Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 69 of 295
Found at i:19936380 original size:22 final size:20
Alignment explanation
Indices: 19936339--19936382 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
19936329 TCTTTCTAGG
*
19936339 TTTTATATATATTTGAATTT
1 TTTTATATATATTTCAATTT
*
19936359 TTTTATATATTTATTTCTATTT
1 TTTTATATA--TATTTCAATTT
19936381 TT
1 TT
19936383 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATATATATTTCAATTT
Found at i:19936806 original size:29 final size:27
Alignment explanation
Indices: 19936771--19936824 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
19936761 TTGAGTGTAT
**
19936771 TTTAGGTACTGAAGTGAGACAAAAAAAAG
1 TTTAGGTACCAAAGTG-GA-AAAAAAAAG
19936800 TTTAGGTACCAAAGTGGAAAAAAAA
1 TTTAGGTACCAAAGTGGAAAAAAAA
19936825 TATATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 2 0.09
29 14 0.61
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.20
Consensus pattern (27 bp):
TTTAGGTACCAAAGTGGAAAAAAAAAG
Found at i:19939237 original size:15 final size:17
Alignment explanation
Indices: 19939217--19939254 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
19939207 TTGCTCTCCA
19939217 TCTTTTTA-TTTA-TTC
1 TCTTTTTATTTTATTTC
19939232 TCTTTTTATTTTATTTC
1 TCTTTTTATTTTATTTC
19939249 TCTTTT
1 TCTTTT
19939255 CTTTACACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 4 0.19
17 9 0.43
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTATTTTATTTC
Found at i:19940203 original size:34 final size:34
Alignment explanation
Indices: 19940128--19940206 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
19940118 AAATTATTAA
* * *
19940128 AAGCATAATAATTGCTACCGTATTGATTTGTTAT
1 AAGCATATTAACTGCTACCGTATTGATATGTTAT
*
19940162 GAGCATATTAACTGCTACCGTATTGATATGTTAT
1 AAGCATATTAACTGCTACCGTATTGATATGTTAT
19940196 AAGCATATTAA
1 AAGCATATTAA
19940207 ATGTTATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (34 bp):
AAGCATATTAACTGCTACCGTATTGATATGTTAT
Found at i:19940228 original size:34 final size:34
Alignment explanation
Indices: 19940128--19940231 Score: 109
Period size: 34 Copynumber: 3.1 Consensus size: 34
19940118 AAATTATTAA
* * *
19940128 AAGCATAATAATTGCTACCGTATTGATTTGTTAT
1 AAGCATATTAAATGCTACCATATTGATTTGTTAT
* * * *
19940162 GAGCATATTAACTGCTACCGTATTGATATGTTAT
1 AAGCATATTAAATGCTACCATATTGATTTGTTAT
* ** *
19940196 AAGCATATTAAATGTTATTATATTTATTTGTTAT
1 AAGCATATTAAATGCTACCATATTGATTTGTTAT
19940230 AA
1 AA
19940232 ATATGTCAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (34 bp):
AAGCATATTAAATGCTACCATATTGATTTGTTAT
Found at i:19944751 original size:43 final size:44
Alignment explanation
Indices: 19944660--19944751 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
19944650 AACTCCACAG
* * * * *
19944660 CGTTTGTAAAAAAAAGTGTCGCTAAAGATCATGTTCTGTAGTGG
1 CGTTTGTAAAAAAAAGCGCCGCTAAAGATAATGTTCTATAGTGC
*
19944704 CGTTTGT-AATAAAAGCGCCGCTAAAGATAATGTTCTATAGAT-C
1 CGTTTGTAAAAAAAAGCGCCGCTAAAGATAATGTTCTATAG-TGC
19944747 CGTTT
1 CGTTT
19944752 TCCCACATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (44 bp):
CGTTTGTAAAAAAAAGCGCCGCTAAAGATAATGTTCTATAGTGC
Found at i:19954806 original size:15 final size:15
Alignment explanation
Indices: 19954786--19954824 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19954776 TAACAAATGC
19954786 CACCTTTTTCTAAAT
1 CACCTTTTTCTAAAT
**
19954801 CACCTTTCCCTAAAT
1 CACCTTTTTCTAAAT
*
19954816 CCCCTTTTT
1 CACCTTTTT
19954825 TAATAGCAAG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (15 bp):
CACCTTTTTCTAAAT
Found at i:19964358 original size:47 final size:47
Alignment explanation
Indices: 19964305--19964431 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
19964295 ATGTGAATAA
* * * * * *
19964305 TACCTTGATTTGGCTATGGGCCTTGATGTAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCTGAGAGAAGT
* * *
19964352 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCTGAGAGAAGT
19964399 TACCTTGATTTGGCTACGGGCCATTG-TATAGGT
1 TACCTTGATTTGGCTACGGGCCA-TGATATAGGT
19964432 GCTTATCGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
47 68 0.97
48 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCTGAGAGAAGT
Found at i:19965962 original size:29 final size:30
Alignment explanation
Indices: 19965898--19965964 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
19965888 CAATTAGGGT
* *
19965898 TTATCAGGTACTATGTGCTAGTGATTACAG
1 TTATCAGGTACTATGTACCAGTGATTACAG
* *
19965928 TTATCAGGTACTTTGTACCGGTG-TTACAG
1 TTATCAGGTACTATGTACCAGTGATTACAG
19965957 TTATCAGG
1 TTATCAGG
19965965 CAGTTTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (30 bp):
TTATCAGGTACTATGTACCAGTGATTACAG
Found at i:19965981 original size:29 final size:29
Alignment explanation
Indices: 19965922--19965992 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
19965912 GTGCTAGTGA
* *
19965922 TTACAGTTATCAGGTACTTTGTACCGGTG
1 TTACAGTTATCAGGCACTTTGTACCGATG
* **
19965951 TTACAGTTATCAGGCAGTTTGTGTCGATG
1 TTACAGTTATCAGGCACTTTGTACCGATG
*
19965980 TTATA-TTATCAGG
1 TTACAGTTATCAGG
19965993 TAGTGGACAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 8 0.22
29 28 0.78
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (29 bp):
TTACAGTTATCAGGCACTTTGTACCGATG
Found at i:19981885 original size:130 final size:130
Alignment explanation
Indices: 19981659--19981932 Score: 291
Period size: 130 Copynumber: 2.1 Consensus size: 130
19981649 AACAACTTGT
* * * * * *
19981659 TGATTTACGATCACTGTTGTTATTATTAAGGTTTGTTGATTTATGATCACCACTTAAGTTCATTG
1 TGATTTACGATCACTGCTGATATTATTAAGGCTTGTTAATTTACGATCACCACCTAAGTTCATTG
** * * * ** *
19981724 ATTTATGATCATGAACAATTTATTTTAAGTTAGTTGATTTGTGATTACAACTCCAAACAGCTCGC
66 ATTTACAATCACGAACAATTTATTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTCGC
* * *
19981789 TTATTTACGATCAC-GACTGATATTATTAAGGCTTGTTAATTTACGGTTA-CAGCCTAAGTTCAT
1 TGATTTACGATCACTG-CTGATATTATTAAGGCTTGTTAATTTACGATCACCA-CCTAAGTTCAT
* * * * * **
19981852 TGATTTACAATCACGAATAATTTCTTCTGAGTTAGCTGGTTTACGATCGCAACTTTAAACAGCTC
64 TGATTTACAATCACGAACAATTTATTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTC
19981917 GC
129 GC
*
19981919 TGATTTACAATCAC
1 TGATTTACGATCAC
19981933 AGTCTAAGTT
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
129 3 0.03
130 113 0.97
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (130 bp):
TGATTTACGATCACTGCTGATATTATTAAGGCTTGTTAATTTACGATCACCACCTAAGTTCATTG
ATTTACAATCACGAACAATTTATTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTCGC
Found at i:19982017 original size:94 final size:94
Alignment explanation
Indices: 19981837--19982019 Score: 204
Period size: 94 Copynumber: 1.9 Consensus size: 94
19981827 ATTTACGGTT
* * * * **
19981837 ACAGCCTAAGTTCATTGATTTACAATCACGAATAATTTCTTCTGAGTTAGCTGGTTTACGATCGC
1 ACAGCCTAAGTTCATTGATTTACAATCACGAACAATTTCTTCTGAGTTAACTGATTTACAATCAA
** *
19981902 AACTTTAAACAGCTCGCTGATTTACAATC
66 AACTCCAAACAACTCGCTGATTTACAATC
* ** * * * *
19981931 ACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGTTAATTTATTTACAATCAA
1 ACAGCCTAAGTTCATTGATTTACAATCACGAACAATTTCTTCTGAGTTAACTGATTTACAATCAA
* *
19981996 AACTCCAAATAACTCGTTGATTTA
66 AACTCCAAACAACTCGCTGATTTA
19982020 TGGTCACGAT
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (94 bp):
ACAGCCTAAGTTCATTGATTTACAATCACGAACAATTTCTTCTGAGTTAACTGATTTACAATCAA
AACTCCAAACAACTCGCTGATTTACAATC
Found at i:19982088 original size:130 final size:130
Alignment explanation
Indices: 19981913--19982640 Score: 900
Period size: 130 Copynumber: 5.6 Consensus size: 130
19981903 ACTTTAAACA
* * ** * *
19981913 GCTCGCTGATTTACAATCACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
** * ** * *
19981978 TAATTTATTTACAATCAAAACTCCAAATAACTCGTTGATTTATGGTCACGATTGATATTATTAAG
66 TAGCTGATTTACAATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* * * * ** *
19982043 GCTCGTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* * * * *
19982108 TAGTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAG
66 TAGCTGATTTACAATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* *
19982173 ACTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* ** * * * * *
19982238 TAGCTAATTTATGACCGCAACTCCAAACAACTC-TTGATTTATGATAACGATTGATATTATTAAA
66 TAGCTGATTTACAATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* * * * *
19982302 GCTCGTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* * * * * *
19982367 TGGCTGAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATTATTAAT
66 TAGCTGATTTACAATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
** * * * *
19982432 GCTCACTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* ** * * *
19982497 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATTATTAAG
66 TAGCTGATTTACAATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* *
19982562 GCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
*
19982627 TAGTTGATTTACAA
66 TAGCTGATTTACAA
19982641 GCGTAACTTA
Statistics
Matches: 505, Mismatches: 92, Indels: 2
0.84 0.15 0.00
Matches are distributed among these distances:
129 107 0.21
130 398 0.79
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (130 bp):
GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
TAGCTGATTTACAATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
Found at i:19982101 original size:224 final size:224
Alignment explanation
Indices: 19981713--19982155 Score: 555
Period size: 224 Copynumber: 2.0 Consensus size: 224
