTTGGCATGAATATA
1 ATAGGGAATTTATACTATGCATGTTTGGCATGAATATA
66578270 ATAGGGAATTTATACTATGCATGTTTGGCATGAATAT
1 ATAGGGAATTTATACTATGCATGTTTGGCATGAATAT
66578307 CTTTTATGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (38 bp):
ATAGGGAATTTATACTATGCATGTTTGGCATGAATATA
Found at i:66582059 original size:29 final size:28
Alignment explanation
Indices: 66582017--66582075 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 28
66582007 GGCTGTATTT
66582017 ATGGACTTGATGAATAGGATATTCTGGCC
1 ATGGACTTGATGAATAGGAT-TTCTGGCC
66582046 ATGGACTTGATGAATAGGATTTCTGGCC
1 ATGGACTTGATGAATAGGATTTCTGGCC
66582074 AT
1 AT
66582076 ACTTAGACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (28 bp):
ATGGACTTGATGAATAGGATTTCTGGCC
Found at i:66583986 original size:21 final size:21
Alignment explanation
Indices: 66583960--66584002 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
66583950 AAGAAAGGAG
66583960 ATCGAATTTCAAGTTGGAGAT
1 ATCGAATTTCAAGTTGGAGAT
66583981 ATCGAATTTCAAGTTGGAGAT
1 ATCGAATTTCAAGTTGGAGAT
66584002 A
1 A
66584003 AAGTGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
ATCGAATTTCAAGTTGGAGAT
Found at i:66592858 original size:49 final size:49
Alignment explanation
Indices: 66592795--66592904 Score: 168
Period size: 49 Copynumber: 2.2 Consensus size: 49
66592785 AGAATTTTTG
* * * *
66592795 GTTTGACCAATCAATACCAGATTTTTATTGAAGTTTTCCC-TGTTTCATT
1 GTTTGACTATTCAATACCAGATTTGTATTGAAG-TTTCCCTTGTTTCACT
66592844 GTTTGACTATTCAATACCAGATTTGTATTGAAGTTTCCCTTGTTTCACT
1 GTTTGACTATTCAATACCAGATTTGTATTGAAGTTTCCCTTGTTTCACT
66592893 GTTTGACTATTC
1 GTTTGACTATTC
66592905 TGACCACTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 6 0.11
49 50 0.89
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (49 bp):
GTTTGACTATTCAATACCAGATTTGTATTGAAGTTTCCCTTGTTTCACT
Found at i:66593611 original size:40 final size:39
Alignment explanation
Indices: 66593561--66593648 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 39
66593551 CAAATCCAAT
* *
66593561 CACCACCACAAAGCATGC-AGGACTTTAAGCCCGAATATAA
1 CACCAGCACAAAGCATACGA-GACTTT-AGCCCGAATATAA
* *
66593601 TACCAGCACAAAGCCTACGAGACTTTAGCCCGAATATAA
1 CACCAGCACAAAGCATACGAGACTTTAGCCCGAATATAA
66593640 CACCAGCAC
1 CACCAGCAC
66593649 GAATACCTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.50
40 20 0.48
41 1 0.02
ACGTcount: A:0.39, C:0.32, G:0.15, T:0.15
Consensus pattern (39 bp):
CACCAGCACAAAGCATACGAGACTTTAGCCCGAATATAA
Found at i:66593645 original size:39 final size:39
Alignment explanation
Indices: 66593588--66593794 Score: 240
Period size: 39 Copynumber: 5.3 Consensus size: 39
66593578 CAGGACTTTA
* * * *
66593588 AGCCCGAATATAATACCAGCAC-AAAGCCTACGAGACTTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCGGGAC-TT
* *
66593627 AGCCCGAATATAACACCAGCACGAATA-CCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAA-AGCCTTCGGGACTT
* * *
66593666 AGCCCGGATAT-ACACCAGCATGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCGGGACTT
* *
66593704 AGCCCGGATATAACACCGGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCGGGACTT
* * **
66593743 AGCCCGGATAGAACACCGGCACGAATTCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCGGGACTT
66593782 AGCCCGGATATAA
1 AGCCCGGATATAA
66593795 TTCTCCATTA
Statistics
Matches: 151, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
38 35 0.23
39 106 0.70
40 9 0.06
41 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAAAGCCTTCGGGACTT
Found at i:66593706 original size:77 final size:78
Alignment explanation
Indices: 66593588--66593794 Score: 256
Period size: 77 Copynumber: 2.7 Consensus size: 78
66593578 CAGGACTTTA
* * * * * * *
66593588 AGCCCGAATATAATACCAGCAC-AAAGCCTACGAGACTTTAGCCCGAATATAACACCAGCACGAA
1 AGCCCGGATAGAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACACCAGCACGAA
*
66593652 TACCTTCGGGGCTT
65 TACCTTCGGGACTT
* * * *
66593666 AGCCCGGATA-TACACCAGCATGAATGCCTTCGGGGCTTAGCCCGGATATAACACCGGCACGAAT
1 AGCCCGGATAGAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
*
66593730 GCCTTCGGGACTT
66 ACCTTCGGGACTT
* *
66593743 AGCCCGGATAGAACACCGGCACGAATTCCTTCGGGACTTAGCCCGGATATAA
1 AGCCCGGATAGAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
66593795 TTCTCCATTA
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
77 55 0.50
78 55 0.50
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (78 bp):
AGCCCGGATAGAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
ACCTTCGGGACTT
