Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 217 of 333
Found at i:71473942 original size:13 final size:13
Alignment explanation
Indices: 71473924--71473951 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
71473914 TTTTAAATAT
71473924 TTATAATTAATCG
1 TTATAATTAATCG
71473937 TTATAATTAATCG
1 TTATAATTAATCG
71473950 TT
1 TT
71473952 CTTGAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (13 bp):
TTATAATTAATCG
Found at i:71488825 original size:24 final size:25
Alignment explanation
Indices: 71488797--71488863 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
71488787 TTGTCAACCG
*
71488797 AATTCGCACACATAGTGCTAATC-A
1 AATTCGCACACATAGTGCCAATCTA
* *
71488821 AATTCGCACACTTAGTGCCATTCTA
1 AATTCGCACACATAGTGCCAATCTA
*
71488846 AA-CCGCACACATAGTGCC
1 AATTCGCACACATAGTGCC
71488864 TGGAAATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 34 0.92
25 3 0.08
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (25 bp):
AATTCGCACACATAGTGCCAATCTA
Found at i:71494375 original size:46 final size:46
Alignment explanation
Indices: 71494318--71494493 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
71494308 TATTTGGGCA
71494318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* * * *
71494364 TCCAAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--A-G
* *
71494409 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* *
71494457 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71494494 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 5 0.05
46 60 0.56
47 29 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
Found at i:71494473 original size:93 final size:93
Alignment explanation
Indices: 71494314--71494485 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
71494304 GGGATATTTG
*
71494314 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAAGTCCAAACTCGTTGAG
71494379 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
* * *
71494407 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAAGTCC-AAACTCGTTGA
71494471 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
71494486 GCTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAAGTCCAAACTCGTTGAG
TTGAGTCCGAGTTCATGAAATGTAACTA
Found at i:71498536 original size:40 final size:40
Alignment explanation
Indices: 71498471--71498775 Score: 454
Period size: 40 Copynumber: 7.7 Consensus size: 40
71498461 GGATATAACC
* * * * *
71498471 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
71498510 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
71498550 ACTCGCACAAATGCCTTTGGGGCTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
71498590 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
71498630 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
71498670 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
71498710 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
71498750 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
71498776 ACCCCGTTAG
Statistics
Matches: 247, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 7 0.03
40 238 0.96
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:71502162 original size:11 final size:11
Alignment explanation
Indices: 71502146--71502171 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71502136 TATTTGAGAC
71502146 TTTATGATTAT
1 TTTATGATTAT
71502157 TTTATGATTAT
1 TTTATGATTAT
71502168 TTTA
1 TTTA
71502172 AGGTCTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTTATGATTAT
Found at i:71503428 original size:46 final size:46
Alignment explanation
Indices: 71503375--71503550 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
71503365 TATTTGGGCA
71503375 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
71503421 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71503466 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAATG
* * * *
71503514 GCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71503551 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.56
47 31 0.29
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71503530 original size:93 final size:93
Alignment explanation
Indices: 71503371--71503542 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
71503361 GGGATATTTG
* *
71503371 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAG
71503436 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
71503464 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TCTATGGATGCGAACGGCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAACGGCCGAACTCGTTGA
*
71503528 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
71503543 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:71506077 original size:68 final size:68
Alignment explanation
Indices: 71505997--71506132 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
71505987 ATCAAACATG
71505997 GGGTAAAAATATGTATAATTTATGGTTTATCAATTGGACATTGGACATTTTATTTTGGATGGTTT
1 GGGTAAAAATATGTATAATTTATGGTTTATCAATTGGACATTGGACATTTTATTTTGGATGGTTT
71506062 TAT
66 TAT
71506065 GGGTAAAAATATGTATAATTTATGGTTTATCAATTGGACATTGGACATTTTATTTTGGATGGTTT
1 GGGTAAAAATATGTATAATTTATGGTTTATCAATTGGACATTGGACATTTTATTTTGGATGGTTT
71506130 TAT
66 TAT
71506133 AATAATTATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (68 bp):
GGGTAAAAATATGTATAATTTATGGTTTATCAATTGGACATTGGACATTTTATTTTGGATGGTTT
TAT
Found at i:71511056 original size:45 final size:45
Alignment explanation
Indices: 71510992--71511165 Score: 161
Period size: 45 Copynumber: 3.9 Consensus size: 45
71510982 AATTTGATTC
* *
71510992 AAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCAGGATAA
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCAGGATAA
* * * * * ***
71511037 AAATGAGTAAGACCATAGTTGAAAGACACTATGGAACCATGACGG
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCAGGATAA
* * * *
71511082 AAGTTAGTAAGACCATGGCTGAAAGATGCTATGGCATCATGG-TAA
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCA-GGATAA
* * * * *
71511127 ATAGGACTAAGACCATAGCTAAAAGACGTTATGGCATCA
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCA
71511166 TTTGATAGTT
Statistics
Matches: 99, Mismatches: 29, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
45 98 0.99
46 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCAGGATAA
Found at i:71529231 original size:38 final size:38
Alignment explanation
Indices: 71529188--71529263 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
71529178 CTAGTTATTT
71529188 TATCTCATCACCTTAAGCACATATAACAACTAAAAGTA
1 TATCTCATCACCTTAAGCACATATAACAACTAAAAGTA
71529226 TATCTCATCACCTTAAGCACATATAACAACTAAAAGTA
1 TATCTCATCACCTTAAGCACATATAACAACTAAAAGTA
71529264 CACCCATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (38 bp):
TATCTCATCACCTTAAGCACATATAACAACTAAAAGTA
Found at i:71537663 original size:35 final size:35
Alignment explanation
Indices: 71537617--71537687 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
71537607 GGTTGACCTG
71537617 AATGCATGTTTGACTGTTACTATTTACTGCATGCC
1 AATGCATGTTTGACTGTTACTATTTACTGCATGCC
71537652 AATGCATGTTTGACTGTTACTATTTACTGCATGCC
1 AATGCATGTTTGACTGTTACTATTTACTGCATGCC
71537687 A
1 A
71537688 TGTTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (35 bp):
AATGCATGTTTGACTGTTACTATTTACTGCATGCC
Found at i:71539476 original size:19 final size:19
Alignment explanation
Indices: 71539442--71539480 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
71539432 GATTTCGTAC
71539442 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCATTTTCT-CGTT
*
71539462 TTTGGCCTA-TTTCTCGTT
1 TTTGGCCCATTTTCTCGTT
71539480 T
1 T
71539481 CTTTCACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.05, C:0.26, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTGGCCCATTTTCTCGTT
Found at i:71540961 original size:43 final size:43
Alignment explanation
Indices: 71540880--71540966 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
71540870 AAATCATACA
**
71540880 ATGCCAATGTCCCAGACGTGGTCTTACATGTAGCCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
* *
71540923 ATGCCACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATGTCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTAAACACATATCG
71540966 A
1 A
71540967 AATCAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 36 0.95
44 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:71549647 original size:3 final size:3
Alignment explanation
Indices: 71549631--71549718 Score: 62
Period size: 3 Copynumber: 29.3 Consensus size: 3
71549621 TTATATCATT
*
71549631 TTA TTA -TA TATA TTA TTCA TTA -TA TTA TTT TTA TT- TT- TTA TTA
1 TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
71549674 TATA TTA -TA TTA -TA TTA TTA TTTA TTA TTTA TAA TTTA TTA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA T
71549719 GTACAATTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
2 12 0.17
3 41 0.59
4 17 0.24
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:71549716 original size:57 final size:57
Alignment explanation
Indices: 71549595--71549702 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
71549585 TTTATTTTAC
* *
71549595 ATATTATTTATATGCTTTATAATATGTTATATCATTTTATTATATATATTATTCATT
1 ATATTATTTATATGCTTTATAATATATTATATCATATTATTATATATATTATTCATT
* ** * *
71549652 ATATTATTTTTATTTTTTATTATATATTATATTATATTATTAT-T-TATTATT
1 ATATTATTTATATGCTTTATAATATATTATATCATATTATTATATATATTATT
71549703 TATAATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 7 0.16
56 1 0.02
57 36 0.82
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (57 bp):
ATATTATTTATATGCTTTATAATATATTATATCATATTATTATATATATTATTCATT
Found at i:71549727 original size:24 final size:24
Alignment explanation
Indices: 71549678--71549727 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
71549668 TTATTATATA
* **
71549678 TTATATTATATTATTATTTATTAT
1 TTATATTATATTATTATGTACAAT
71549702 TTATAATT-TATTATTATGTACAAT
1 TTAT-ATTATATTATTATGTACAAT
71549726 TT
1 TT
71549728 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATATTATATTATTATGTACAAT
Found at i:71561816 original size:44 final size:44
Alignment explanation
Indices: 71561759--71562605 Score: 1087
Period size: 44 Copynumber: 19.4 Consensus size: 44
71561749 ACCGATATTG
* *
71561759 GATTTGACGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * *
71561803 GATTTGGCATCTCTGTATTAACAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * * *
71561847 CATTTGGCGTCTCTGTATTGACAGAGGGTAGATTGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
*
71561891 GATTTGGCGTCTCTGTATTGACAGAAAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * * *
71561935 GATTTGGCATCTCTGTATTGACAGAGGGCAGATCAAAGATAGTA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
*
71561979 GATTTGGCGTCTCTGTATTGACAGAAAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
*
71562023 GATTTGGCGTCTCTGTATTGACAGAAAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * * * *
71562067 GATTCGGCGTCTCTGTATCGAC-GGGAAGCAGATCAAAGATAGTA
1 GATTTGGCGTCTCTGTATTGACAGAG-AGCAGATCGAAGATAGCA
* *
71562111 GATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* *
71562155 GATTTGGCGTCTTTGTATTGACAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * * * *
71562199 GATTTGGCGTCTCTGTATCGACGGGGAGCAGATCAAAGATAGTA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
*
71562243 GATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
*
71562287 GATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * * * *
71562331 GATTTGGCGTCTCTGTATTGACAGGGAGTAGATCAAAGATTGTA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
*
71562375 GATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * ** * * * *
71562419 GATTTGGCATCTCTGTATGGATGGGGAACAAATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* * * * * * *
71562463 GATCTGACAT-TCT-T-GT-ACCGA-AGCAGACCGAATATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
* *
71562502 GATTTGGCGTCTATGTATTGACAGAGAGCATATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
** *
71562546 GATTTGGTTTCTCTGTATTGACAGAG-GACAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAAGATAGCA
* *
71562590 GATTTAGCATCTCTGT
1 GATTTGGCGTCTCTGT
71562606 GCTTCATGGG
Statistics
Matches: 694, Mismatches: 101, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
39 20 0.03
40 4 0.01
41 1 0.00
42 2 0.00
43 9 0.01
44 656 0.95
45 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCA
Found at i:71564225 original size:20 final size:21
Alignment explanation
Indices: 71564203--71564294 Score: 76
Period size: 18 Copynumber: 4.7 Consensus size: 21
71564193 TTTATATGCT
71564203 TTATAATATATTATATCATTTTA
1 TTAT-ATATATTAT-TCATTTTA
*
71564226 TTATATATATTATTCATTATA
1 TTATATATATTATTCATTTTA
71564247 TTAT-T-T-TTATT--TTTTA
1 TTATATATATTATTCATTTTA
*
71564263 TTATATAT-TATATT-ATATTA
1 TTATATATAT-TATTCATTTTA
71564283 TTAT-T-TATTATT
1 TTATATATATTATT
71564295 TATAATTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
16 8 0.13
17 1 0.02
18 12 0.20
19 7 0.11
20 9 0.15
21 11 0.18
22 9 0.15
23 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATATATATTATTCATTTTA
Found at i:71564239 original size:3 final size:3
Alignment explanation
Indices: 71564211--71564310 Score: 63
Period size: 3 Copynumber: 34.0 Consensus size: 3
71564201 CTTTATAATA
* *
71564211 TAT TA- TAT CAT T-T TAT TA- TAT ATAT TAT TCAT TA- TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT TAT TAT TAT TAT
71564254 TAT T-T T-T TAT TAT ATAT TA- TAT TA- TAT TAT TATT TAT TATT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
*
71564298 AATT TAT TAT TAT
1 TA-T TAT TAT TAT
71564311 GTACAATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
2 16 0.21
3 45 0.58
4 17 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:71564308 original size:57 final size:57
Alignment explanation
Indices: 71564187--71564294 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
71564177 TTTATTTTAC
*
71564187 ATATTATTTATATGCTTTATAATATATTATATCATTTTATTATATATATTATTCATT
1 ATATTATTTATATGCTTTATAATATATTATATCATATTATTATATATATTATTCATT
* ** * *
71564244 ATATTATTTTTATTTTTTATTATATATTATATTATATTATTAT-T-TATTATT
1 ATATTATTTATATGCTTTATAATATATTATATCATATTATTATATATATTATT
71564295 TATAATTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 7 0.16
56 1 0.02
57 37 0.82
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (57 bp):
ATATTATTTATATGCTTTATAATATATTATATCATATTATTATATATATTATTCATT
Found at i:71564319 original size:24 final size:24
Alignment explanation
Indices: 71564270--71564319 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
71564260 TTATTATATA
* **
71564270 TTATATTATATTATTATTTATTAT
1 TTATATTATATTATTATGTACAAT
71564294 TTATAATT-TATTATTATGTACAAT
1 TTAT-ATTATATTATTATGTACAAT
71564318 TT
1 TT
71564320 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATATTATATTATTATGTACAAT
Found at i:71564697 original size:28 final size:26
Alignment explanation
Indices: 71564665--71564725 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
71564655 TTTTTATGTT
* *
71564665 ATTTATTGTTTTATATATTTGCGTGGAA
1 ATTTATTGTTGT-TATATTTGCAT-GAA
71564693 ATTTA-TGTTGTTATATTTGCATGAA
1 ATTTATTGTTGTTATATTTGCATGAA
71564718 ATATTATT
1 AT-TTATT
71564726 ATATATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 13 0.45
27 6 0.21
28 5 0.17
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (26 bp):
ATTTATTGTTGTTATATTTGCATGAA
Found at i:71568956 original size:23 final size:22
Alignment explanation
Indices: 71568930--71569009 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
71568920 CAATATTAAG
71568930 TAAATACAAAAAGATACAAAAAA
1 TAAATACAAAAAGATA-AAAAAA
** * * *
71568953 TAAATAAACAAAATTATGAACATA
1 TAAAT--ACAAAAAGATAAAAAAA
* *
71568977 TAAATAAAAAAAAGATAAGAAAA
1 TAAAT-ACAAAAAGATAAAAAAA
71569000 TAAATACAAA
1 TAAATACAAA
71569010 TCTTTTTAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
22 4 0.10
23 21 0.50
24 9 0.21
25 8 0.19
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.17
Consensus pattern (22 bp):
TAAATACAAAAAGATAAAAAAA
Found at i:71568965 original size:25 final size:24
Alignment explanation
Indices: 71568935--71569005 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
71568925 TTAAGTAAAT
71568935 ACAAAAAGATACAAAAAATAAATAA
1 ACAAAAAGATA-AAAAAATAAATAA
** * * *
71568960 ACAAAATTATGAACATATAAATAA
1 ACAAAAAGATAAAAAAATAAATAA
*
71568984 A-AAAAAGATAAGAAAATAAATA
1 ACAAAAAGATAAAAAAATAAATA
71569006 CAAATCTTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
23 15 0.43
24 12 0.34
25 8 0.23
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (24 bp):
ACAAAAAGATAAAAAAATAAATAA
Found at i:71569352 original size:17 final size:17
Alignment explanation
Indices: 71569327--71569378 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
71569317 ATAGGGAATA
71569327 ATATATAATAAAATATG
1 ATATATAATAAAATATG
* *
71569344 ATATGTAATAAAATATAAA
1 ATATATAATAAAATAT--G
*
71569363 ATATATAATGAAATAT
1 ATATATAATAAAATAT
71569379 AAATAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.52
19 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:71569352 original size:24 final size:24
Alignment explanation
Indices: 71569325--71569391 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
71569315 ATATAGGGAA
71569325 TAATATATAATAAAATATGATATG
1 TAATATATAATAAAATATGATATG
*
71569349 TAATA-AAATATAAAATAT-ATAATG
1 TAATATATA-ATAAAATATGAT-ATG
*
71569373 -AA-ATATAA-ATAATATGATA
1 TAATATATAATAAAATATGATA
71569392 AAATAACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
21 7 0.19
22 4 0.11
23 8 0.22
24 17 0.47
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
TAATATATAATAAAATATGATATG
Found at i:71569371 original size:19 final size:18
Alignment explanation
Indices: 71569326--71569396 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
71569316 TATAGGGAAT
71569326 AATATATAATAAAATAT-
1 AATATATAATAAAATATA
* *
71569343 GATATGTAATAAAATATAA
1 AATATATAATAAAATAT-A
*
71569362 AATATATAATGAAATATA
1 AATATATAATAAAATATA
*
71569380 AATAATATGATAAAATA
1 AAT-ATATAATAAAATA
71569397 ACCTATAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 15 0.34
18 4 0.09
19 25 0.57
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
AATATATAATAAAATATA
Found at i:71570393 original size:44 final size:44
Alignment explanation
Indices: 71570338--71571030 Score: 766
Period size: 44 Copynumber: 15.8 Consensus size: 44
71570328 AGACGAAATG
* * **
71570338 TTCGATCTGCTCTCTGAAAATACAAAGACGCCAAATCAACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
71570382 TTCGATTTGCTCTCT-AGCAATATAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCTATC
* * * *
71570426 TTCGATTTGCTCTCTGGCAATACAGAGACACCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
71570470 TTCGATCTGCTCTCTAACAATACAAAGACACTAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71570514 TTCGATTTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * *
71570558 TTTGACCTGCTTTCTGACAATACTGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71570602 TTTGATCTGCTCTCTGACAATACAGAGATGCTAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * * *
71570646 TTCGTTCTGCTCTCTGACAATACAGAGATGCCAAGTCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71570690 TTCGATCTGCTCTCTGACAATACAAAGATGCTAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71570734 TTCGATCTGCTCTCTGGCAATACAAAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * * * *
71570778 TTCGACCTGCTCTCTGATAATACAGGGAAGTCAAATTTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * *
71570822 TTCGATCTACTCTTTGACAATACAGAGATGCCAAATCT-ATCATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
** * * *
71570866 TTCGATCAACCCTCTGTCAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71570910 TTTGATTTGCTCTCTGAAAATACAGAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* *
71570954 TTCGATCTGCTCTCTGTCAATACAGAGACTCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71570998 TTTGATCTGCTCTC-CATCAATACAGAGATGCCA
1 TTCGATCTGCTCTCTGA-CAATACAGAGACGCCA
71571031 GATGTCACCG
Statistics
Matches: 550, Mismatches: 90, Indels: 18
0.84 0.14 0.03
Matches are distributed among these distances:
43 4 0.01
44 543 0.99
45 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:71579656 original size:38 final size:38
Alignment explanation
Indices: 71579599--71579677 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
71579589 TGTACTGGGA
*
71579599 CTTCAAGTCATCACAGTCGTCCTCAATTTTCCTCTTTT
1 CTTCAAGTCATCACAGTCGTCCTCAATCTTCCTCTTTT
* *
71579637 CTTCAAGTCATCTCGGTCGTCCTCAATCTTCCTCTTTT
1 CTTCAAGTCATCACAGTCGTCCTCAATCTTCCTCTTTT
71579675 CTT
1 CTT
71579678 TCCTTACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.15, C:0.33, G:0.09, T:0.43
Consensus pattern (38 bp):
CTTCAAGTCATCACAGTCGTCCTCAATCTTCCTCTTTT
Found at i:71583025 original size:17 final size:17
Alignment explanation