19981703 GATCACCACT
* * *** * *
19981713 TAAGTTCATTGATTTATGATCATGAACAATTTATTTTAAGTTAGTTGATTTGTGATTACAACTCC
1 TAAGTTCATTGATTTATGATCATGAACAATTTATTCTAAGTTAATTGATTTACAATCAAAACTCC
* * * *
19981778 AAACAGCTCGCTTATTTACGATCACGACTGATATTATTAAGGCTTGTTAATTTACGGTTACAGCC
66 AAACAACTCGCTTATTTACGATCACGACTGATATTATTAAGGCTCGTTAATTTACGATCACAGCC
** * **
19981843 TAAGTTCATTGATTTACAATCACGAATAATTTCTTCTGAGTTAGCTGGTTTACGATCGCAACTTT
131 TAAGTTCATTGATTTACAATCACGAATAATTTCTTCCAAGTTAGCTGATTTACGATCGCAACTCC
19981908 AAACAGCTCGCTGATTTACAATCACAGTC
196 AAACAGCTCGCTGATTTACAATCACAGTC
* * * *
19981937 TAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGTTAATTTATTTACAATCAAAACTCC
1 TAAGTTCATTGATTTATGATCATGAACAATTTATTCTAAGTTAATTGATTTACAATCAAAACTCC
* * * * * * *
19982002 AAATAACTCG-TTGATTTATGGTCACGATTGATATTATTAAGGCTCGTTGATTTATGATCACATC
66 AAACAACTCGCTT-ATTTACGATCACGACTGATATTATTAAGGCTCGTTAATTTACGATCACAGC
* * * * *
19982066 TTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGTTAGTTGATTTACGATCGCAACTC
130 CTAAGTTCATTGATTTACAATCACGAATAATTTCTTCCAAGTTAGCTGATTTACGATCGCAACTC
* * *
19982131 CAAATAGCTCGTTGATTTACGATCA
195 CAAACAGCTCGCTGATTTACAATCA
19982156 TGATTGATAT
Statistics
Matches: 183, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
223 2 0.01
224 181 0.99
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (224 bp):
TAAGTTCATTGATTTATGATCATGAACAATTTATTCTAAGTTAATTGATTTACAATCAAAACTCC
AAACAACTCGCTTATTTACGATCACGACTGATATTATTAAGGCTCGTTAATTTACGATCACAGCC
TAAGTTCATTGATTTACAATCACGAATAATTTCTTCCAAGTTAGCTGATTTACGATCGCAACTCC
AAACAGCTCGCTGATTTACAATCACAGTC
Found at i:19982343 original size:259 final size:260
Alignment explanation
Indices: 19981913--19982640 Score: 1019
Period size: 259 Copynumber: 2.8 Consensus size: 260
19981903 ACTTTAAACA
* * * *
19981913 GCTCGCTGATTTACAATCACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGT
1 GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
** * ** * ** * *
19981978 TAATTTATTTACAATCAAAACTCCAAATAACTCGTTGATTTATGGTCACGATTGATATTATTAAG
66 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
* * * ** *
19982043 GCTCGTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGT
131 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
*
19982108 TAGTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAA-
196 TAGTTGATTTACAATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAT
* * *
19982172 GACTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
1 G-CTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAG
*
19982237 TTAGCTAATTTATGACCGCAACTCCAAACAACTC-TTGATTTATGATAACGATTGATATTATTAA
65 TTAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAA
* * * * *
19982301 AGCTCGTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
130 GGCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAG
* * * * * * *
19982366 TTGGCTGAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATTATTAA
195 TTAGTTGATTTACAATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAA
19982431 T
260 T
* * * *
19982432 GCTCACTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGT
1 GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* *
19982497 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATTATTAAG
66 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
* **
19982562 GCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAGT
131 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
19982627 TAGTTGATTTACAA
196 TAGTTGATTTACAA
19982641 GCGTAACTTA
Statistics
Matches: 410, Mismatches: 56, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
259 232 0.57
260 178 0.43
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (260 bp):
GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
TAGTTGATTTACAATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAT
Found at i:19982409 original size:389 final size:389
Alignment explanation
Indices: 19981912--19982629 Score: 1076
Period size: 389 Copynumber: 1.8 Consensus size: 389
19981902 AACTTTAAAC
* * *
19981912 AGCTCGCTGATTTACAATCACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAG
1 AGCTCGCTGATTTACAATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
* * * *
19981977 TTAATTTATTTACAATCAAAACTCCAAATAACTCGTTGATTTATGGTCACGATTGATATTATTAA
66 TTAACTGAATTACAATCAAAACTCCAAATAACTCGTTGATTTATGATCACGATTGATATTATTAA
** * * * **
19982042 GGCTCGTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAG
131 GGCTCACTAATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTTCTTCCAAG
* * * * *
19982107 TTAGTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAA
196 TTAGCTAATTTACGACCGCAACTCCAAACAACTCGTTGATTTACGATCATGATTGATATTACTAA
*
19982172 GACTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
261 GACTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
19982237 TTAGCTAATTTATGACCGCAACTCCAAACAACTCTTGATTTATGATAACGATTGATATTATTAA
326 TTAGCTAATTTATGACCGCAACTCCAAACAACTCTTGATTTATGATAACGATTGATATTATTAA
* *
19982301 AGCTCGTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
1 AGCTCGCTGATTTACAATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
** ** * * *
19982366 TTGGCTGAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATTATTAA
66 TTAACTGAATTACAATCAAAACTCCAAATAACTCGTTGATTTATGATCACGATTGATATTATTAA
* * * *
19982431 TGCTCACTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAG
131 GGCTCACTAATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTTCTTCCAAG
* * * *
19982496 TTAGCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATTATTAA
196 TTAGCTAATTTACGACCGCAACTCCAAACAACTCGTTGATTTACGATCATGATTGATATTACTAA
* * *
19982561 GGCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAG
261 GACTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
19982626 TTAG
326 TTAG
19982630 TTGATTTACA
Statistics
Matches: 289, Mismatches: 40, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
389 289 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (389 bp):
AGCTCGCTGATTTACAATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
TTAACTGAATTACAATCAAAACTCCAAATAACTCGTTGATTTATGATCACGATTGATATTATTAA
GGCTCACTAATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTTCTTCCAAG
TTAGCTAATTTACGACCGCAACTCCAAACAACTCGTTGATTTACGATCATGATTGATATTACTAA
GACTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
TTAGCTAATTTATGACCGCAACTCCAAACAACTCTTGATTTATGATAACGATTGATATTATTAA
Found at i:19982504 original size:63 final size:63
Alignment explanation
Indices: 19982437--19982638 Score: 156
Period size: 63 Copynumber: 3.1 Consensus size: 63
19982427 TTAATGCTCA
*
19982437 CTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTAG
1 CTAATTTACGATCACAACTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTAG
* * * * ** * *** *
19982500 CTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATT-AT-TAAGG
1 CTAATTTACGATCACAACT---TA-AGTTCATTTATTTATGATCATGAACAAT-TTCTTCTAA-G
*
19982563 CTAG
60 TTAG
* * * * *
19982567 TTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAGTTAG
1 CTAATTTACGATCACAACTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTAG
* *
19982630 TTGATTTAC
1 CTAATTTAC
19982639 AAGCGTAACT
Statistics
Matches: 101, Mismatches: 30, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
62 2 0.02
63 49 0.49
64 4 0.04
66 4 0.04
67 40 0.40
68 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (63 bp):
CTAATTTACGATCACAACTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTAG
Found at i:19990991 original size:27 final size:26
Alignment explanation
Indices: 19990955--19991069 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
19990945 AGCATGGCTG
* *
19990955 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
19990981 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
19991009 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
19991036 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
19991063 CCAGAAC
1 CCAGAAC
19991070 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:19991019 original size:54 final size:54
Alignment explanation
Indices: 19990955--19991069 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
19990945 AGCATGGCTG
*
19990955 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAAAGCCA
* * * *
19991009 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCA
19991063 CCAGAAC
1 CCAGAAC
19991070 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCA
Found at i:19992723 original size:26 final size:26
Alignment explanation
Indices: 19992687--19992796 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
19992677 CATGAAATTC
19992687 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19992713 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19992739 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
19992765 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
19992791 TTATCA
1 TTATCA
19992797 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:20004330 original size:37 final size:37
Alignment explanation
Indices: 20004289--20004362 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
20004279 GATGAGAGAT
20004289 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
1 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
20004326 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
1 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