Found at i:66599706 original size:40 final size:39
Alignment explanation
Indices: 66599656--66599743 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
66599646 CAAATCCAAT
* * *
66599656 CACCACCACAAAGCATGCAGGACTTTAAGCCCGAATATAA
1 CACCAGCACAAAGCATACAGGACTTT-AGCCCAAATATAA
* * *
66599696 TACCAGCACAAAGCCTACAGGACTTTAGCTCAAATATAA
1 CACCAGCACAAAGCATACAGGACTTTAGCCCAAATATAA
66599735 CACCAGCAC
1 CACCAGCAC
66599744 GAATGCCTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 19 0.46
40 22 0.54
ACGTcount: A:0.40, C:0.31, G:0.14, T:0.16
Consensus pattern (39 bp):
CACCAGCACAAAGCATACAGGACTTTAGCCCAAATATAA
Found at i:66599743 original size:39 final size:39
Alignment explanation
Indices: 66599683--66599929 Score: 329
Period size: 39 Copynumber: 6.3 Consensus size: 39
66599673 CAGGACTTTA
* * * * *
66599683 AGCCCGAATATAATACCAGCAC-AAAGCCTACAGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TT
* **
66599722 AGCTCAAATATAACACCAGCACGAATGCCTTCGAGG-CTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCG-GGACTT
*
66599761 AGCCCGGATATAACACCCA-CACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACA-CCAGCACGAATGCCTTCGGGACTT
66599800 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
66599839 AGCCTGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
** *
66599878 AGCTTGGATATAACACCAGCACAAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
66599917 AGCCCGGATATAA
1 AGCCCGGATATAA
66599930 TTCTCCATTA
Statistics
Matches: 188, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 5 0.03
39 170 0.90
40 11 0.06
41 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:66603466 original size:12 final size:12
Alignment explanation
Indices: 66603449--66603474 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66603439 GAGATTTCTG
66603449 ATTTTTGTGAAA
1 ATTTTTGTGAAA
66603461 ATTTTTGTGAAA
1 ATTTTTGTGAAA
66603473 AT
1 AT
66603475 CTGATGTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
ATTTTTGTGAAA
Found at i:66604608 original size:14 final size:14
Alignment explanation
Indices: 66604574--66604609 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
66604564 GTCACATCCT
*
66604574 AAAAATTGGGTTAG
1 AAAATTTGGGTTAG
66604588 AAGAATTTGGGTTAG
1 AA-AATTTGGGTTAG
66604603 AAAATTT
1 AAAATTT
66604610 TGTCAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (14 bp):
AAAATTTGGGTTAG
Found at i:66604611 original size:15 final size:15
Alignment explanation
Indices: 66604579--66604609 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66604569 ATCCTAAAAA
66604579 TTGGGTTAGAAGAAT
1 TTGGGTTAGAAGAAT
66604594 TTGGGTTAGAA-AAT
1 TTGGGTTAGAAGAAT
66604608 TT
1 TT
66604610 TGTCAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
TTGGGTTAGAAGAAT
Found at i:66605608 original size:32 final size:32
Alignment explanation
Indices: 66605567--66605630 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
66605557 ATAAATATGA
66605567 AAGTATTTTATCAGTGTCAAACGACCGTGTGG
1 AAGTATTTTATCAGTGTCAAACGACCGTGTGG
*
66605599 AAGTATTTTATCAGTGTCAAACGGCCGTGTGG
1 AAGTATTTTATCAGTGTCAAACGACCGTGTGG
66605631 CAGGTCATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (32 bp):
AAGTATTTTATCAGTGTCAAACGACCGTGTGG
Found at i:66607863 original size:40 final size:40
Alignment explanation
Indices: 66607804--66607935 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
66607794 CATTTGAATG
*
66607804 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
66607844 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* * * *
66607884 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
66607924 ATATCC-GGCTAA
1 ATATCCGGGCTAA
66607936 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 7 0.09
40 65 0.87
41 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:66620377 original size:79 final size:81
Alignment explanation
Indices: 66620241--66620425 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
66620231 TTGAATGATG
*
66620241 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
66620305 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
66620320 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
66620382 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
66620400 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66620426 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:66620439 original size:40 final size:40
Alignment explanation
Indices: 66620242--66620425 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