Indices: 71583000--71583071 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
71582990 ATAGGAAATA
71583000 ATATATAATAAAATATG
1 ATATATAATAAAATATG
* *
71583017 ATATGTAATAAAATATA
1 ATATATAATAAAATATG
* *
71583034 AAATATAAAAAATATAATG
1 ATATATAATAAA-AT-ATG
* *
71583053 AAATATAA-ATAATATG
1 ATATATAATAAAATATG
71583069 ATA
1 ATA
71583072 AAATAACCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
16 5 0.11
17 26 0.58
18 4 0.09
19 10 0.22
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:71583075 original size:19 final size:19
Alignment explanation
Indices: 71583031--71583076 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
71583021 GTAATAAAAT
71583031 ATAAAATATAAAAAATATA
1 ATAAAATATAAAAAATATA
* * *
71583050 ATGAAATATAAATAATATG
1 ATAAAATATAAAAAATATA
71583069 ATAAAATA
1 ATAAAATA
71583077 ACCTATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
ATAAAATATAAAAAATATA
Found at i:71584721 original size:44 final size:44
Alignment explanation
Indices: 71584671--71585358 Score: 842
Period size: 44 Copynumber: 15.6 Consensus size: 44
71584661 AGCCGAAATG
* *
71584671 TTCGATCTGCTCTCTGACAATACAGTGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * * *
71584715 TTCGATCTACTTTCTGGCAATACTGAGACACCAAATTTGCTATCC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTAT-C
* * * * *
71584760 TT-GACCTACACTCTGACAATACAGAGATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71584803 TTCGATCTGCTCTCTGACAATACAAAGACGCTAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
71584847 TTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * *
71584891 TTCGACCTGCTTTCTGGCAATACAGAGATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
71584935 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCT-ATCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * *
71584979 TTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
71585023 TTCGATCTGCTCTCTGACAATACAAAGACGCTAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
71585067 TTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* ** * *
71585111 TTCGACCTGCTCTCAAACAATACAGAGACGTCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
** *
71585155 TTCGATCTGCTCTCTGACAATACAGAGTTGCCAAATCTGCCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
71585199 TTCGATCTACTCTCTGTCAATACAGAGATGCCAAATCTGCTATA
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
71585243 TTTGATTTGCTCTCTGACAAAACAGAGACTCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * * * *
71585287 TTCGATCTACTCTCTGTCAAAATAGAGACACCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71585331 TTTGATCTGCTCTCCGTCAATACAGAGA
1 TTCGATCTGCTCTCTGACAATACAGAGA
71585359 TTCCAGATGT
Statistics
Matches: 553, Mismatches: 85, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
43 5 0.01
44 543 0.98
45 5 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:71592703 original size:46 final size:46
Alignment explanation
Indices: 71592653--71592828 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
71592643 TGGTTGAGCA
*
71592653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
71592699 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
71592744 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
71592792 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71592829 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.05
45 6 0.05
46 61 0.55
47 29 0.26
48 4 0.04
50 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:71592809 original size:93 final size:93
Alignment explanation
Indices: 71592650--71592821 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
71592640 GGATGGTTGA
* *
71592650 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
71592715 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71592743 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
71592807 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
71592822 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71598763 original size:19 final size:19
Alignment explanation
Indices: 71598749--71598794 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
71598739 GTAATAAAAT
71598749 ATAAAATATAAA-ATATATA
1 ATAAAATATAAATA-ATATA
* *
71598768 ATGAAATATAAATAATATG
1 ATAAAATATAAATAATATA
71598787 ATAAAATA
1 ATAAAATA
71598795 ACCTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAATATAAATAATATA
Found at i:71600197 original size:44 final size:44
Alignment explanation
Indices: 71600142--71600743 Score: 758
Period size: 44 Copynumber: 13.7 Consensus size: 44
71600132 CGAAATGTTT
*
71600142 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* * * *
71600186 GATCTGCTCTCTGGCAATACAGAGGCACCAAATCTGCTATCTTT
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* * *
71600230 GACCTGCTCTCTGATAATACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* *
71600274 GATTTGCTCTCTGACAATACAAAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* *
71600318 GACCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* * * *
71600362 GACCTGTTTTCTGACAATACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* *
71600406 GATCTGCTCTCTGACAATACAGAGATGCCAAATCTGTTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* ** *
71600450 GATCTGCTCTCTGACAATACAAAGACGTTAAATTTGCTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
*
71600494 GATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* * * * * *
71600538 GACCTCCTCTCTAATAATACAGAGACGCCAAATCT-ATCATTTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATCTTC
* * * * *
71600582 GATCTACTCTCTGTCAATACAGAGATGCAAAATCTGCTATCTTT
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* *
71600626 GTTTTGCTCTCTGACAATACAGAGACGCCAAATCTG-TCATCTTC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATCTTC
* * * * * * *
71600670 GATCTACTCTCTGTCAATATAGAGACTCCAAATTTGCTATATTT
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
* * *
71600714 GATCTGCTCTCCGTCAATACAGAGATGCCA
1 GATCTGCTCTCTGACAATACAGAGACGCCA
71600744 GATGTCACCG
Statistics
Matches: 476, Mismatches: 78, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
43 2 0.00
44 472 0.99
45 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
Found at i:71611545 original size:7 final size:7
Alignment explanation
Indices: 71611533--71611563 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
71611523 CTGATATGTA
71611533 ATAAAAT
1 ATAAAAT
71611540 ATAAAAT
1 ATAAAAT
71611547 ATAAAAT
1 ATAAAAT
71611554 ATAAAAT
1 ATAAAAT
71611561 ATA
1 ATA
71611564 TAATGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:71611591 original size:19 final size:19
Alignment explanation
Indices: 71611508--71611592 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 19
71611498 TATAGGGAAT
*
71611508 AATATATAATAAAATCT--
1 AATATATAATAAAATATAA
* *
71611525 GATATGTAATAAAATAT--
1 AATATATAATAAAATATAA
71611542 AA-A-AT-ATAAAATATAA
1 AATATATAATAAAATATAA
*
71611558 AATATATAATGAAATAT-A
1 AATATATAATAAAATATAA
*
71611576 AATAATATGATAAAATA
1 AAT-ATATAATAAAATA
71611593 ACCTATAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 9 0.17
15 1 0.02
16 3 0.06
17 16 0.30
18 6 0.11
19 19 0.35
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (19 bp):
AATATATAATAAAATATAA
Found at i:71613197 original size:44 final size:44
Alignment explanation
Indices: 71613143--71614011 Score: 1120
Period size: 44 Copynumber: 19.8 Consensus size: 44
71613133 AGCCGAAATG
* *
71613143 TTCGATCTGCTCTCTGACAATATAGAGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
71613187 TTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71613231 TTTGACCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71613275 TTTGATCTGCTCTCTGACAATACAGAGACGCTAAATCTGCTAAC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
71613319 TTCGACCTGCTCTCT-AGCAATATAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCTATC
* * * * *
71613363 TTCGACCTTCTTTTTGACAATACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
71613407 TTCGATCTGCTCTCTGACAATAGAGAGATGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* *
71613451 TTCGATCTGCTCTCTGACAATACAGAGACGCTAAATTTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
71613495 TTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
71613539 TTCGACCTGCTCTGTGACAATACAGAGACACCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
71613583 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * * *
71613627 TTCGATCTACTCTCTAACAATACAGAGACGCCAAACCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
71613671 TTCGATCTGCTCTCTGACAATACAAAGACGCTAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71613715 TTTGATCAGCTCTCTGGCAATACAGAGA-GTCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACG-CCAAATCTGCTATC
* * *
71613759 TTCGACCTGTTCTCTGACAATACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * ** *
71613803 TTCGCTCTGCTCTCTGATAATGGAGAGATGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * *
71613847 TTCGATCTACTCTCTGTCAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
71613891 TTTGATTTGCTCTCTGACAATACAAAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * * *
71613935 TTCGATCTGTTCTCTGTCAATATAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * *
71613979 TTTGATCTGCTCTCCGTCAATATAGAGATGCCA
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCA
71614012 GATGTCACCG
Statistics
Matches: 720, Mismatches: 93, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
43 6 0.01
44 708 0.98
45 6 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:71638867 original size:46 final size:46
Alignment explanation
Indices: 71638817--71638989 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
71638807 TTGAGCATCT
71638817 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
71638863 GAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
71638910 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
** * *
71638956 GAGTTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71638990 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:71638970 original size:93 final size:93
Alignment explanation
Indices: 71638811--71638982 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
71638801 GGATGGTTGA
* * * *
71638811 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTTATTGAGT
71638876 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71638904 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-AGTTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTT-ATTGAG