20004363 ATCATAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (37 bp):
TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
Found at i:20006911 original size:22 final size:21
Alignment explanation
Indices: 20006876--20006951 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
20006866 AAAAGGTATC
* *
20006876 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
20006897 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
20006920 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
20006939 TGC-AATCATATCT
1 TACAAATCATATCT
20006952 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:20006936 original size:19 final size:19
Alignment explanation
Indices: 20006912--20006983 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
20006902 AATCATATCT
20006912 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
20006931 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
20006949 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
20006966 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
20006984 TGCAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20006968 original size:35 final size:37
Alignment explanation
Indices: 20006905--20006983 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
20006895 ATTACAAAAT
20006905 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
20006941 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
20006976 CATATCAT
1 CATATCAT
20006984 TGCAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:20006981 original size:14 final size:15
Alignment explanation
Indices: 20006926--20006981 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
20006916 AGATTGCATA
20006926 TCATATCTAAGATTG
1 TCATATCTAAGATTG
20006941 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
20006959 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
20006976 -CATATC
1 TCATATC
20006982 ATTGCAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:20009264 original size:18 final size:17
Alignment explanation
Indices: 20009243--20009289 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
20009233 AATTTTAAAA
20009243 AATATTTTTATAAATTTT
1 AATATTTTTA-AAATTTT
*
20009261 AATATTTTTAATATTTT
1 AATATTTTTAAAATTTT
*
20009278 TA-ATTTTTAAAA
1 AATATTTTTAAAA
20009290 ATTAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 9 0.35
17 7 0.27
18 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATATTTTTAAAATTTT
Found at i:20009269 original size:9 final size:9
Alignment explanation
Indices: 20009243--20009285 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
20009233 AATTTTAAAA
20009243 AATATTTTT
1 AATATTTTT
*
20009252 -ATAAATTTT
1 AAT-ATTTTT
20009261 AATATTTTT
1 AATATTTTT
20009270 AATATTTTT
1 AATATTTTT
20009279 AAT-TTTT
1 AATATTTT
20009286 AAAAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 6 0.20
9 22 0.73
10 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:20010394 original size:30 final size:30
Alignment explanation
Indices: 20010359--20010418 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
20010349 TATTTTATTA
*
20010359 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
20010389 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
20010419 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:20012447 original size:13 final size:14
Alignment explanation
Indices: 20012424--20012452 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20012414 ATATTATAAA
20012424 TTAATAAAAATATT
1 TTAATAAAAATATT
20012438 TTAA-AAAAATATT
1 TTAATAAAAATATT
20012451 TT
1 TT
20012453 CATTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAATAAAAATATT
Found at i:20015028 original size:29 final size:28
Alignment explanation
Indices: 20014995--20015050 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
20014985 CGTATAGATG
20014995 GGTAACAAATTAATTAATATATTTATATA
1 GGTAACAAATTAATT-ATATATTTATATA
*
20015024 GGTAACAAATTAGTTATATATTTATAT
1 GGTAACAAATTAATTATATATTTATAT
20015051 TTGTACTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
GGTAACAAATTAATTATATATTTATATA
Found at i:20018059 original size:23 final size:25
Alignment explanation
Indices: 20018033--20018079 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20018023 TATCATTCAT
*
20018033 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
20018056 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
20018080 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:20018400 original size:46 final size:46
Alignment explanation
Indices: 20018340--20018689 Score: 421
Period size: 46 Copynumber: 8.0 Consensus size: 46
20018330 TTTGACGTGA
* * * * * *
20018340 TGCCATAGTGTCTTTCTACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
20018386 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
20018432 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
20018478 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
20018524 TGCCATGGTATCTTTCAACCATGGTCTTA--CA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
20018562 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
20018608 TGCCATGGTATCTTTCAACCATGGTCTTA--CA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
20018646 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
20018690 AGAGCACACT
Statistics
Matches: 269, Mismatches: 17, Indels: 36
0.84 0.05 0.11
Matches are distributed among these distances:
38 67 0.25
39 2 0.01
40 4 0.01
41 2 0.01
43 2 0.01
44 4 0.01
45 6 0.02
46 182 0.68
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:20018456 original size:92 final size:84
Alignment explanation
Indices: 20018384--20018689 Score: 477
Period size: 84 Copynumber: 3.5 Consensus size: 84
20018374 TTTCTGTCAT
* * * *
20018384 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCA
20018449 ACCATGGTCTTACACATCTCATATCAG
66 ACCATGGTCTT--ACA---C--A-CAG
*
20018476 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATTAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCA
20018541 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
*
20018560 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCA
20018625 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
*
20018644 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
20018690 AGAGCACACT
Statistics
Matches: 207, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
84 131 0.63
85 1 0.00
87 1 0.00
90 3 0.01
92 71 0.34
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:20018571 original size:38 final size:38
Alignment explanation
Indices: 20018520--20018678 Score: 246
Period size: 38 Copynumber: 4.0 Consensus size: 38
20018510 ATTTCATATT
20018520 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
20018558 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-C
20018604 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
20018642 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
20018679 TTTCATATCA
Statistics
Matches: 113, Mismatches: 0, Indels: 16
0.88 0.00 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
Found at i:20018617 original size:130 final size:123
Alignment explanation
Indices: 20018384--20018679 Score: 414
Period size: 130 Copynumber: 2.3 Consensus size: 123
20018374 TTTCTGTCAT
*
20018384 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--C---ACA--TCACGTTGCCATGGTATCTTTCA
20018449 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTT
59 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC-T-TACA---
*
20018514 CATATTAG
119 C--A-CAG
*
20018522 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA-CAGGTTGCCATGGTATCTTTCAACCATGG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCACGTTGCCATGGTATCTTTCAACCATGG
*
20018586 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
66 TCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
20018644 GTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
20018680 TTCATATCAG
Statistics
Matches: 153, Mismatches: 4, Indels: 17
0.88 0.02 0.10
Matches are distributed among these distances:
122 37 0.24
123 1 0.01
125 1 0.01
128 4 0.03
129 1 0.01
130 75 0.49
133 2 0.01
136 1 0.01
138 31 0.20
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (123 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCACGTTGCCATGGTATCTTTCAACCATGG
TCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:20020903 original size:31 final size:32
Alignment explanation
Indices: 20020827--20020903 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
20020817 CTAATAAAAT
*
20020827 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
20020859 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
20020889 AATATTAAAATATCT
1 AATAATAAAATATCT
20020904 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:20023103 original size:13 final size:13
Alignment explanation
Indices: 20023085--20023110 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20023075 GGTTTTTGTT
20023085 TTATCTAAACTAA
1 TTATCTAAACTAA
20023098 TTATCTAAACTAA
1 TTATCTAAACTAA
20023111 GAATTCACAG
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:20028483 original size:44 final size:44
Alignment explanation
Indices: 20028417--20028507 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
20028407 AACTCTATTT
* *
20028417 TTAGTTTCTTACTTAAATTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
20028461 TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