66620232 TGAATGATGT
* * * *
66620242 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
66620282 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
66620322 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66620360 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66620401 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66620426 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:66620447 original size:79 final size:79
Alignment explanation
Indices: 66620294--66620458 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
66620284 GGACTAAGAT
* **
66620294 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
66620359 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
66620373 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
66620436 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
66620452 CCGAAGG
1 CCGAAGG
66620459 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:66622386 original size:31 final size:31
Alignment explanation
Indices: 66622343--66622406 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
66622333 CCTTTTCATA
66622343 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
66622374 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
66622405 TT
1 TT
66622407 ACTGTAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:66622690 original size:47 final size:48
Alignment explanation
Indices: 66622614--66622742 Score: 197
Period size: 47 Copynumber: 2.7 Consensus size: 48
66622604 CTGGAGGCCT
* *
66622614 AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
* *
66622663 AGCCC-TTTAATAACTGTGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
66622710 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
66622743 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 43 0.59
48 26 0.36
49 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:66622743 original size:24 final size:24
Alignment explanation
Indices: 66622614--66622742 Score: 197
Period size: 24 Copynumber: 5.4 Consensus size: 24
66622604 CTGGAGGCCT
* *
66622614 AGCCTCTTTTAATAACTGGGGAAAA
1 AGCC-CTTTTAATAACTGGGGCATA
66622639 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66622663 AGCCC-TTTAATAACTGTGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66622686 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66622710 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
66622734 AGCCCTTTT
1 AGCCCTTTT
66622743 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 22 0.22
24 72 0.73
25 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:66625433 original size:79 final size:82
Alignment explanation
Indices: 66625322--66625506 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
66625312 GCTACTCGTT
* *
66625322 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
66625385 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
66625402 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
66625465 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
66625482 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66625507 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66625506 original size:40 final size:40
Alignment explanation
Indices: 66625303--66625506 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
66625293 CGGAATTTAA
** *
66625303 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66625343 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66625383 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66625422 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66625462 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66625502 CCGGA
1 CCGGA
66625507 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66634112 original size:31 final size:31
Alignment explanation
Indices: 66634069--66634132 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
66634059 CCTTTTCATA
66634069 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
66634100 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
66634131 TT
1 TT
66634133 ACTGTAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:66634401 original size:23 final size:24
Alignment explanation
Indices: 66634340--66634454 Score: 178
Period size: 24 Copynumber: 4.8 Consensus size: 24
66634330 CTGGAGGCCT
* *
66634340 AGCCTCTTTTAATAACTGGGGAAAA
1 AGCC-CTTTTAATAACTGGGGCATA
66634365 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