71638968 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
71638983 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTTATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71641248 original size:19 final size:19
Alignment explanation
Indices: 71641224--71641265 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
71641214 TTATTATTAT
71641224 TTTAGATTTGTGTTGAAAA-
1 TTTAGATTTGTGTT-AAAAG
71641243 TTTAGATTTGTGTTAAAAG
1 TTTAGATTTGTGTTAAAAG
71641262 TTTA
1 TTTA
71641266 TTTATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTAGATTTGTGTTAAAAG
Found at i:71643100 original size:48 final size:48
Alignment explanation
Indices: 71643029--71643361 Score: 314
Period size: 48 Copynumber: 6.9 Consensus size: 48
71643019 ACATTTGGGT
* * * *
71643029 GATATGTGTGCCAGTGTAAGACCATGTCTGGGGCATGGCACCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * **
71643077 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTGATC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * *
71643126 -TTGTGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * * *
71643173 GATATGTGCA-CTAATGTAAGACCATGTTTGGAACATGGCATCGGCCAC
1 GATATGAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
** *
71643221 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * **
71643269 GAGATAAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGACTTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
71643317 GACATGTGAACCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
71643362 AATCCACCCT
Statistics
Matches: 228, Mismatches: 50, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 219 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:71643202 original size:96 final size:94
Alignment explanation
Indices: 71643038--71643362 Score: 359
Period size: 96 Copynumber: 3.4 Consensus size: 94
71643028 TGATATGTGT
* * * *
71643038 GCCAGTGTAAGACCATGTCTGGGGCATGGCACCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGATATGAGAGCTAGTGTAAGACCATG
71643103 TTTGGGACATGGCATCAGTGATCTTGTGAGA
65 TTTGGGACATGGCATCAGTGA-CTTGTGAGA
* * *
71643134 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATTGATATGTGCA-CTAATGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGATATGAG-AGCTAGTGTAAGACCAT
* * ** *
71643198 GTTTGGAACATGGCATCGGCCACATTATGAGA
64 GTTTGGGACATGGCATCAGTGAC-TTGTGAGA
* * * *
71643230 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGAGATAAGAGCTAGTGTAAGATCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGATATGAGAGCTAGTGTAAGACCATG
* * *
71643295 TCTGGGACATGGCATCGACTTCGACATGTGA-A
65 TTTGGGACATGGCATC-A-GT-GACTTGTGAGA
* *
71643327 -CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
71643363 ATCCACCCTC
Statistics
Matches: 191, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
95 5 0.03
96 177 0.93
97 3 0.02
98 4 0.02
99 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGATATGAGAGCTAGTGTAAGACCATGT
TTGGGACATGGCATCAGTGACTTGTGAGA
Found at i:71643288 original size:144 final size:144
Alignment explanation
Indices: 71643043--71643361 Score: 430
Period size: 144 Copynumber: 2.2 Consensus size: 144
71643033 TGTGTGCCAG
* ** * *
71643043 TGTAAGACCATGTCTGGGGCATGGCACCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
* ** * *
71643108 GACATGGCATCAGTGATCTTGTGAGAGCCAGTGTAAGA-CTATGTCTGGGACATGGCATCGGCAT
66 GACATGGCATCAGTAATCGAGTAAGAGCCAGTGTAAGATC-ATGTCTGGGACATGGCATCGAC-T
* * *
71643172 T-GATATGTGCACTAA
129 TCGACATGTGAACCAA
71643187 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACGA-TATGAGAGCCAGTGTAAGACCATGTCTG
* *
71643251 GGACATGGCATCGGTAAT-GAGATAAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGACT
65 GGACATGGCATCAGTAATCGAG-TAAGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGACT
*
71643315 TCGACATGTGAACCAG
129 TCGACATGTGAACCAA
71643331 TGTAAGACCATGTTTGGAACATGGCATCGGC
1 TGTAAGACCATGTTTGGAACATGGCATCGGC
71643362 AATCCACCCT
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
143 4 0.03
144 150 0.97
145 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGTAATCGAGTAAGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGACTTC
GACATGTGAACCAA
Found at i:71644397 original size:13 final size:13
Alignment explanation
Indices: 71644379--71644404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71644369 ACAGGCGTGT
71644379 CATGGACACGGGC
1 CATGGACACGGGC
71644392 CATGGACACGGGC
1 CATGGACACGGGC
71644405 ATGTGCCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
CATGGACACGGGC
Found at i:71646673 original size:62 final size:62
Alignment explanation
Indices: 71646602--71646726 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
71646592 TTTCATTATA
*
71646602 ACGTTTGACTCATTTTAATGAAATGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
1 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
71646664 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
1 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
71646726 A
1 A
71646727 TGCAAATATG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (62 bp):
ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
Found at i:71647495 original size:17 final size:17
Alignment explanation
Indices: 71647473--71647507 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71647463 ATAGAAATAA
71647473 CATATTATAATTATCAT
1 CATATTATAATTATCAT
71647490 CATATTATAATTATCAT
1 CATATTATAATTATCAT
71647507 C
1 C
71647508 TTCTTCCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (17 bp):
CATATTATAATTATCAT
Found at i:71657045 original size:29 final size:30
Alignment explanation
Indices: 71656999--71657055 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
71656989 AAATGGAGAA
71656999 AAATACATCAATCATAAAAAAA-ATACATC
1 AAATACATCAATCATAAAAAAATATACATC
*
71657028 AAATACATCAATCGTAAAAAAATATACA
1 AAATACATCAATCATAAAAAAATATACA
71657056 CCAATCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.21
Consensus pattern (30 bp):
AAATACATCAATCATAAAAAAATATACATC
Found at i:71657899 original size:9 final size:9
Alignment explanation
Indices: 71657885--71657914 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
71657875 AAAATATCAT
71657885 ATTAATTTA
1 ATTAATTTA
*
71657894 ATTAATTTG
1 ATTAATTTA
71657903 ATTAATTTA
1 ATTAATTTA
71657912 ATT
1 ATT
71657915 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:71662409 original size:52 final size:53
Alignment explanation
Indices: 71662351--71662471 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 53
71662341 TGGTATGTGC
*
71662351 TTCCGTATAAGACCATAGCTGGGCTATGGAATTGGTGCAATGTGAT-ACGTG-
1 TTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
* ** ** *
71662402 TTCCCGTATAAGACCATAGTTGGGCTATGGTGTCGGTGTGATGTGATAATGTGA
1 TT-CCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
71662456 TTCCGTATAAGACCAT
1 TTCCGTATAAGACCAT
71662472 GTCTGGGAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 2 0.03
52 38 0.63
53 18 0.30
54 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
TTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
Found at i:71667248 original size:52 final size:52
Alignment explanation
Indices: 71667139--71667274 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
71667129 TGAAGGAAAA
* * * **
71667139 GATGTGATATGTGTGCCCGTATAATACCATAGTTGGGCTATGGCATTGGTGC
1 GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
* * * *
71667191 AATGTGATACGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCGTCAGTGT
1 GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
71667243 GATGTGATAATGTGATTCCA-TATAAGACCATA
1 GATGTGAT-ATGTG-TTCCAGTATAAGACCATA
71667275 TCTGTTTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
52 50 0.70
53 16 0.23
54 5 0.07
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (52 bp):
GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
Found at i:71668787 original size:18 final size:18
Alignment explanation
Indices: 71668755--71668790 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
71668745 ACATATTTTC
71668755 TCATACTTATAACATATA
1 TCATACTTATAACATATA
71668773 TCATCACTTAT-ACATATA
1 TCAT-ACTTATAACATATA
71668791 CTAACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TCATACTTATAACATATA
Found at i:71669000 original size:43 final size:42
Alignment explanation
Indices: 71668934--71669095 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 42
71668924 AGCTTGTACA
* *
71668934 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACATGAAATCAAATAT-G
71668977 ATGCC-ACTGTCCTAGACAG-GGTCTTACATGAAATCAAATATG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACATGAAATCAAATATG
* *
71669019 ATGCCAACGTCCTAGACGTGGTCTTACACTTAAAT--AATAAGTCA
1 ATGCCAACGTCCTAGACGTGGTCTTACA-TGAAATCAAAT-A-T-G
* *
71669063 ATGCCAACGTCCCAGAAGTGGTCTTACATGAAA
1 ATGCCAACGTCCTAGACGTGGTCTTACATGAAA
71669096 ACACATATCG
Statistics
Matches: 104, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
41 4 0.04
42 27 0.26
43 46 0.44
44 27 0.26
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACGTGGTCTTACATGAAATCAAATATG
Found at i:71672741 original size:27 final size:27
Alignment explanation
Indices: 71672711--71672885 Score: 163
Period size: 27 Copynumber: 6.4 Consensus size: 27
71672701 TTGAGCCCGT
* *
71672711 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* *
71672738 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
71672765 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
** ** *
71672793 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* ***
71672820 ACACTTAGTGC-ATCATATTCTTTTCGC
1 ACACTTAGTGCTA-CATAATCAACTCGC
* * * *
71672847 ACACTTAGTGCAACATAGTTAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
71672874 ACACTTAGTGCT
1 ACACTTAGTGCT
71672886 GTACAATTTA
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 99 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:71673450 original size:13 final size:13
Alignment explanation
Indices: 71673432--71673456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71673422 TACTAAATTT
71673432 TCATGGATTCAAG
1 TCATGGATTCAAG
71673445 TCATGGATTCAA
1 TCATGGATTCAA
71673457 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:71674251 original size:21 final size:20
Alignment explanation
Indices: 71674210--71674252 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
71674200 TATTCATCCT
* *
71674210 TTCTTTTCTTTTTAATTCAC