20028505 TTA
1 TTA
20028508 TTTGACCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:20035363 original size:31 final size:31
Alignment explanation
Indices: 20035325--20035427 Score: 111
Period size: 31 Copynumber: 3.4 Consensus size: 31
20035315 TAATCTCATT
*
20035325 AATATTAAATTAATAAAATATTATCCAGATA
1 AATATTAAATTAATAAAATATTATCCACATA
** * *
20035356 AATATTAAATT--TAATTTATTATCTCATATT
1 AATATTAAATTAATAAAATATTATC-CACATA
* * *
20035386 AATAATAAATTAATAAAATACTATCTACATA
1 AATATTAAATTAATAAAATATTATCCACATA
20035417 AATATTAAATT
1 AATATTAAATT
20035428 TAATTTAATA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 10 0.18
30 14 0.25
31 24 0.42
32 9 0.16
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (31 bp):
AATATTAAATTAATAAAATATTATCCACATA
Found at i:20035418 original size:61 final size:61
Alignment explanation
Indices: 20035322--20035450 Score: 213
Period size: 61 Copynumber: 2.1 Consensus size: 61
20035312 AATTAATCTC
* * * *
20035322 ATTAATATTAAATTAATAAAATATTATCCAGATAAATATTAAATTTAATTTATTATCTCAT
1 ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
*
20035383 ATTAATAATAAATTAATAAAATACTATCTACATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
20035444 ATTAATA
1 ATTAATA
20035451 TCTAGATAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.43
Consensus pattern (61 bp):
ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
Found at i:20038229 original size:25 final size:25
Alignment explanation
Indices: 20038148--20038269 Score: 115
Period size: 25 Copynumber: 4.9 Consensus size: 25
20038138 AATTTTCTCG
* * *
20038148 AAATTTTAACGAGAGTAAAATTGTCA
1 AAATTTTATCG-GGGTAAAATTGTTA
* **
20038174 AAATTTTATTGGGGGT--AATCATTA
1 AAATTTTA-TCGGGGTAAAATTGTTA
20038198 AAATTTTATCGGGGTAAAATTGTTA
1 AAATTTTATCGGGGTAAAATTGTTA
*
20038223 AAATTTTA-CTGGGGTACAATTGTTA
1 AAATTTTATC-GGGGTAAAATTGTTA
* *
20038248 AAATTTTATTGGGGTACAATTG
1 AAATTTTATCGGGGTAAAATTG
20038270 GGGTGAGAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.08
24 14 0.17
25 48 0.60
26 11 0.14
27 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.39
Consensus pattern (25 bp):
AAATTTTATCGGGGTAAAATTGTTA
Found at i:20038251 original size:50 final size:49
Alignment explanation
Indices: 20038148--20038269 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 49
20038138 AATTTTCTCG
* * *
20038148 AAATTTTAACGAGAGTAAAATTGTCAAAATTTTATTGGGGGTAATCATTA
1 AAATTTTATCG-GGGTAAAATTGTCAAAATTTTACTGGGGGTAATCATTA
* **
20038198 AAATTTTATCGGGGTAAAATTGTTAAAATTTTACT-GGGGTACAATTGTTA
1 AAATTTTATCGGGGTAAAATTGTCAAAATTTTACTGGGGGT--AATCATTA
* *
20038248 AAATTTTATTGGGGTACAATTG
1 AAATTTTATCGGGGTAAAATTG
20038270 GGGTGAGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 5 0.08
49 21 0.34
50 36 0.58
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.39
Consensus pattern (49 bp):
AAATTTTATCGGGGTAAAATTGTCAAAATTTTACTGGGGGTAATCATTA
Found at i:20039899 original size:3 final size:3
Alignment explanation
Indices: 20039891--20039928 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
20039881 TTTTTAAAAC
*
20039891 TAT TAT TAT TAT TAT TAT TAT TAT TACT TTT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
20039929 TATTTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20040058 original size:43 final size:45
Alignment explanation
Indices: 20039992--20040077 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 45
20039982 TTTCCTGGAC
* *
20039992 GTTTGTTTTTTGTCTCTCTTTTCTTTTGTCTCCTGATCTTTTTTT
1 GTTTGTTTTTTGTCACTCTTTTCTTTTGGCTCCTGATCTTTTTTT
* *
20040037 GTTT-TTTTTT-TCACTTTTTTCTTTTGGCTCCTGTTCTTTTT
1 GTTTGTTTTTTGTCACTCTTTTCTTTTGGCTCCTGATCTTTTT
20040078 GGCTTCTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 27 0.73
44 6 0.16
45 4 0.11
ACGTcount: A:0.02, C:0.17, G:0.10, T:0.70
Consensus pattern (45 bp):
GTTTGTTTTTTGTCACTCTTTTCTTTTGGCTCCTGATCTTTTTTT
Found at i:20040091 original size:43 final size:43
Alignment explanation
Indices: 20040010--20040091 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
20040000 TTTGTCTCTC
* * * *
20040010 TTTTCTTTTGTCTCCTGATCTTTTTTTGTTTTTTTTTTCACTT
1 TTTTCTTTTGGCTCCTGATCTTTTTTGGTTCTTCTTTTCACTT
*
20040053 TTTTCTTTTGGCTCCTGTTC-TTTTTGGCTTCTTCTTTTC
1 TTTTCTTTTGGCTCCTGATCTTTTTTGG-TTCTTCTTTTC
20040092 TTTTGCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 6 0.18
43 27 0.82
ACGTcount: A:0.02, C:0.20, G:0.10, T:0.68
Consensus pattern (43 bp):
TTTTCTTTTGGCTCCTGATCTTTTTTGGTTCTTCTTTTCACTT
Found at i:20040772 original size:22 final size:21
Alignment explanation
Indices: 20040725--20040773 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
20040715 TCCCTAGTTT
* **
20040725 ACACGGGCGTGTGCCTCTGCC
1 ACACGGCCGTGTGCCTCCCCC
20040746 ACACGGCCGTGTGCCTCCCCCC
1 ACACGGCCGTGTGCCT-CCCCC
20040768 ACACGG
1 ACACGG
20040774 GTGTTTTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.12, C:0.45, G:0.29, T:0.14
Consensus pattern (21 bp):
ACACGGCCGTGTGCCTCCCCC
Found at i:20046336 original size:46 final size:45
Alignment explanation
Indices: 20046269--20046567 Score: 357
Period size: 46 Copynumber: 6.7 Consensus size: 45
20046259 GCAACCTGTG
20046269 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA-A
20046315 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG----
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
*
20046353 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA-A
* *
20046399 TGTAAGACCATGGTTGAAAGATACCATGGCAACCAGATATG-AGA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
* *
20046443 TGTGCAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA
1 TGT--AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
* *
20046490 -GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
* * * *
20046535 TGAGTAAGACCATAGTTGAGAGACACTATGGCA
1 T--GTAAGACCATGGTTGAAAGATACCATGGCA
20046568 TCACGTCAAA
Statistics
Matches: 225, Mismatches: 12, Indels: 32
0.84 0.04 0.12
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
44 3 0.01
45 6 0.03
46 172 0.76
47 2 0.01
48 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (45 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
Found at i:20046353 original size:84 final size:84
Alignment explanation
Indices: 20046218--20046523 Score: 454
Period size: 84 Copynumber: 3.5 Consensus size: 84
20046208 AGTGTGCTCT
* *
20046218 CTGATATGAAATGTGTAAGACCATGGTTGAAGGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
20046283 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
20046302 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
20046367 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
* *
20046386 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAGATATGAGATGTGCAAG
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
20046451 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* *
20046478 GTGACATGAAA-A-GAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATATG--TAAGACCATGGTTGAAAGATACCATGGCAAC
20046524 ATGACAGAAA
Statistics
Matches: 205, Mismatches: 7, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
84 128 0.62
89 1 0.00
90 1 0.00
91 1 0.00
92 74 0.36
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (84 bp):
CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:20046873 original size:23 final size:25
Alignment explanation
Indices: 20046828--20046874 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20046818 AATAAATATA
*
20046828 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
20046853 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
20046875 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:20065769 original size:247 final size:237
Alignment explanation
Indices: 20065394--20065879 Score: 758
Period size: 247 Copynumber: 2.0 Consensus size: 237
20065384 ATTTCATAGG
20065394 GGTTTACTAATTTATAAGAATTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTCAAGT
1 GGTTTACTAATTTATAAGAATTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTC-A--
*
20065459 TGTACTTGTAATAAGTAAATTCTCGTATGATTTTATCCTTATGAATTAGCTAATTTTTCTTCAAT
63 --TACTTGTAATAAGTAAATTCTCGTATGATTTTATCCTTATGAATTAGCTAATTTTTCTTCAAG
* *
20065524 GATTGAAGAAGAAAAAACCTACAGCAGTGGGCGATGGGGGTTCAGGGGATTTTAGCTTTATCCAC
126 GATTGAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGC--T-T----
20065589 TATTCCACTTGATGTACAATAACCCTTAACAAATATGAATTAGTATCCTTATAAT
184 TA-TCCACTTGATGTACAATAACCCTTAACAAATATGAATTAGTATCCTTATAAT
*
20065644 GGTTTACTAATTTATATGAATTTTTTTTAAAAACTTAGTTAATTAATTTTGTATTACTGGTTC-T
1 GGTTTACTAATTTATAAGAA-TTTTTTT-AAAACTTAGTTAATTAATTTTGTATTACTGGTTCAT
* *
20065708 AGTTGTAATTAGTAAATTCTCGTATGATTTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGA
64 ACTTGTAATAAGTAAATTCTCGTATGA-TTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGA
20065773 TTGAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGCTTTATCCACTT
128 TTGAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGCTTTATCCACTT
*
20065838 GATGTACAATAACCCTTAACAAATATGAATTAGTGTCCTTAT
193 GATGTACAATAACCCTTAACAAATATGAATTAGTATCCTTAT
20065880 GAATTAGCTA
Statistics
Matches: 226, Mismatches: 7, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
239 48 0.21
240 2 0.01
244 1 0.00
245 1 0.00
246 26 0.12
247 88 0.39
250 19 0.08
251 7 0.03
252 34 0.15
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (237 bp):
GGTTTACTAATTTATAAGAATTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTCATAC
TTGTAATAAGTAAATTCTCGTATGATTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGATTG
AAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGCTTTATCCACTTGAT
GTACAATAACCCTTAACAAATATGAATTAGTATCCTTATAAT
Found at i:20068298 original size:16 final size:16
Alignment explanation
Indices: 20068265--20068299 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20068255 ATGTATTGGC
*
20068265 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
*
20068281 AAAAGCCGAAAAGTCA
1 AAAAGCCGAAAAGCCA
20068297 AAA
1 AAA
20068300 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.20, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:20068566 original size:29 final size:28
Alignment explanation
Indices: 20068522--20068587 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
20068512 ATGAATGTTA
20068522 GGCCATATAAGTGTGATTTGGGCCTAATG
1 GGCCATATAAG-GTGATTTGGGCCTAATG
20068551 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATA-AGGTGATTTGGGCCTAATG
*
20068580 GGCTATAT
1 GGCCATAT
20068588 GAATATGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCCATATAAGGTGATTTGGGCCTAATG
Found at i:20068596 original size:29 final size:29
Alignment explanation
Indices: 20068522--20068619 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
20068512 ATGAATGTTA
*
20068522 GGCCATATA-AGTGTGATTTGGGCCTAATG
1 GGCCATATACAG-ATGATTTGGGCCTAATG
*
20068551 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATACAGATGATTTGGGCCTAATG
* * * *
20068580 GGCTATATGA-ATATGA-TTGGGCTTAGTG
1 GGCCATAT-ACAGATGATTTGGGCCTAATG
*
20068608 GGCCAGATACAG
1 GGCCATATACAG
20068620 GTATGTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.02
28 17 0.29
29 37 0.64
30 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
GGCCATATACAGATGATTTGGGCCTAATG
Found at i:20085717 original size:16 final size:16
Alignment explanation
Indices: 20085670--20085717 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
20085660 GTAACGCCCC
*
20085670 AAAAATCTCGAAATAC-
1 AAAAATCCCGAAAT-CT
*
20085686 AAAAATCCCAAAATCT
1 AAAAATCCCGAAATCT
20085702 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
20085718 CGATTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.54, C:0.23, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAATCCCGAAATCT
Found at i:20086840 original size:16 final size:16
Alignment explanation
Indices: 20086815--20086849 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20086805 ATCTACGGGT
*
20086815 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
*
20086831 AAAAGTCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
20086847 AAA
1 AAA
20086850 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:20090167 original size:215 final size:212
Alignment explanation
Indices: 20089791--20090182 Score: 653
Period size: 215 Copynumber: 1.8 Consensus size: 212
20089781 GCACAAGAAG
20089791 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
1 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
* *
20089856 TTGTTGTTGGATAATTGAGCTTTTGTTGTGTTCTTTTTTTTTTTTGGACTGGTGTAGGTTTCTAT
66 TTGTTGTTGGATAATTGAACTTTTGTTGTGTTC-TTTTTTTTTTTGGACTGGTGTAGGTTTCTAC
20089921 TGTATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGTATTGTTTTTGTTGTTTAT
130 TGTATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGTATTGTTTTTGTTGTTTAT
20089986 TTGGACTCATGAAGAAAC
195 TTGGACTCATGAAGAAAC
20090004 TTAAACTATTCTATAAT-GTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTTGGTT
1 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTA-----GTTTGGTTTGGTT
* *
20090068 AGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTC-TTTTTTTTTTGGAGTGGTGTAGGTTT
61 AGTTATTGTTGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTTTTTGGACTGGTGTAGGTTT
* * *
20090132 CTACTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTATAATGTTGTTGT
126 CTACTGTATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGT
20090183 TTACTTCGAC
Statistics
Matches: 167, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
212 29 0.17
213 17 0.10
215 72 0.43
217 49 0.29
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.56
Consensus pattern (212 bp):
TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
TTGTTGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTTTTTGGACTGGTGTAGGTTTCTACT
GTATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGTATTGTTTTTGTTGTTTATT
TGGACTCATGAAGAAAC
Found at i:20090274 original size:19 final size:19
Alignment explanation
Indices: 20090250--20090293 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
20090240 TGTATTTTTT
*
20090250 TGTTGTTTTTTTGGACTAA
1 TGTTGTTTATTTGGACTAA
**
20090269 TGTTGTTTATTTGGGTTAA
1 TGTTGTTTATTTGGACTAA
20090288 TGTTGT
1 TGTTGT
20090294 GTTGCTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.25, T:0.59
Consensus pattern (19 bp):
TGTTGTTTATTTGGACTAA
Found at i:20090447 original size:5 final size:5
Alignment explanation
Indices: 20090439--20090464 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20090429 GAACAAATAT
20090439 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
20090465 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:20099905 original size:85 final size:85
Alignment explanation
Indices: 20099755--20099923 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 85
20099745 GAAAATGATC
*
20099755 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTTATTA
1 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
20099820 CTACCTAAGTCTTATATATT
66 CTACCTAAGTCTTATATATT
** *
20099840 ATGTTTCGTAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATTATTTGATTA
1 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
20099905 CTACCTAAGTCTTATATAT
66 CTACCTAAGTCTTATATAT
20099924 GTTGAATTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (85 bp):
ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
CTACCTAAGTCTTATATATT
Found at i:20101614 original size:23 final size:24
Alignment explanation
Indices: 20101570--20101618 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
20101560 ATTTCGTTGT
* *
20101570 TTTCTCTTTTTTGAATTTGATTCC
1 TTTCTCTTTTTTCAATTCGATTCC
*
20101594 TTTCT-TTTTTTCTATTCGATTCC
1 TTTCTCTTTTTTCAATTCGATTCC
20101617 TT
1 TT
20101619 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.10, C:0.18, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTCTCTTTTTTCAATTCGATTCC
Found at i:20102887 original size:21 final size:20
Alignment explanation
Indices: 20102854--20102895 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
20102844 TTATATATTC
20102854 TTTTAAATGTAATTTT-ATA
1 TTTTAAATGTAATTTTGATA
20102873 TTTTAAATTTGTAATTTTGATA
1 TTTTAAA--TGTAATTTTGATA
20102895 T
1 T
20102896 ACAATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTAAATGTAATTTTGATA
Found at i:20104466 original size:31 final size:31
Alignment explanation
Indices: 20104397--20104459 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
20104387 ATTTCTACTA
* *
20104397 TATTCTTAGGTTAGAATAATTTACTCCTAATG
1 TATT-TTAGGATAGAATAAATTACTCCTAATG
*
20104429 TATTTTAGGATAGAATAAATTAGCTCTTAAT
1 TATTTTAGGATAGAATAAATTA-CTCCTAAT
20104460 TTTTTTACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
TATTTTAGGATAGAATAAATTACTCCTAATG
Found at i:20114876 original size:3 final size:3
Alignment explanation
Indices: 20114870--20114909 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
20114860 CTTCTTCCTC
20114870 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
20114910 GTAAACACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20118730 original size:9 final size:9
Alignment explanation
Indices: 20118716--20118740 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20118706 TATTATAATG
20118716 CAAATATTA
1 CAAATATTA
20118725 CAAATATTA
1 CAAATATTA
20118734 CAAATAT
1 CAAATAT
20118741 GTGAAGCTGT
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:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
CAAATATTA
Found at i:20123564 original size:40 final size:40
Alignment explanation
Indices: 20123520--20123607 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
20123510 TCAAAATTTG
*
20123520 AATTAAATAGTTCAATTTATTCGGATAAACTCAAATAAAA
1 AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
* ***
20123560 AATTAAAAATTTTGGTTTATTCGGATAAACTCAAATAAAA
1 AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
20123600 AATTAAAA
1 AATTAAAA
20123608 TTTTTGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (40 bp):
AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
Found at i:20123613 original size:40 final size:40
Alignment explanation
Indices: 20123535--20123618 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
20123525 AATAGTTCAA
20123535 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
1 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
*
20123575 TTTATTCGGATAAACTCAAATAAAAAATTAAAATTTTTGG
1 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
20123615 TTTA
1 TTTA
20123619 ACTAGAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (40 bp):
TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
Found at i:20123776 original size:49 final size:49
Alignment explanation
Indices: 20123667--20123776 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
20123657 CCCAAATAAG
* * *
20123667 AAAAGGCAAAACTGCTTCGTTTTGATAAATATTTACCTTTTCTAAAGTT
1 AAAAGGCAAAACTGATTCGTTCTGATAAATATTTACATTTTCTAAAGTT