66634389 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66634412 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66634436 AGCCCTTTTGATAACTGGG
1 AGCCCTTTTAATAACTGGG
66634455 CATCCATATA
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.27
24 59 0.69
25 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:66634457 original size:47 final size:48
Alignment explanation
Indices: 66634340--66634454 Score: 178
Period size: 47 Copynumber: 2.4 Consensus size: 48
66634330 CTGGAGGCCT
* *
66634340 AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
66634389 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
66634436 AGCCCTTTTGATAACTGGG
1 AGCCCTTTTAATAACTGGG
66634455 CATCCATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 44 0.72
48 13 0.21
49 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:66634516 original size:9 final size:9
Alignment explanation
Indices: 66634502--66634558 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
66634492 ATCTCGTGTG
66634502 CATATCATA
1 CATATCATA
*
66634511 CATATCATGTG
1 CATATCA--TA
66634522 CATATCATA
1 CATATCATA
* *
66634531 CATGTCATGTG
1 CATATCA--TA
66634542 CATATCATA
1 CATATCATA
66634551 CATATCAT
1 CATATCAT
66634559 GTCTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:66634521 original size:20 final size:20
Alignment explanation
Indices: 66634498--66634560 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
66634488 GAACATCTCG
66634498 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
66634518 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
66634538 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
66634558 TGT
1 TGT
66634561 CTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:66634625 original size:25 final size:25
Alignment explanation
Indices: 66634597--66634644 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66634587 ATATATAAAC
* * *
66634597 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
66634622 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
66634645 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:66636550 original size:15 final size:15
Alignment explanation
Indices: 66636526--66636556 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66636516 CAAAATTTAG
*
66636526 ATTTTGGTTTTATTT
1 ATTTTAGTTTTATTT
66636541 ATTTTAGTTTTATTT
1 ATTTTAGTTTTATTT
66636556 A
1 A
66636557 ATAATTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (15 bp):
ATTTTAGTTTTATTT
Found at i:66652123 original size:21 final size:22
Alignment explanation
Indices: 66652091--66652132 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
66652081 TTCTCTTTGC
66652091 TTTAGTTTAATTAGTTAAATAG
1 TTTAGTTTAATTAGTTAAATAG
*
66652113 TTTAG-TTAATTAGTTTAATA
1 TTTAGTTTAATTAGTTAAATA
66652133 AACAACCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TTTAGTTTAATTAGTTAAATAG
Found at i:66656911 original size:19 final size:20
Alignment explanation
Indices: 66656878--66656918 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
66656868 GTCCTCTGTA
66656878 TTTTGTAAAAATTT-CTAAG
1 TTTTGTAAAAATTTCCTAAG
**
66656897 TTTTGTAAACTTTTCCTAAG
1 TTTTGTAAAAATTTCCTAAG
66656917 TT
1 TT
66656919 ATCGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTTGTAAAAATTTCCTAAG
Found at i:66658743 original size:37 final size:37
Alignment explanation
Indices: 66658693--66658793 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
66658683 CTTTAGCTCA
* * *
66658693 GACAAAATCTCCACATGAAGTTATCGGGTCTTACTCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
66658730 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
* *
66658767 GACATAATCTCCACACGTAGTCATCGG
1 GACAAAATCTCCACACGAAGTCATCGG
66658794 TTAATCACAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
Found at i:66658903 original size:37 final size:37
Alignment explanation
Indices: 66658862--66658936 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
66658852 CCAAAAATCT
66658862 ACATAATATCCACACATAGTCATCGGGTCTTACCCGG
1 ACATAATATCCACACATAGTCATCGGGTCTTACCCGG
* *
66658899 ACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 ACATAATATCCACACATAGTCATCGGGTCTTACCCGG
66658936 A
1 A
66658937 ATATATTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
ACATAATATCCACACATAGTCATCGGGTCTTACCCGG
Found at i:66658993 original size:168 final size:167
Alignment explanation
Indices: 66658715--66659036 Score: 517