1 TTCTTTTATTTTTAATCCAC
71674230 TTCTTTTATTTTCTAATCCAC
1 TTCTTTTATTTT-TAATCCAC
71674251 TT
1 TT
71674253 ACCAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTTTTATTTTTAATCCAC
Found at i:71692576 original size:54 final size:54
Alignment explanation
Indices: 71692514--71692655 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 54
71692504 CAAAATGGTA
* * * *
71692514 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGC
* *
71692567 ATTTCTACCCTACAAGGGTATTTCGGCAATTCTATCCTACAGGGGTATTTCGGC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGC
*
71692621 AATTCTACCCTAC-AGGGTTATTTCGGTAATTCTAC
1 ATTTCTACCCTACAAGGG-TATTTCGGTAATTCTAC
71692656 AACTTATCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 8 0.10
54 70 0.90
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGC
Found at i:71692642 original size:27 final size:27
Alignment explanation
Indices: 71692513--71692655 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
71692503 GCAAAATGGT
* * * * **
71692513 AATTTTACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGC
*
71692540 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGC
* *
71692567 ATTTCTACCCTACAAGGGTATTTCGGC
1 AATTCTACCCTACAGGGGTATTTCGGC
*
71692594 AATTCTATCCTACAGGGGTATTTCGGC
1 AATTCTACCCTACAGGGGTATTTCGGC
* *
71692621 AATTCTACCCTACAGGGTTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGC
71692648 AATTCTAC
1 AATTCTAC
71692656 AACTTATCCA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGC
Found at i:71696004 original size:50 final size:50
Alignment explanation
Indices: 71695929--71696160 Score: 225
Period size: 50 Copynumber: 4.6 Consensus size: 50
71695919 CTCTTACGCA
* * *
71695929 TAGTAGCCTGCACTTAATACAACACATGTGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * * ** *
71695979 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCTGGTACACG
* * *
71696030 TAGTAGCCTGCAGTTAATAC-ACACATGAGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * *** *
71696079 TAGTAGCCTGCACTTAGTACTACACACGTAACCTAA-AACCGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA---TCTGGTACACG
*
71696131 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
71696161 TTCTCACAAC
Statistics
Matches: 143, Mismatches: 34, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
49 29 0.20
50 54 0.38
51 26 0.18
52 34 0.24
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
Found at i:71696100 original size:100 final size:101
Alignment explanation
Indices: 71695926--71696107 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 101
71695916 GCTCTCTTAC
* *
71695926 GCATAGTAGCCTGCACTTAATACAACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAATACAACACATGAGACCTAACAATCTGGTACACGTAGTAGCCTGCA
71695991 CTTAGTACTACACACGTGATCGAAGCTATCAGGTAT
66 CTTAGTACTACACACGTGATCGAAGCTATCAGGTAT
*
71696027 GCATAGTAGCCTGCAGTTAATAC-ACACATGAGACCTAACAATCTGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAATACAACACATGAGACCTAACAATCTGGTACACGTAGTAGCCTGCA
71696091 CTTAGTACTACACACGT
66 CTTAGTACTACACACGT
71696108 AACCTAAAAC
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
100 56 0.72
101 22 0.28
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (101 bp):
GCATAGTAGCCTGCACTTAATACAACACATGAGACCTAACAATCTGGTACACGTAGTAGCCTGCA
CTTAGTACTACACACGTGATCGAAGCTATCAGGTAT
Found at i:71700304 original size:138 final size:138
Alignment explanation
Indices: 71700052--71700611 Score: 770
Period size: 138 Copynumber: 4.1 Consensus size: 138
71700042 TAGAAAAATG
* **
71700052 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTTTTTTATATTTTGACCCAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * *
71700117 TATAAATGTTTATATTAATAAATTCGGTAAAATATATACAATTGATATTTTGTATGAATCAAATC
66 TATAAATGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
71700182 CATATATT
131 CATATATT
* * *
71700190 AATAATATTCTTTCCAAAAGAATATTAATTTCCATGTCTATTATA-CTTGAACTGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG-ACTGAAATTAATTA
* * * *
71700254 ATGTAACTGTTTATATTGATAAATTCAGTGAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAAATGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
71700319 TCATATATT
130 TCATATATT
* * * * * *
71700328 AATTATATTATTCCCAAAAGGATATTAATTTTCATGTCGTTTATATTTTGACTAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * *
71700393 TATAAATGTTTAT-TAATATAAATGT-AGTAAAATACATGCAATTAATATTTTGTATGAATCAAA
66 TATAAATGTTTATATTA-ATAAAT-TCAGTAAAATATATACAATTAATATTTTGTATGAATCAAA
71700456 TTCATATATT
129 TTCATATATT
* * * *
71700466 AATTATCTTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTACATTTTGA-TCGAAATCAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACT-GAAATTAATTA
* **
71700530 CTATAAACCTTTAT-TTCAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAA
65 ATATAAATGTTTATATT-AATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAA
*
71700594 TTTATATATT
129 TTCATATATT
71700604 AATTATAT
1 AATTATAT
71700612 CTATGCTCTT
Statistics
Matches: 370, Mismatches: 45, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
137 6 0.02
138 359 0.97
139 5 0.01
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAAATGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:71705805 original size:30 final size:29
Alignment explanation
Indices: 71705738--71705881 Score: 134
Period size: 29 Copynumber: 4.9 Consensus size: 29
71705728 GCTATCGAAT
*
71705738 AATGAAAAAGGATGGTGACGACCATCAAC
1 AATGAAAAGGGATGGTGACGACCATCAAC
71705767 AATGAAAAGGGATGGTGACGACCATCAA-
1 AATGAAAAGGGATGGTGACGACCATCAAC
** * *
71705795 AATGTGAAAAGGGATAACT-TCTG-CTATCAA-
1 AA--TGAAAAGGGAT-GGTGAC-GACCATCAAC
* *
71705825 ATTCTGAAAAGGGATGGTGATGACCATCAAC
1 A--ATGAAAAGGGATGGTGACGACCATCAAC
*
71705856 AATAAAAAGGGATGGTGACGACCATC
1 AATGAAAAGGGATGGTGACGACCATC
71705882 GAATTTCAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.02
29 51 0.55
30 36 0.39
31 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (29 bp):
AATGAAAAGGGATGGTGACGACCATCAAC
Found at i:71705850 original size:89 final size:88
Alignment explanation
Indices: 71705709--71706030 Score: 342
Period size: 89 Copynumber: 3.6 Consensus size: 88
71705699 TCATCGACTA
* * * * * *
71705709 ATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAAGGATGGTGACGACCATCAACAATGAAA
1 ATGAAAAAGGATAACTTCTGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
71705774 AGGGATGGTGACGACCATCAAAAT
66 AGGGATGGTGACGACCATC-AAAT
* * * * *
71705798 GTGAAAAGGGATAACTTCTGCTATCAAATTCTGAAAAGGGATGGTGATGACCATCAACAATAAAA
1 ATGAAAAAGGATAACTTCTGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
*
71705863 AGGGATGGTGACGACCATCGAAT
66 AGGGATGGTGACGACCATCAAAT
* * * * * *
71705886 TTCAAAAAAGGATAACCTT-GGCTATCAAATTATAAAAAGGGATGGTGACAACCATTAACAATGA
1 AT-GAAAAAGGATAA-CTTCTGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGA
* * * * *
71705950 AAAAGGATGGTAACGACCTTTGAATT
64 AAAGGGATGGTGACGACC-ATCAAAT
* * * *
71705976 ATGAAAAAGGATAGC-TCTGGCTATCGAACTATGAAAAGGGATGGTGACAACCATC
1 ATGAAAAAGGATAACTTCT-GCTATCAAATTATGAAAAGGGATGGTGACGACCATC
71706031 GTGACTTTAC
Statistics
Matches: 194, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
87 1 0.01
88 5 0.03
89 181 0.93
90 7 0.04
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (88 bp):
ATGAAAAAGGATAACTTCTGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
AGGGATGGTGACGACCATCAAAT
Found at i:71711396 original size:17 final size:18
Alignment explanation
Indices: 71711374--71711407 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71711364 CACATTGAAG
71711374 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
71711391 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
71711408 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:71716537 original size:24 final size:24
Alignment explanation
Indices: 71716510--71716556 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
71716500 GGCCCAAAAC
71716510 CCCTTACAGAGCCCAAACAAGTCT
1 CCCTTACAGAGCCCAAACAAGTCT
71716534 CCCTTACAGAGCCCAAACAAGTC
1 CCCTTACAGAGCCCAAACAAGTC
71716557 GACATACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.38, G:0.13, T:0.15
Consensus pattern (24 bp):
CCCTTACAGAGCCCAAACAAGTCT
Found at i:71716599 original size:28 final size:28
Alignment explanation
Indices: 71716567--71716644 Score: 104
Period size: 29 Copynumber: 2.8 Consensus size: 28
71716557 GACATACATG
*
71716567 CATATGGCCCACTAGGCCCAATC-TCATT
1 CATATGGCCCATTAGGCCCAATCAT-ATT
71716595 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCC-AATCATATT
* *
71716624 CGTATGGCCCATTTGGCCCAA
1 CATATGGCCCATTAGGCCCAA
71716645 ATCACTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 20 0.44
29 24 0.53
30 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCATATT
Found at i:71716629 original size:29 final size:30
Alignment explanation
Indices: 71716601--71716656 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
71716591 CATTCATATG
*
71716601 GCCCATTAGGCCCAAATCAT-ATTCGTATG
1 GCCCATTAGGCCCAAATCATCATTCATATG
* *
71716630 GCCCATTTGGCCCAAATCA-CTTTCATA
1 GCCCATTAGGCCCAAATCATCATTCATA
71716657 CGACCTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (30 bp):
GCCCATTAGGCCCAAATCATCATTCATATG
Found at i:71721085 original size:47 final size:47
Alignment explanation
Indices: 71721026--71721146 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
71721016 GCATTGGCAC
*
71721026 TAAGACAAGGATACCATGTAAGACCATATTTGGAAAATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATATTTGGAAAATGACATTTGG
* * *
71721073 TAAGACAAGGATACCATGTAAGAGCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATATTTGGAAAATGACATTTGG
* *
71721120 TAAGATAAGGATATCATGTAAGACCAT
1 TAAGACAAGGATACCATGTAAGACCAT
71721147 GCCAAGGCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATATTTGGAAAATGACATTTGG
Found at i:71721190 original size:54 final size:54
Alignment explanation
Indices: 71721120--71721333 Score: 198
Period size: 54 Copynumber: 4.0 Consensus size: 54
71721110 TGACATTTGG
* * *
71721120 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * ** * * *
71721174 TAAGGTAAGGAAATCATGTAAGACCATTTCAAGACATAGCATTGATGAGTTACTT
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTA
* * * * *
71721229 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * * * * * *
71721282 TAAAGCAAGGATGCCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
71721334 AAAAAGGAAA
Statistics