** * *
20123716 AAAAGAAAAAACT-ATGTCGTTCTGATAAATGTTTATATTTTCTAAAGTT
1 AAAAGGCAAAACTGAT-TCGTTCTGATAAATATTTACATTTTCTAAAGTT
20123765 AAAAGGCAAAAC
1 AAAAGGCAAAAC
20123777 CATTATACTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (49 bp):
AAAAGGCAAAACTGATTCGTTCTGATAAATATTTACATTTTCTAAAGTT
Found at i:20124867 original size:33 final size:32
Alignment explanation
Indices: 20124795--20124867 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
20124785 GAGGTCCAAG
*
20124795 TTTGTCTTAGAAGCCTAGTTGTAATGTCCTTTT
1 TTTGT-TTAGAAGCCTAGTTGTAAGGTCCTTTT
* * * *
20124828 TGTGTTTAGAGGCCTAGTTGTGAGGTTCGTTTT
1 TTTGTTTAGAAGCCTAGTTGTAAGG-TCCTTTT
20124861 TTTGTTT
1 TTTGTTT
20124868 TAAAGACCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.51
Consensus pattern (32 bp):
TTTGTTTAGAAGCCTAGTTGTAAGGTCCTTTT
Found at i:20126268 original size:43 final size:43
Alignment explanation
Indices: 20126211--20126374 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
20126201 TACCGAGATG
* *
20126211 TGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
* *
20126254 TGATTTCATATAAGACCATGTCTGGGACATTGGGATCGTTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
*** * * ** * *
20126297 TGATTTTGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
* * * *
20126340 TGATAACATATAAAACCATATCTGGGATA-TGGCAT
1 TGATTACATATAAGACCATGTCTGGGACATTGGCAT
20126375 TGTATTAGCT
Statistics
Matches: 98, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 5 0.05
43 93 0.95
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
Found at i:20129278 original size:21 final size:21
Alignment explanation
Indices: 20129254--20129293 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20129244 ATATTGATAC
*
20129254 TTTCTTAAGGTATCGATATAT
1 TTTCCTAAGGTATCGATATAT
20129275 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCGATAT
20129294 TCCTACTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (21 bp):
TTTCCTAAGGTATCGATATAT
Found at i:20135545 original size:21 final size:21
Alignment explanation
Indices: 20135520--20135562 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20135510 CGTTCCTGAT
*
20135520 TTTGGCACAACTTTAGGCATA
1 TTTGGCACAACTTTAAGCATA
* *
20135541 TTTGGCATAGCTTTAAGCATA
1 TTTGGCACAACTTTAAGCATA
20135562 T
1 T
20135563 ACACTGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (21 bp):
TTTGGCACAACTTTAAGCATA
Found at i:20142992 original size:48 final size:48
Alignment explanation
Indices: 20142934--20143077 Score: 191
Period size: 48 Copynumber: 3.0 Consensus size: 48
20142924 AGGAGTCTTG
* *
20142934 CACCCTAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGTATCTCC
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTATCTCC
* * * *
20142982 CACCCGAAGTGCCAATATCATGGCCCAAAGCTAAATCAAAGTAACTCA
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTATCTCC
* * **
20143030 CACCAGAAGTGTCAATATCATGGCCTGAAGCCAAATCAATGTAT-TCC
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTATCTCC
20143077 C
1 C
20143078 TAATGACATG
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 3 0.04
48 79 0.96
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.20
Consensus pattern (48 bp):
CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTATCTCC
Found at i:20146559 original size:216 final size:215
Alignment explanation
Indices: 20146179--20146609 Score: 657
Period size: 216 Copynumber: 2.0 Consensus size: 215
20146169 AATTCAACCT
* * * * *
20146179 CTCTGATCAGTGGTAACCCCAATAATTCTTCTAGAAAGACATCTGGAAACTTATAGACAACTAGC
1 CTCTGATCAGTGGTAACCCCAATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTAGC
* * *
20146244 ACTAGTTCAATCTTAGATTTGACACTTTTGTATCTAAAAGATAAGCAAGATAAGCTTCACAACCT
66 ACTAATTCAATCTTAGATTAGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCT
* * **
20146309 TTTCTCACATATCTCTGAGCTGACATCGATGAAATCACAACTGGCAATCAACTTGGA-TCATCTG
131 TTTCTCACATATCTCTGAGCTAACATCAATGAAATCACAACTGGCAATCAAC-TCAACTCATCTG
*
20146373 ATCTAATTCAAAGAATTTCAC
195 ATCCAATTCAAAGAATTTCAC
* * *
20146394 CTCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTGGC
1 CTCTGATCAGTGGTAACCCCAATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTAGC
* *
20146459 ACTAATTCAATCTTAGATTCAGACCCTTTTGTATTTAAAACATAAGCAAGATAAGCTTCACAACC
66 ACTAATTCAATCTTAGATT-AGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACC
* *
20146524 TTTTCTCACATATCTCTGAGTTAACATCAATGAAATCACAACTGGCAATCCACTCAACTCATCTG
130 TTTTCTCACATATCTCTGAGCTAACATCAATGAAATCACAACTGGCAATCAACTCAACTCATCTG
20146589 ATCCAATTCAAAGAATTTCAC
195 ATCCAATTCAAAGAATTTCAC
20146610 TGTTCTGACA
Statistics
Matches: 194, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
215 77 0.40
216 117 0.60
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (215 bp):
CTCTGATCAGTGGTAACCCCAATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTAGC
ACTAATTCAATCTTAGATTAGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCT
TTTCTCACATATCTCTGAGCTAACATCAATGAAATCACAACTGGCAATCAACTCAACTCATCTGA
TCCAATTCAAAGAATTTCAC
Found at i:20154383 original size:55 final size:55
Alignment explanation
Indices: 20154297--20154404 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 55
20154287 GGTCATGGTC
* * * *
20154297 GAGCCTACCAAAACAACATGGGCGTGAGACACGCTCGTGTGGAAGAACCGTGGGT
1 GAGCCTACCAAAACAACACGGGCATGAGACACGCCCGTGTGGAACAACCGTGGGT
* * *
20154352 GAGCCTACTAAAACAACACGGGCATGTGACACGCCCGTGTGGAACACCCGTGG
1 GAGCCTACCAAAACAACACGGGCATGAGACACGCCCGTGTGGAACAACCGTGG
20154405 TCTAACCTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.29, C:0.27, G:0.31, T:0.14
Consensus pattern (55 bp):
GAGCCTACCAAAACAACACGGGCATGAGACACGCCCGTGTGGAACAACCGTGGGT
Found at i:20157526 original size:46 final size:46
Alignment explanation
Indices: 20157476--20157648 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
20157466 TGGTTGAGCA
* * *
20157476 TCCGAACTCATTGAGTTGAATCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
20157522 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
20157569 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
20157615 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20157649 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:20157632 original size:93 final size:93
Alignment explanation
Indices: 20157473--20157643 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
20157463 GGATGGTTGA
* *
20157473 GCATCCGAACTCATTGAGTTGAATCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAATCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
20157538 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
20157566 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAATCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
20157631 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
20157644 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAATCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20160629 original size:15 final size:15
Alignment explanation
Indices: 20160590--20160669 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
20160580 GTATCTTGGG
*
20160590 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
20160605 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
20160620 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
20160635 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
* *
20160650 TTTTTTTATTC-GGT
1 TTTCTTTATTCTGGA
20160664 TTTCTT
1 TTTCTT
20160670 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 35 0.69
16 5 0.10
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:20160650 original size:30 final size:31
Alignment explanation
Indices: 20160581--20160660 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
20160571 CATAGTATCG
* * *
20160581 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCAGGATCTCTC
*
20160611 TAT-TCTGGATTTCTTTATTCCAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCAGGATCTCTC
*
20160641 TATCTTGGATTTTTTTATTC
1 TATCTTGGATTTCTTTATTC
20160661 GGTTTTCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 1 0.02
30 35 0.83
31 6 0.14
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCAGGATCTCTC
Found at i:20163115 original size:46 final size:46
Alignment explanation
Indices: 20163065--20163237 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
20163055 TGGTTGAGCA
*
20163065 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
20163111 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
20163158 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
20163204 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20163238 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:20163221 original size:93 final size:93
Alignment explanation
Indices: 20163062--20163232 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
20163052 GGATGGTTGA
* * * *
20163062 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
20163127 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
20163155 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
20163220 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20163233 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20167893 original size:48 final size:48
Alignment explanation
Indices: 20167821--20167937 Score: 189
Period size: 48 Copynumber: 2.4 Consensus size: 48
20167811 CACGCGATCA
* **
20167821 CATGGCCTGAAGCCAAATCAAAGTAACTCTCACCTGAAGTGCCAATAT