Period size: 168 Copynumber: 1.9 Consensus size: 167
66658705 ACATGAAGTT
*
66658715 ATCGGGTCTTACTCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCA
1 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCA
*
66658780 CACGTAGTCATCGGTTAATCACATGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTT
66 CACGTAGTCATCAGTTAATCACATGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTT
66658845 GCCTCATCCAAAAATCTACATAATATCCACACATAGTC
131 GCCTCATCCAAAAATCTA-ATAATATCCACACATAGTC
* *
66658883 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-ATATATTTCC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATA-ATCTCC
* *
66658947 A-A-GT-TTCATGTACATTTAATCACATGTTACAACATTCACATCGACTGTCATATTTGTAATTC
65 ACACGTAGTCA--T-CAGTTAATCACATGTTACAACATTCACATCGACTGTCATATTTGTAATTC
66659009 ATTTGCCTCATCCAAAAATCTAATAATA
127 ATTTGCCTCATCCAAAAATCTAATAATA
66659037 CACACCTTTC
Statistics
Matches: 144, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
165 3 0.02
166 2 0.01
167 11 0.08
168 128 0.89
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (167 bp):
ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCA
CACGTAGTCATCAGTTAATCACATGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTT
GCCTCATCCAAAAATCTAATAATATCCACACATAGTC
Found at i:66659204 original size:47 final size:47
Alignment explanation
Indices: 66659147--66659337 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
66659137 ACACGTTTCG
* * **
66659147 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
66659194 CATTAGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
66659241 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
66659288 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66659335 CAT
1 CAT
66659338 AAAATCCTAA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:66666154 original size:14 final size:15
Alignment explanation
Indices: 66666127--66666155 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66666117 TTATTCAACT
66666127 AATGATTGATTAAAA
1 AATGATTGATTAAAA
66666142 AATGATT-ATTAAAA
1 AATGATTGATTAAAA
66666156 GTCCACGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
AATGATTGATTAAAA
Found at i:66667228 original size:28 final size:27
Alignment explanation
Indices: 66667142--66667231 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
66667132 GTGACAGAGT
*
66667142 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
66667171 CACCAGAACAGGT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
66667198 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
66667226 CACCAG
1 CACCAG
66667232 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:66667384 original size:28 final size:28
Alignment explanation
Indices: 66667337--66667401 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
66667327 AAATTAACCC
* *
66667337 TAGGGGTATAAAGGTCATTTTGCATAGA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
66667365 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
66667393 TAAGGGTAT
1 TAGGGGTAT
66667402 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:66673980 original size:19 final size:19
Alignment explanation
Indices: 66673942--66673982 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
66673932 GAAGTCTAGA
*
66673942 TTTTTTTTAAAAATTGATT
1 TTTTTTTTAAAAATTCATT
**
66673961 TTTTTTTTAAATTTTCATT
1 TTTTTTTTAAAAATTCATT
66673980 TTT
1 TTT
66673983 GTAAACTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTTTAAAAATTCATT
Found at i:66675022 original size:55 final size:56
Alignment explanation
Indices: 66674957--66675071 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 56
66674947 AGCATTGCTG
* * * * **
66674957 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTCGTGGCAAAGCCA
* * *
66675013 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTCGTGGCAAAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTCGTGGCAAAGCCA
66675068 CCAG
1 CCAG
66675072 GACACTTCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
55 28 0.57
56 21 0.43
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTCGTGGCAAAGCCA
Found at i:66675039 original size:27 final size:27
Alignment explanation
Indices: 66674976--66675071 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 27
66674966 GAAAATGTGA
* *
66674976 CAGAGTCACCAGATACAGATATTTTGTGG
1 CAGAGCCACCAGA-ACAGATA-TTCGTGG
* *
66675005 CAGTGCCACCAGAACAGATATACGTGG
1 CAGAGCCACCAGAACAGATATTCGTGG
*