Matches: 131, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
52 4 0.03
53 39 0.30
54 45 0.34
55 39 0.30
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
Found at i:71721254 original size:55 final size:53
Alignment explanation
Indices: 71721134--71721318 Score: 165
Period size: 55 Copynumber: 3.4 Consensus size: 53
71721124 ATAAGGATAT
* * * * * * ***
71721134 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAAT
1 CATGTAAGACCATGTCAAGACATAGCATTGATGAGTTC-ATAAAGCAAGGATCC
* * *
71721188 CATGTAAGACCATTTCAAGACATAGCATTGATGAGTTACTTTAAGGCAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATAGCATTGATGAGTT-C-ATAAAGC-AAGGATCC
* * * * *
71721243 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAAGCAAGGATGC
1 CATGTAAGACCATGTCAAGACATAGCATTGATGAGTTCATAAAGCAAGGATCC
*
71721296 CAAGTAAGACCATGTCAAGACAT
1 CATGTAAGACCATGTCAAGACAT
71721319 GGCAATGGTA
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 4 0.04
53 27 0.25
54 33 0.31
55 39 0.36
56 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATAGCATTGATGAGTTCATAAAGCAAGGATCC
Found at i:71721334 original size:53 final size:54
Alignment explanation
Indices: 71721126--71721333 Score: 195
Period size: 53 Copynumber: 3.9 Consensus size: 54
71721116 TTGGTAAGAT
* * * *
71721126 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAAGC
* * ** * * * *
71721180 AAGGAAATCATGTAAGACCATTTCAAGACATAGCATTGATGAGTTACTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAAGC
* * * *
71721235 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAAGC
* * * * *
71721288 AAGGATGCCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
71721334 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 40 0.31
55 39 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAAGC
Found at i:71723902 original size:15 final size:16
Alignment explanation
Indices: 71723877--71723909 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
71723867 ATATGTGTAC
71723877 ATTTACTTTCAGATAT
1 ATTTACTTTCAGATAT
71723893 ATTT-CTTTCAGATAT
1 ATTTACTTTCAGATAT
71723908 AT
1 AT
71723910 ATATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
ATTTACTTTCAGATAT
Found at i:71726576 original size:36 final size:36
Alignment explanation
Indices: 71726529--71726605 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
71726519 TGATGTTTCC
71726529 ATAGAAGGGAAAAATGTTCAAGGTGTCATAAAACAT
1 ATAGAAGGGAAAAATGTTCAAGGTGTCATAAAACAT
71726565 ATAGAAGGGAAAAATGTTCAAGGTGTCATAAAACAT
1 ATAGAAGGGAAAAATGTTCAAGGTGTCATAAAACAT
71726601 A-AGAA
1 ATAGAA
71726606 AAATGGATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.21
Consensus pattern (36 bp):
ATAGAAGGGAAAAATGTTCAAGGTGTCATAAAACAT
Found at i:71727158 original size:15 final size:14
Alignment explanation
Indices: 71727111--71727158 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
71727101 GTAAGTTGAG
71727111 TAGCATTTTATTAT
1 TAGCATTTTATTAT
*
71727125 TATGCAATTATTGTTAT
1 TA-GC-ATT-TTATTAT
71727142 TAGCATTGTTATTAT
1 TAGCATT-TTATTAT
71727157 TA
1 TA
71727159 AGTTATGTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 13 0.46
16 5 0.18
17 8 0.29
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.54
Consensus pattern (14 bp):
TAGCATTTTATTAT
Found at i:71727536 original size:54 final size:54
Alignment explanation
Indices: 71727472--71727679 Score: 161
Period size: 53 Copynumber: 3.9 Consensus size: 54
71727462 AGGATATCAT
* * * *
71727472 AAGGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGA
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAAGA
* * ** * *
71727526 AAGGAAATCATGTAAGAACTTATCAAGACATGGCATTGATGAGTTACTATAAAGC
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAAGA
* * * * * * *
71727581 AA--AAGTCCCATGTAAAACTATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGT
1 AAGGAAAT--CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAAGA
* * * * * *
71727634 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
71727680 AAAAAGGAAA
Statistics
Matches: 119, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 42 0.35
54 38 0.32
55 39 0.33
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAAGA
Found at i:71727613 original size:55 final size:53
Alignment explanation
Indices: 71727478--71727632 Score: 147
Period size: 55 Copynumber: 2.9 Consensus size: 53
71727468 TCATAAGGAT
* * * * *
71727478 ATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGAAAGGAA
1 ATCATGTAAAACTATGCCAAGGCATGGCATTGATGAGTTCTATAAAGAAA-GAA
* *
71727532 ATCATGTAAGAACTTAT--CAAGACATGGCATTGATGAGTTACTATAAAGCAA-AA
1 ATCATGTAA-AAC-TATGCCAAGGCATGGCATTGATGAGTT-CTATAAAGAAAGAA
* *
71727585 GTCCCATGTAAAACTATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAG
1 AT--CATGTAAAACTATGCCAAGGCATGGCATTGATGAGTTCTATAAAG
71727633 TAAGGATACC
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
53 12 0.14
54 32 0.38
55 38 0.45
56 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (53 bp):
ATCATGTAAAACTATGCCAAGGCATGGCATTGATGAGTTCTATAAAGAAAGAA
Found at i:71729697 original size:27 final size:26
Alignment explanation
Indices: 71729666--71729768 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 26
71729656 TACGGAACAT
*
71729666 AAGGGCATAGTCGTCATTTTACCATAC
1 AAGGGCATACTCGTCATTTTACC-TAC
* * *
71729693 AAGGGTATTAC-GGTCTTTTTACTCTAC
1 AAGGGCA-TACTCGTCATTTTAC-CTAC
*
71729720 AGGGGCATTACT-GTCATTTTACCCTAC
1 AAGGGCA-TACTCGTCATTTTA-CCTAC
*
71729747 AAGGGCATTAC-AGTCATTTTAC
1 AAGGGCA-TACTCGTCATTTTAC
71729769 AAATCGGGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.02
27 58 0.92
28 4 0.06
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (26 bp):
AAGGGCATACTCGTCATTTTACCTAC
Found at i:71729792 original size:27 final size:27
Alignment explanation
Indices: 71729748--71729862 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
71729738 TTACCCTACA
* * *
71729748 AGGGCATTACAGTCATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
71729775 GGGGTATTTTGGTAATTTTACAAATAG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
71729802 AGGGTATTTCAGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
71729829 AGGGCATTTCTA-TAATTTTA-TAATCG
1 AGGGTATTTC-AGTAATTTTACAAATCG
71729855 AGGGTATT
1 AGGGTATT
71729863 AACGACCTAA
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
26 11 0.15
27 59 0.83
28 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:71730093 original size:17 final size:19
Alignment explanation
Indices: 71730063--71730102 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
71730053 CAGATTTTAT
71730063 CCATGTGGGCCCACA-GGC
1 CCATGTGGGCCCACACGGC
*
71730081 CCAT-TGGGTCCACACGGC
1 CCATGTGGGCCCACACGGC
71730099 CCAT
1 CCAT
71730103 CAAGGCCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.40, G:0.28, T:0.15
Consensus pattern (19 bp):
CCATGTGGGCCCACACGGC
Found at i:71734231 original size:18 final size:19
Alignment explanation
Indices: 71734208--71734257 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
71734198 CTTGGCCCAT
*
71734208 TGCAGTAATAGTAAAT-AG
1 TGCAGTAATAGTAAATCAA
*
71734226 TGCAGTAACAGT-AATCAA
1 TGCAGTAATAGTAAATCAA
71734244 TGCAGTAATAGTAA
1 TGCAGTAATAGTAA
71734258 GCAGTATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 23 0.85
19 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (19 bp):
TGCAGTAATAGTAAATCAA
Found at i:71734626 original size:27 final size:27
Alignment explanation
Indices: 71734592--71734718 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 27
71734582 CATCAGATAG
**
71734592 GGGCAAAACAGTCATCCTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
71734619 GGGCAAAATAGTCATTTTACCTA-ATAA
1 GGGCAAAACAGTCATTTTACC-ACATAA
**
71734646 GGGCAAAATTGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* * **
71734673 GGGAAAAACCGTCATTTTAATACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
71734700 -GGCAAAACA-ACATTTTACC
1 GGGCAAAACAGTCATTTTACC
71734719 TTACATGGGT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.08
26 8 0.10
27 68 0.81
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:71734740 original size:27 final size:26
Alignment explanation
Indices: 71734710--71734825 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
71734700 GGCAAAACAA
* * * *
71734710 CATTTTACCTTACATGGGTATTACAGT
1 CATTTTACCCTATAGGGGTATTTC-GT
71734737 CATTTTACCCTATAGGGGTATTTCGAT
1 CATTTTACCCTATAGGGGTATTTCG-T
*
71734764 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTC-GT
*
71734791 CATTTTACCCTTTAGGGGTATTTCGAT
1 CATTTTACCCTATAGGGGTATTTCG-T
71734818 CATTTTAC
1 CATTTTAC
71734826 AAGTAAATAA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
26 2 0.03
27 76 0.96
28 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (26 bp):
CATTTTACCCTATAGGGGTATTTCGT
Found at i:71734772 original size:54 final size:54
Alignment explanation
Indices: 71734710--71734825 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
71734700 GGCAAAACAA
* *
71734710 CATTTTACCTTACATGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCGAT
1 CATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCGAT
** * * *
71734764 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTCGAT
1 CATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCGAT
71734818 CATTTTAC
1 CATTTTAC
71734826 AAGTAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (54 bp):
CATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCGAT
Found at i:71739790 original size:40 final size:40
Alignment explanation
Indices: 71739734--71739941 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
71739724 CGGATGATAA
* *
71739734 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
71739774 TCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71739814 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
71739854 CCGGGCTAGGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71739894 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
71739934 CC-GGCTAA
1 CCGGGCTAA
71739942 ATCCATAAGG
Statistics
Matches: 151, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 8 0.05
40 142 0.94
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71742127 original size:46 final size:46
Alignment explanation
Indices: 71742077--71742252 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
71742067 TGGTTGAGCA