1 CATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
* *
20167869 TATGGCTTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
1 CATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
20167917 CATGGCCTGAAGCCAAATCAA
1 CATGGCCTGAAGCCAAATCAA
20167938 TGTATTCCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (48 bp):
CATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
Found at i:20170658 original size:27 final size:28
Alignment explanation
Indices: 20170628--20170694 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
20170618 CTTTTGTGGA
* *
20170628 GAACTCTGAAAGA-ATAACCTTTATGTC
1 GAACTCTGAAAAAGATAACCTTTATGGC
** *
20170655 GAACTCCAAAAAAGATAATCTTTATGGC
1 GAACTCTGAAAAAGATAACCTTTATGGC
*
20170683 AAACTCTGAAAA
1 GAACTCTGAAAA
20170695 GAGTGCTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (28 bp):
GAACTCTGAAAAAGATAACCTTTATGGC
Found at i:20172275 original size:40 final size:40
Alignment explanation
Indices: 20172150--20172280 Score: 169
Period size: 41 Copynumber: 3.3 Consensus size: 40
20172140 GTCAATAAGG
*
20172150 CACTGGGTGCCAATTTACT--TTGG-TTTAACTGATGAGA
1 CACTGGGTGCCAATTTACTACTTGGATTTATCTGATGAGA
* *
20172187 CACAGGGTGCCAATTTACTACTTCGGATTTATTTGATGAGA
1 CACTGGGTGCCAATTTACTACTT-GGATTTATCTGATGAGA
* * * *
20172228 CATTGGGTGTCAATTTACTACTTGGAATTATCTGATGAGG
1 CACTGGGTGCCAATTTACTACTTGGATTTATCTGATGAGA
20172268 CACTGGGTGCCAA
1 CACTGGGTGCCAA
20172281 ACTGGTGTGT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
37 18 0.23
39 2 0.03
40 27 0.34
41 32 0.41
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
CACTGGGTGCCAATTTACTACTTGGATTTATCTGATGAGA
Found at i:20174661 original size:12 final size:12
Alignment explanation
Indices: 20174646--20174674 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
20174636 AATAAGCTCA
20174646 TTTATTGACTCG
1 TTTATTGACTCG
20174658 TTTA-TGACTCG
1 TTTATTGACTCG
20174669 TTTATT
1 TTTATT
20174675 TTTTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (12 bp):
TTTATTGACTCG
Found at i:20174677 original size:398 final size:399
Alignment explanation
Indices: 20173938--20174734 Score: 1524
Period size: 398 Copynumber: 2.0 Consensus size: 399
20173928 TGAATCTAAG
20173938 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
1 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
*
20174003 GTAGTAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
66 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
* *
20174068 TGAACAAAACGTTCGATGAACTGTTCGTGAACTGTTCGTATAATGTTTGATTATGTTCGTTTATT
131 TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
*
20174133 AAGCTAAATAAACGAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
196 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
20174198 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
261 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
20174263 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
326 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
20174328 ATC-TAAAA
391 ATCTTAAAA
*
20174336 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTATAC
1 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
20174401 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
66 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
20174466 TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
131 TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
*
20174531 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTTAATAAACGAATGAACACGAATAG
196 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
20174596 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
261 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
*
20174661 ATGACTCGTTTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
326 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
20174726 ATCTTAAAA
391 ATCTTAAAA
20174735 CTCGTTTATT
Statistics
Matches: 391, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
398 386 0.99
399 5 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (399 bp):
TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
ATCTTAAAA
Found at i:20174955 original size:23 final size:22
Alignment explanation
Indices: 20174892--20174973 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
20174882 ACATTGTTCG
* *
20174892 TGAACATATTCAAATATATGTTCA
1 TGAACATGTTCAATTA-AT-TTCA
***
20174916 TGAACATGTTTGTTTAATATTCA
1 TGAACATGTTCAATTAAT-TTCA
**
20174939 TGAACATGTTCAATTAAGTTAAA
1 TGAACATGTTCAATTAA-TTTCA
20174962 TGAACATGTTCA
1 TGAACATGTTCA
20174974 TGAACATTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 34 0.74
24 12 0.26
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (22 bp):
TGAACATGTTCAATTAATTTCA
Found at i:20174983 original size:23 final size:23
Alignment explanation
Indices: 20174938--20174984 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20174928 TTTAATATTC
* *
20174938 ATGAACATGTTCAATTAAGTTAA
1 ATGAACATGTTCAATGAAATTAA
20174961 ATGAACATGTTC-ATGAACATTAA
1 ATGAACATGTTCAATGAA-ATTAA
20174984 A
1 A
20174985 CAAACGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (23 bp):
ATGAACATGTTCAATGAAATTAA
Found at i:20176956 original size:28 final size:27
Alignment explanation
Indices: 20176876--20176939 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
20176866 TAAAAAATTC
**
20176876 TATTTTTTAATAATTTTAC-ATTTTTAT
1 TATTTTTTAATAATTTT-CTAAATTTAT
20176903 TATTTTTTAATAATTTTCTAAAATTTAT
1 TATTTTTTAATAATTTTCT-AAATTTAT
20176931 TATTTTTTA
1 TATTTTTTA
20176940 TAGTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 17 0.52
28 15 0.45
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTTTTTAATAATTTTCTAAATTTAT
Found at i:20177067 original size:89 final size:86
Alignment explanation
Indices: 20176981--20177183 Score: 273
Period size: 89 Copynumber: 2.3 Consensus size: 86
20176971 GGCTTAATTG
* * *
20176981 TTTTTTTAAAAAATTTTGAAAGTCTTTTTGATGCATTTTGAAAGCTCAAGTACCCAATTGAGTGG
1 TTTTTTTAAAAAAGTTTGAAAGTCTTTTT-ATGCATTTTGAAAGCTCAAGTACCCAAGTGAGTGC
20177046 AAAAAAAAGGTAAGGGTTTAATTAC
65 AAAAAAAA--T-AGGGTTTAATTAC
* * * * *
20177071 TTTTTTTGAAGAAGTTTGAGAGTCTTTTTATGCATTTTGAAAGTTCAAGTACTCAAGTGAGTGCA
1 TTTTTTTAAAAAAGTTTGAAAGTCTTTTTATGCATTTTGAAAGCTCAAGTACCCAAGTGAGTGCA
20177136 AAAAAAATAGGGTTTAATTAC
66 AAAAAAATAGGGTTTAATTAC
* *
20177157 TTTTTTTTAAAAAGTTTGATAG-CTTTT
1 TTTTTTTAAAAAAGTTTGAAAGTCTTTT
20177184 AACATCCTTA
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
85 5 0.05
86 32 0.31
87 1 0.01
89 39 0.38
90 25 0.25
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (86 bp):
TTTTTTTAAAAAAGTTTGAAAGTCTTTTTATGCATTTTGAAAGCTCAAGTACCCAAGTGAGTGCA
AAAAAAATAGGGTTTAATTAC
Found at i:20183341 original size:6 final size:6
Alignment explanation
Indices: 20183330--20183370 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
20183320 AGATTTCCAA
* *
20183330 AAATGG AAATGG AAATGG AAATGG AAATGA AAATAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
20183371 ATCCATTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:20183583 original size:25 final size:25
Alignment explanation
Indices: 20183535--20183588 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
20183525 TACTAGGGGC
*
20183535 AAAATGGTCAAAAATTTACCAAGGT
1 AAAATGGTCAAAAATTTACCAAGGG
* * * *
20183560 AAAATTGTCAAAATTTTGCTAAGGG
1 AAAATGGTCAAAAATTTACCAAGGG
20183585 AAAA
1 AAAA
20183589 ATGAGGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (25 bp):
AAAATGGTCAAAAATTTACCAAGGG
Found at i:20186275 original size:127 final size:127
Alignment explanation
Indices: 20186049--20186296 Score: 397
Period size: 127 Copynumber: 2.0 Consensus size: 127
20186039 GTTGTGAAGT
* *
20186049 GTATTTTTTTGGGTTTTGCTACTGGGATAAAAGGCTATAAGTTATGGTGCCTAGAAACGAGTAAG
1 GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
* *
20186114 ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTTTGTCAAAAAAAGGTTC
66 ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAAAGGTTC
** * *
20186176 GTATTTTTCTGGGTTTTGCTGTTGGGATAAAAGATTATAAGTTATGGTGCCTAGAAATGAGTAAG
1 GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
* * *
20186241 ATCATCGTTAGTAGAGATTTTACGTTTGATGAAACATCGATGATTCTATCAAAAAA
66 ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAA
20186297 GGGGTTCACC
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 110 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (127 bp):
GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAAAGGTTC
Found at i:20200375 original size:205 final size:205
Alignment explanation
Indices: 20200041--20200430 Score: 717
Period size: 205 Copynumber: 1.9 Consensus size: 205
20200031 AATAAATGTG
*
20200041 TTATCCACAATTCAATCATATCCTATACAATATCACAATTTTCATTTACAAGTCGTATAATCAAT
1 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
20200106 ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
66 ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
* *
20200171 TTCCATTTTAAAACCAATGTGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
131 ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
20200236 ATCTCTGTAA
196 ATCTCTGTAA
20200246 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
1 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
*
20200311 ACATATTCGTATTTAGACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
66 ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