66675032 CAGGGCCACCAGAACAGATAATTCGTGG
1 CAGAGCCACCAGAACAGAT-ATTCGTGG
*
66675060 CAAAGCCACCAG
1 CAGAGCCACCAG
66675072 GACACTTCCT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 23 0.40
28 24 0.41
29 11 0.19
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (27 bp):
CAGAGCCACCAGAACAGATATTCGTGG
Found at i:66675067 original size:28 final size:28
Alignment explanation
Indices: 66674976--66675071 Score: 113
Period size: 27 Copynumber: 3.4 Consensus size: 28
66674966 GAAAATGTGA
* * *
66674976 CAGAGTCACCAGATACAGATATTTTGTGG
1 CAGAGCCACCAGA-ACAGATAATTCGTGG
* *
66675005 CAGTGCCACCAGAACAGAT-ATACGTGG
1 CAGAGCCACCAGAACAGATAATTCGTGG
*
66675032 CAGGGCCACCAGAACAGATAATTCGTGG
1 CAGAGCCACCAGAACAGATAATTCGTGG
*
66675060 CAAAGCCACCAG
1 CAGAGCCACCAG
66675072 GACACTTCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 23 0.40
28 23 0.40
29 11 0.19
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (28 bp):
CAGAGCCACCAGAACAGATAATTCGTGG
Found at i:66675224 original size:28 final size:28
Alignment explanation
Indices: 66675178--66675241 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
66675168 AATTAACCCT
* *
66675178 AGGGGTATAAAGGTCATTTTGCATACAT
1 AGGGGTATAAAGGTAATTTTGCATACAA
* *
66675206 AGTGGTATAATGGTAATTTTGCATACAA
1 AGGGGTATAAAGGTAATTTTGCATACAA
66675234 AGGGGTAT
1 AGGGGTAT
66675242 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATTTTGCATACAA
Found at i:66680564 original size:60 final size:60
Alignment explanation
Indices: 66680467--66680587 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
66680457 TCGACTTCTC
*
66680467 TGACCTCTGTTTACTACGAATTAATCTTTCCCAATACAGAATTCAAATAACCATGATGTT
1 TGACCTCTGTTTACTACGAATTAACCTTTCCCAATACAGAATTCAAATAACCATGATGTT
*
66680527 TGACCTCTGTTTACTACGAATTAACCTTTCCCTATACAGAATTCAAATAACCATGATGTT
1 TGACCTCTGTTTACTACGAATTAACCTTTCCCAATACAGAATTCAAATAACCATGATGTT
66680587 T
1 T
66680588 ATTTCTCTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (60 bp):
TGACCTCTGTTTACTACGAATTAACCTTTCCCAATACAGAATTCAAATAACCATGATGTT
Found at i:66681360 original size:20 final size:20
Alignment explanation
Indices: 66681321--66681360 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
66681311 AAACTTCTTC
* *
66681321 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
66681341 ACTTACTGACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
66681361 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:66681736 original size:55 final size:56
Alignment explanation
Indices: 66681591--66681800 Score: 245
Period size: 55 Copynumber: 3.8 Consensus size: 56
66681581 GTATCCTTTT
* * *
66681591 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCC-TTGCCTTAT-
1 GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATA
* * * *
66681645 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATA
* * *
66681699 GAAACTTATCAATGCCATGTCTTTACATGGTCTTACATGATATCCTTT-CC-T-TA
1 GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATA
* *
66681752 GAAGCCTTACCAATTGCCATGTCTTGGCATGGTCTTACATGGTATCCTT
1 GAA-ACTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
66681801 AACCCCTAAT
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.36
54 10 0.08
55 67 0.51
56 5 0.04
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (56 bp):
GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATA
Found at i:66681743 original size:108 final size:109
Alignment explanation
Indices: 66681591--66681793 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 109
66681581 GTATCCTTTT
* * *
66681591 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTCACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAACCTCACCA
66681655 A-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* ** * *
66681699 GAAACTTATCAATGCCATGTCTTTACATGGTCTTACATGATATCCTTTCCTTAGAAGCCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAA-CCTCACCA
*
66681764 ATTGCCATGTCTTGGCATGGTCTTACATGG
65 ATTGCCATGCCTTGGCATGGTCTTACATGG
66681794 TATCCTTAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.55
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (109 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAACCTCACCAA
TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:66683329 original size:17 final size:17
Alignment explanation
Indices: 66683307--66683341 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
66683297 ACCGAGGCAA
66683307 GTTCATTTGCAAATTAT
1 GTTCATTTGCAAATTAT
*
66683324 GTTCATTTGGAAATTAT