71742077 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71742123 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71742168 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71742216 -CCTGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71742253 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71742233 original size:93 final size:93
Alignment explanation
Indices: 71742074--71742245 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
71742064 GGATGGTTGA
*
71742074 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
71742139 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71742167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
71742231 TTGAGTTCGAGTTCG
65 TTGAGTCCGAGTTCG
71742246 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71748072 original size:16 final size:16
Alignment explanation
Indices: 71748051--71748082 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71748041 GGCCGAATGT
71748051 AAGAAAGAAAAAGAAG
1 AAGAAAGAAAAAGAAG
71748067 AAGAAAGAAAAAGAAG
1 AAGAAAGAAAAAGAAG
71748083 CCATTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAAAGAAG
Found at i:71751917 original size:43 final size:43
Alignment explanation
Indices: 71751772--71751928 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
71751762 TGTGTTATCG
* *
71751772 TGTAAGACCACGTCTGGGACGATGGCATGGAT-TTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGATGGCATCGATATT-TGA-TTACA
* * * *
71751816 TGTAAGACCATGTCTGGGAC-ATTGGCATC-ATATATAATTTCA
1 TGTAAGACCACGTCTGGGACGA-TGGCATCGATATTTGATTACA
* *
71751858 TGTATGACC-CTGTCTGGGAC-AGTGGCATCGATATTTGATCACA
1 TGTAAGACCAC-GTCTGGGACGA-TGGCATCGATATTTGATTACA
*
71751901 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGATGGCAT
71751929 TGTACAAGCT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 27 0.29
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGATGGCATCGATATTTGATTACA
Found at i:71757737 original size:15 final size:16
Alignment explanation
Indices: 71757714--71757761 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
71757704 TAGTATCGTA
71757714 TCTTGGGTTTCTTTAT
1 TCTTGGGTTTCTTTAT
*
71757730 TC-TGGGTTTCTCTA-
1 TCTTGGGTTTCTTTAT
*
71757744 TCTTGGATTTCTTTAT
1 TCTTGGGTTTCTTTAT
71757760 TC
1 TC
71757762 GATTTCCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 21 0.78
16 4 0.15
ACGTcount: A:0.08, C:0.17, G:0.17, T:0.58
Consensus pattern (16 bp):
TCTTGGGTTTCTTTAT
Found at i:71757857 original size:20 final size:20
Alignment explanation
Indices: 71757832--71757871 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
71757822 TTTAGCTCGT
71757832 GATAATGATGTCAAGTCTAA
1 GATAATGATGTCAAGTCTAA
71757852 GATAATGATGTCAAGTCTAA
1 GATAATGATGTCAAGTCTAA
71757872 CTATACTTCT
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:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
GATAATGATGTCAAGTCTAA
Found at i:71760262 original size:46 final size:46
Alignment explanation
Indices: 71760209--71760384 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
71760199 TATTTGGGCA
**
71760209 TCCGAACTTTTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* ** * *
71760255 TCCGAACTCGTTGAGTTGGGTCTAAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
* *
71760300 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
** *
71760348 -CCTGAGGTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71760385 GCAGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 5 0.05
46 56 0.54
47 25 0.24
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:71760318 original size:93 final size:93
Alignment explanation
Indices: 71760205--71760376 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
71760195 AGGATATTTG
** *
71760205 GGCATCCGAACTTTTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCC-GAACTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAACTCGTTGA
*
71760269 GTTGGGTCTAAGTTCGTGAGATGTAACTA
65 GTTGAGTCTAAGTTCGTGAGATGTAACTA
* **
71760298 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGGTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
*
71760363 TTGAGTCTGAGTTC
66 TTGAGTCTAAGTTC
71760377 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
TTGAGTCTAAGTTCGTGAGATGTAACTA
Found at i:71763019 original size:7 final size:7
Alignment explanation
Indices: 71762992--71763023 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
71762982 TTCTTGCAAT
71762992 TTAATT-
1 TTAATTA
71762998 TTAATTA
1 TTAATTA
71763005 TT-ATTA
1 TTAATTA
71763011 TTAATTA
1 TTAATTA
71763018 TTAATT
1 TTAATT
71763024 TACTTATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTAATTA
Found at i:71768915 original size:23 final size:23
Alignment explanation
Indices: 71768882--71768929 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
71768872 TAATTGCATG
* *
71768882 ATTTATGTAT-GCATGATAATTGC
1 ATTTATATATGGCATGA-AAATGC
71768905 ATTTATATATGGCATGAAAATGC
1 ATTTATATATGGCATGAAAATGC
71768928 AT
1 AT
71768930 CTTTGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (23 bp):
ATTTATATATGGCATGAAAATGC
Found at i:71779329 original size:23 final size:23
Alignment explanation
Indices: 71779283--71779330 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
71779273 TAATTGCATG
*
71779283 ATTTATGTATGCATGATAATTGC
1 ATTTATGTATGCATGATAAATGC
*
71779306 ATTTATTTATTGCATGA-AAATGC
1 ATTTATGTA-TGCATGATAAATGC
71779329 AT
1 AT
71779331 CTTTGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (23 bp):
ATTTATGTATGCATGATAAATGC
Found at i:71783946 original size:39 final size:40
Alignment explanation
Indices: 71783829--71784013 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
71783819 GCTACTCGTT
* *
71783829 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCAG-A
1 CAAATGCCTTAGGGACTTAGCCCGGATT-TAGTAACTC-GCA
* * *
71783869 CAATTGCCTTGGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTAGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
71783909 CAAATGCCTTAGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTAGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
71783948 CAAATGCCTT-CGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTAGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
71783989 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTAGGGACTTAGCCCGGA
71784014 CATCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 72 0.60
41 13 0.11
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTAGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:71797985 original size:42 final size:42
Alignment explanation
Indices: 71797921--71798035 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
71797911 TTGAGATTTA
* *
71797921 CGTGTAAGACCATGTCTGGGACATCA-GCATC-ATATCTAAACT
1 CGTGTAAGACCATATCTAGGACAT-AGGCATCAATA-CTAAACT
* *
71797963 CGTGTAAGACCCTATCTAGGACATAGGCATCAATACTAAATT
1 CGTGTAAGACCATATCTAGGACATAGGCATCAATACTAAACT
* * * * *
71798005 ACATTTAAGACCACATCTGGGACATCGGCAT
1 -CGTGTAAGACCATATCTAGGACATAGGCAT
71798036 TGTACCCGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 32 0.53
43 27 0.45
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGACATAGGCATCAATACTAAACT
Found at i:71815573 original size:43 final size:43
Alignment explanation
Indices: 71815454--71815606 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 43
71815444 CGAGATATGA
* ** * *
71815454 TTCGTGTAAGACCACGTCTGGGACGTTGACATCAATTTGAGAT
1 TTCGTGTAAGACCATGTCTGGGACAATGACATCGATTAGAGAT
* * ** * *
71815497 ATCGTGTAAGACCTTGTCTGAAACACTGTCATCGATTAGAGAT
1 TTCGTGTAAGACCATGTCTGGGACAATGACATCGATTAGAGAT
*
71815540 TTCGTTGT-AGACCATGTCTGGGACAATGGCATCGA-TATGTA-AT
1 TTCG-TGTAAGACCATGTCTGGGACAATGACATCGATTA-G-AGAT
* * *
71815583 TACATGTAAGACCACGTCTGGGAC
1 TTCGTGTAAGACCATGTCTGGGAC
71815607 GTTGGCATTG
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 5 0.06
43 78 0.90
44 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TTCGTGTAAGACCATGTCTGGGACAATGACATCGATTAGAGAT
Found at i:71817813 original size:24 final size:25
Alignment explanation
Indices: 71817767--71817813 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
71817757 GTTTTATCAT
** *
71817767 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGGAGGCAAAGCCCTTTTTA
71817792 ATAACTGG-GGCAAAGCCCTTTT
1 ATAACTGGAGGCAAAGCCCTTTT
71817814 CACTTCCTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (25 bp):
ATAACTGGAGGCAAAGCCCTTTTTA
Found at i:71825584 original size:24 final size:24
Alignment explanation
Indices: 71825538--71825611 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 24
71825528 GTTTTATCAT
** * *
71825538 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGG-GGCAAAGCCCTTTTCA
71825563 ATAACTGGGGCAAAGCCCTTTTCA
1 ATAACTGGGGCAAAGCCCTTTTCA
*
71825587 GTAAACTGGGGCAAAGCCCTTTTCA
1 AT-AACTGGGGCAAAGCCCTTTTCA
71825612 CTTCCTCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 13 0.30
25 30 0.70
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCCTTTTCA
Found at i:71832125 original size:40 final size:40
Alignment explanation
Indices: 71832037--71832330 Score: 382
Period size: 40 Copynumber: 7.4 Consensus size: 40
71832027 TGATAACTGA
* * *
71832037 GCTAAGTACCGAAGGCATTT-TACGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGT--GCGAGTTACTA-TATCCGG
* * *
71832078 GCTAAGTCGCGAAGGCATTTGTGCGAGTTATTACATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
71832118 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
71832158 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
71832198 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
71832238 GCTAAGTCCCGAAGGCAATGGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
71832278 GCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
71832316 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
71832331 TACTTGGCTT
Statistics
Matches: 227, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
38 15 0.07
39 14 0.06
40 179 0.79
41 18 0.08
42 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:71838720 original size:34 final size:33
Alignment explanation
Indices: 71838655--71838720 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
71838645 AACATAGTGT
**
71838655 CAGTACAATCTGGGCCAAAGCCTTATTCAGTAA
1 CAGTACAATCTGGGCCAAAGCCTTAAACAGTAA
* **
71838688 CAGTACAGTCTGGGCCTTAGCCCTTAAACAGTA
1 CAGTACAATCTGGGCCAAAG-CCTTAAACAGTA
71838721 GCAATATGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (33 bp):
CAGTACAATCTGGGCCAAAGCCTTAAACAGTAA
Found at i:71838830 original size:30 final size:31
Alignment explanation
Indices: 71838755--71838836 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
71838745 CAGTCTCGAT
*
71838755 ATAT-ACTGGGCCAAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
71838785 ATATCACTGGGCCGAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
*
71838816 ATATCA-TTGGCCGAAGCCTTT
1 ATATCACTGGGCCGAAGCCTTT
71838837 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 18 0.37
31 31 0.63
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTTCATAAATC
Found at i:71839094 original size:25 final size:25
Alignment explanation
Indices: 71839061--71839125 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
71839051 TTAATAATTG
*
71839061 GGGCAAAGCCCTTTTTGATAAACTA
1 GGGCAAAGCCCTTTTCGATAAACTA
* * * *
71839086 GGGCAAAGCTCGTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGATAAACTA
*
71839111 GGGCATAGCCCTTTT
1 GGGCAAAGCCCTTTT
71839126 AGCACTTCCT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAACTA
Found at i:71840122 original size:29 final size:28
Alignment explanation
Indices: 71840052--71840132 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
71840042 GTAAATCTAC
*
71840052 AAACCAAGGGTATTTC-AGTAA-TTTTAT
1 AAACCAAGGGTATTTCTA-TAATTTTTAG
*
71840079 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAATTTTTAG
* *
71840107 AAAGTCAAGGGTATTTCTGTAATTTT
1 AAA-CCAAGGGTATTTCTATAATTTT
71840133 GTAAATCAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 18 0.39
28 9 0.20
29 19 0.41
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTATAATTTTTAG
Found at i:71840256 original size:54 final size:54
Alignment explanation
Indices: 71840029--71840265 Score: 208
Period size: 54 Copynumber: 4.3 Consensus size: 54
71840019 TTTCATCCTA
* * * * * *
71840029 CAAGGGTGTTTTCGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTATAAAC
* * * * * * *
71840083 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTATAAAC
* * * * *
71840139 CAGGGGTATTTTGGTAAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGT-AATTTTACAAACTAAGGGTATTTCGGTAATTTTATAAAC
* * * *
71840193 CTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTATAAAC
*
71840248 CAAGGGTATTTTAGTAAT
1 CAAGGGTATTTTGGTAAT
71840266 CTTGTAAATA
Statistics
Matches: 144, Mismatches: 32, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
54 58 0.40
55 42 0.29
56 42 0.29
57 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTATAAAC
Found at i:71840259 original size:27 final size:27
Alignment explanation
Indices: 71840029--71840265 Score: 156
Period size: 27 Copynumber: 8.7 Consensus size: 27
71840019 TTTCATCCTA
* * * * *
71840029 CAAGGGTGTTTTCGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
**
71840056 CAAGGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
71840083 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
71840112 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
71840139 CAGGGGTATTTTGGTAAATTTTACAAAT
1 CAAGGGTATTTTGGT-AATTTTATAAAC
** * * *
71840167 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
71840193 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
71840221 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
71840248 CAAGGGTATTTTAGTAAT
1 CAAGGGTATTTTGGTAAT
71840266 CTTGTAAATA
Statistics
Matches: 168, Mismatches: 35, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
26 3 0.02
27 113 0.67
28 37 0.22
29 15 0.09
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:71840280 original size:27 final size:28
Alignment explanation
Indices: 71840114--71840282 Score: 138
Period size: 27 Copynumber: 6.2 Consensus size: 28
71840104 TAGAAAGTCA
71840114 AGGGTATTTCT-GTAATTTTGTAAA-TCAG
1 AGGGTATTT-TGGTAATTTTGTAAACT-AG
* * *
71840142 -GGGTATTTTGGTAAATTT-TACAAATTG
1 AGGGTATTTTGGTAATTTTGTA-AACTAG
* ***
71840169 AGGGTATTTCGGTAATTTCACAAACTAG
1 AGGGTATTTTGGTAATTTTGTAAACTAG
* **
71840197 -TGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTTGGTAATTTTGTAAACTAG
*
71840224 -GGGTATTTTGGTAATTTTGTAAACCA-
1 AGGGTATTTTGGTAATTTTGTAAACTAG
* *
71840250 AGGGTATTTTAGTAATCTTGTAAA-TAG
1 AGGGTATTTTGGTAATTTTGTAAACTAG
71840277 AGGGTA
1 AGGGTA
71840283 AAACGATAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.03
27 91 0.78
28 20 0.17
29 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (28 bp):
AGGGTATTTTGGTAATTTTGTAAACTAG
Found at i:71840292 original size:27 final size:27
Alignment explanation
Indices: 71840270--71840417 Score: 206
Period size: 27 Copynumber: 5.5 Consensus size: 27
71840260 AGTAATCTTG
* *
71840270 TAAATAGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
71840297 TAAATCGAGGGTAAAACGATAAATCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
** *
71840324 TAAATTAAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
71840351 TAAATCGAGGGTAAAACGGTAATTTTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
71840378 TAAATTGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
71840405 TAAATCGAGGGTA
1 TAAATCGAGGGTA
71840418 CTTTGATAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:71840428 original size:54 final size:54
Alignment explanation
Indices: 71840270--71840441 Score: 227
Period size: 54 Copynumber: 3.2 Consensus size: 54
71840260 AGTAATCTTG
* * * *
71840270 TAAATAGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAAATCTA
1 TAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTA
* * *
71840324 TAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
1 TAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTA
* ****
71840378 TAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGATAATTTTA
1 TAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTA
*
71840432 CAAATTGAGG
1 TAAATTGAGG
71840442 ACATTTTAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
TAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTA
Found at i:71844927 original size:47 final size:46
Alignment explanation
Indices: 71844859--71844983 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 46
71844849 ATCGATAAGA
* * *
71844859 ACCTATACATAGCCCGTAGCCAAATCAAGGTAACTTATCCCAAAGT
1 ACCTATACATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
** * *
71844905 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAGGTCCTCTCAAAAT
1 ACCTATA-CATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
71844952 ACCTATACATTGGCCC-TAGCCAAATCAAGGTA
1 ACCTATACA-TGGCCCGTAGCCAAATCAAGGTA
71844984 TTATTCGCGC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 25 0.36
47 45 0.64
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (46 bp):
ACCTATACATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
Found at i:71845307 original size:42 final size:42
Alignment explanation
Indices: 71845248--71845333 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
71845238 AGAAACAACG
71845248 AAACTAGTCGATTAATCGAGCACTTTGTTCTTGCATCGATCT
1 AAACTAGTCGATTAATCGAGCACTTTGTTCTTGCATCGATCT
* * *
71845290 AAACTAGTCGATTAATCGAGTACTTTTTTCTTGCCTCGATCT
1 AAACTAGTCGATTAATCGAGCACTTTGTTCTTGCATCGATCT
71845332 AA
1 AA
71845334 GTCCAAAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (42 bp):
AAACTAGTCGATTAATCGAGCACTTTGTTCTTGCATCGATCT
Found at i:71845499 original size:9 final size:9
Alignment explanation
Indices: 71845485--71845509 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71845475 CCTATTTCAT
71845485 AAATTCACA
1 AAATTCACA
71845494 AAATTCACA
1 AAATTCACA
71845503 AAATTCA
1 AAATTCA
71845510 ATTTTAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTCACA
Found at i:71850577 original size:28 final size:28
Alignment explanation
Indices: 71850514--71850636 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
71850504 ATATTAAGTC
*
71850514 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
71850541 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
71850569 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71850597 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
71850626 CGCACACTTAG
1 CGCACACTTAG
71850637 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71858385 original size:79 final size:82
Alignment explanation
Indices: 71858274--71858458 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
71858264 GCTACTCGTT
* * *
71858274 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71858337 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
71858354 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
71858417 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
71858434 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71858459 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:71858458 original size:40 final size:40
Alignment explanation
Indices: 71858255--71858458 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
71858245 CGGAATTTAA
** *
71858255 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
71858295 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71858335 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71858374 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71858414 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71858454 CCGGA
1 CCGGA
71858459 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
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:71865556 original size:79 final size:82
Alignment explanation
Indices: 71865445--71865629 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
71865435 GCTACTCGTT
* * *
71865445 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71865508 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
71865525 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
71865588 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
71865605 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71865630 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:71865629 original size:40 final size:40
Alignment explanation
Indices: 71865426--71865629 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
71865416 CGAAATTTAA
** *
71865426 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
71865466 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71865506 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71865545 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71865585 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71865625 CCGGA
1 CCGGA
71865630 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.