1 GTTCATTTGCAAATTAT
66683341 G
1 G
66683342 CAACATGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.46
Consensus pattern (17 bp):
GTTCATTTGCAAATTAT
Found at i:66683625 original size:20 final size:20
Alignment explanation
Indices: 66683597--66683634 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66683587 CTAGGAACTA
66683597 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
66683617 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
66683635 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:66692347 original size:38 final size:38
Alignment explanation
Indices: 66692297--66692399 Score: 145
Period size: 38 Copynumber: 2.7 Consensus size: 38
66692287 TTAAACTCAT
* *
66692297 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGA
* *
66692335 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGA
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGA
*
66692373 ATATAATTCCAGCA-TATAGCCTGCGGG
1 ATATAATACCAGCACTA-AGCCTGCGGG
66692400 TCTTTAAGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 1 0.02
38 56 0.98
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGA
Found at i:66696100 original size:58 final size:58
Alignment explanation
Indices: 66695983--66696151 Score: 268
Period size: 58 Copynumber: 2.9 Consensus size: 58
66695973 GTGCCCACTA
* * **
66695983 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACGTAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
66696040 ACCGGTCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
66696098 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACATACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
66696152 TAATCATTCG
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 29 0.28
58 74 0.72
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:66696139 original size:29 final size:29
Alignment explanation
Indices: 66695990--66696140 Score: 114
Period size: 29 Copynumber: 5.2 Consensus size: 29
66695980 CTAACCGATC
* *
66695990 TCGCACACATAGTGCTCGGTTGAA-GAAC
1 TCGCACACATAGTGCTCGGTTAAAGGAAT
* ** **
66696018 TCGCACACGTAGTGCCTCAATTACCGG--T
1 TCGCACACATAGTG-CTCGGTTAAAGGAAT
66696046 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGGAAT
* ** **
66696076 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACATAGTG-CTCGGTTAAAGGAAT
66696104 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGGAAT
*
66696134 TTGCACA
1 TCGCACA
66696141 TACAGTGCCT
Statistics
Matches: 91, Mismatches: 23, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
28 28 0.31
29 54 0.59
30 9 0.10
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (29 bp):
TCGCACACATAGTGCTCGGTTAAAGGAAT
Found at i:66696366 original size:43 final size:43
Alignment explanation
Indices: 66696305--66696440 Score: 218
Period size: 43 Copynumber: 3.2 Consensus size: 43
66696295 CCTTGCTTGA
** * *
66696305 ATCACCGGCATTAAGCCTGCTAGGCATGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
66696348 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* *
66696391 ATCACCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATGCAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
66696434 ATCACCG
1 ATCACCG
66696441 AGTTTCATGC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:66696509 original size:27 final size:27
Alignment explanation
Indices: 66696479--66696534 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
66696469 ATACATTTCA
66696479 TATAGCATATCATATTTGTAATTCACT
1 TATAGCATATCATATTTGTAATTCACT
66696506 TATAGCATATCATATTTGTAATTCACT
1 TATAGCATATCATATTTGTAATTCACT
66696533 TA
1 TA
66696535 CTTTGTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (27 bp):
TATAGCATATCATATTTGTAATTCACT
Found at i:66698075 original size:40 final size:38
Alignment explanation
Indices: 66698013--66698131 Score: 94
Period size: 38 Copynumber: 3.1 Consensus size: 38
66698003 GCAAGGTATA
* * *
66698013 AAACTAGAACATAACACTAGCACGAAACCTACGGGACTTT
1 AAACTAG-ATATAATACCAGCACGAAACCTACGGGA-TTT
* * ** *
66698053 AAACTCATATATAATACCAGCACTAGGCCTGCGGGATTT
1 AAACT-AGATATAATACCAGCACGAAACCTACGGGATTT
* * * * *
66698092 AACCTGGATATAATACCAGCACGAAGCTTGCGGGATTT
1 AAACTAGATATAATACCAGCACGAAACCTACGGGATTT
66698130 AA
1 AA
66698132 CCCGAATATA
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
38 30 0.47
39 7 0.11
40 26 0.41
41 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (38 bp):
AAACTAGATATAATACCAGCACGAAACCTACGGGATTT
Done.