** *
20200376 ATCCATTTTAAAACTTATATGTCAAATTTACTAATTCTACTCAAGTCTAATATAT
131 ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATAT
20200431 AAATAAATTC
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
205 178 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (205 bp):
TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
ATCTCTGTAA
Found at i:20201954 original size:23 final size:25
Alignment explanation
Indices: 20201918--20201965 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
20201908 ATTGATTATA
20201918 CTCTAATTGTTTT-CTCTTCTCATCT
1 CTCTAATTGTTTTCCT-TTCTCATCT
20201943 CTCT-ATTG-TTTCCTTTCTCATCT
1 CTCTAATTGTTTTCCTTTCTCATCT
20201966 ACCTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.10, C:0.29, G:0.04, T:0.56
Consensus pattern (25 bp):
CTCTAATTGTTTTCCTTTCTCATCT
Found at i:20205903 original size:45 final size:45
Alignment explanation
Indices: 20205852--20205941 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
20205842 GTTCAAAAAA
* *
20205852 AATAACATCCACGTAAATCTCATCTGCTTCTCGCTGGACCACTTT
1 AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
*
20205897 AATAACATCCACGTAAATCCCATCTGCTGCTCGTTGGACCACTTT
1 AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
20205942 CTTTTTCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (45 bp):
AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
Found at i:20212465 original size:18 final size:18
Alignment explanation
Indices: 20212437--20212471 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20212427 GGTCTAAAGG
20212437 ACCACCGACCACCGAAACC
1 ACCACCGACCACC-AAACC
20212456 ACCA-CGACCACCAAAC
1 ACCACCGACCACCAAAC
20212472 AATATCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.40, C:0.51, G:0.09, T:0.00
Consensus pattern (18 bp):
ACCACCGACCACCAAACC
Found at i:20219359 original size:13 final size:13
Alignment explanation
Indices: 20219343--20219377 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
20219333 TTCAAATTAG
20219343 GATTTTTTTTTGA
1 GATTTTTTTTTGA
*
20219356 GATTTTTGTTTGA
1 GATTTTTTTTTGA
20219369 -ATTTTTTTT
1 GATTTTTTTT
20219378 AACAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (13 bp):
GATTTTTTTTTGA
Found at i:20221759 original size:16 final size:16
Alignment explanation
Indices: 20221716--20221760 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
20221706 AGCTTAAAAC
*
20221716 ATAATAAATTCAATAT
1 ATAATAAATTCAAGAT
* *
20221732 CTAACAAATTCAAGAT
1 ATAATAAATTCAAGAT
*
20221748 ATAATAATTTCAA
1 ATAATAAATTCAA
20221761 AATCCAACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATAAATTCAAGAT
Found at i:20225998 original size:25 final size:26
Alignment explanation
Indices: 20225956--20226004 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
20225946 GGACTAGAAG
20225956 ATGAAGAAAGGAAGAAGGA-AAAGGA
1 ATGAAGAAAGGAAGAAGGAGAAAGGA
*
20225981 ATGAAGAATA-GAATAAGGAGAAAG
1 ATGAAGAA-AGGAAGAAGGAGAAAG
20226005 ACTTACCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (26 bp):
ATGAAGAAAGGAAGAAGGAGAAAGGA
Found at i:20228320 original size:23 final size:23
Alignment explanation
Indices: 20228293--20228351 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
20228283 ATCATTTTTA
*
20228293 AAATAAAATAATACATAAAAAAT
1 AAATAATATAATACATAAAAAAT
*
20228316 AAATAATAT-ATATATAAAAAAT
1 AAATAATATAATACATAAAAAAT
*
20228338 TAATATATATAATA
1 AAATA-ATATAATA
20228352 TGAGTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.52
23 12 0.39
24 3 0.10
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATAATATAATACATAAAAAAT
Found at i:20228441 original size:16 final size:15
Alignment explanation
Indices: 20228420--20228451 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
20228410 TATAACATAA
20228420 ATAACATATGATATAT
1 ATAACATAT-ATATAT
20228436 ATAACATATATATAT
1 ATAACATATATATAT
20228451 A
1 A
20228452 AATGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
ATAACATATATATAT
Found at i:20228442 original size:25 final size:26
Alignment explanation
Indices: 20228391--20228443 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
20228381 TTTAAAAATT
*
20228391 TAAATAATATAGTGAATACTATAACA
1 TAAATAACATAGTGAATACTATAACA
20228417 TAAATAACATA-TGATATA-TATAACA
1 TAAATAACATAGTGA-ATACTATAACA
20228442 TA
1 TA
20228444 TATATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAATAACATAGTGAATACTATAACA
Found at i:20228682 original size:21 final size:20
Alignment explanation
Indices: 20228657--20228695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20228647 TAATAATATT
20228657 ATAAAATAT-AAAATGTAAAAC
1 ATAAAA-ATCAAAAT-TAAAAC
20228678 ATAAAAATCAAAATTAAA
1 ATAAAAATCAAAATTAAA
20228696 GATAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
ATAAAAATCAAAATTAAAAC
Found at i:20230494 original size:83 final size:83
Alignment explanation
Indices: 20230353--20230651 Score: 320
Period size: 83 Copynumber: 3.7 Consensus size: 83
20230343 AGCACGTGAA
* * * * * * *
20230353 AGCCAAATCAGCTACGT-CTCTGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTTAGGT
1 AGCCAAATCTGCTACGTCCTC-GATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAGGT
*
20230417 CTGTTTGAGAACA-CTTGAG
65 TTGTTTGAGAACATC-TGAG
*
20230436 AGCCAAATCTGCTACATCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTT-GAGT
1 AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAG-GT
20230500 TTGTTTGAGAACATCTGAG
65 TTGTTTGAGAACATCTGAG
* *
20230519 AGTCC-AATCTGCTATGTCCTCGATTTG-----T-T---C-CAAGAATGCCAAATCATCTTAAGT
1 AG-CCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAGGT
20230573 TTGTTTGAGAACATCTGAG
65 TTGTTTGAGAACATCTGAG
* * * * *
20230592 AGTCTAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAGATCATCTT
1 AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTT
20230652 GGATCTGCTT
Statistics
Matches: 185, Mismatches: 15, Indels: 32
0.80 0.06 0.14
Matches are distributed among these distances:
72 1 0.01
73 65 0.35
74 1 0.01
77 1 0.01
78 2 0.01
79 1 0.01
82 2 0.01
83 106 0.57
84 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (83 bp):
AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAGGTT
TGTTTGAGAACATCTGAG
Found at i:20230557 original size:73 final size:73
Alignment explanation
Indices: 20230476--20230620 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
20230466 CTTGTAAACA
*
20230476 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
20230541 ATTTGTTC
66 ATTTGTTC
*
20230549 CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCTAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
20230614 ATTTGTT
66 ATTTGTT
20230621 TCTTGTAAAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (73 bp):
CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
ATTTGTTC
Found at i:20230787 original size:119 final size:119
Alignment explanation
Indices: 20230578--20231140 Score: 984
Period size: 119 Copynumber: 4.7 Consensus size: 119
20230568 TAAGTTTGTT
* * *
20230578 TGAGAACATCTGAGAGTCTAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
* * *
20230643 GATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
20230697 TGAGAACGTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
20230762 AATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
20230816 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
20230881 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
20230935 TGAGAATGTCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
20231000 AATAATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
20231054 TGAGAATGTATGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACA-AAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
20231118 AATCATCTTGGATCTGCTTCAGT
66 AATCATCTTGGATCTGCTTCAGT
20231141 GTAATTGTCT
Statistics
Matches: 424, Mismatches: 20, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
118 31 0.07
119 393 0.93
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
Found at i:20242832 original size:22 final size:21
Alignment explanation
Indices: 20242807--20242848 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20242797 ATCATTTTTA
20242807 AAATAAAATAATACATAAAAAT
1 AAATAAAAT-ATACATAAAAAT
* *
20242829 AAATAATATATATATAAAAA
1 AAATAAAATATACATAAAAA
20242849 ATTAATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATAAAATATACATAAAAAT
Found at i:20242957 original size:16 final size:15
Alignment explanation
Indices: 20242936--20242965 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20242926 ATAAACATAA
20242936 ATAACATATGATATAC
1 ATAACATAT-ATATAC
20242952 ATAACATATATATA
1 ATAACATATATATA
20242966 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAACATATATATAC
Found at i:20243092 original size:17 final size:16
Alignment explanation
Indices: 20243072--20243163 Score: 52
Period size: 17 Copynumber: 5.8 Consensus size: 16
20243062 ATGTAAAAAC
20243072 AATATATATAAATAATT
1 AATATATATAAATAA-T
* *
20243089 AATAAATATACATAAT
1 AATATATATAAATAAT
20243105 -ATA-AGTGA-AAAT-AT
1 AATATA-T-ATAAATAAT
*
20243119 AATA-ATAATAATAAAAT
1 AATATAT-ATAA-ATAAT
*
20243136 AATGTATAATAAATAAT
1 AATATAT-ATAAATAAT
20243153 AATAT-TATAAA
1 AATATATATAAA
20243164 ATATAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.08
15 18 0.30
16 4 0.07
17 26 0.43
18 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (16 bp):
AATATATATAAATAAT
Found at i:20243136 original size:14 final size:14
Alignment explanation
Indices: 20243114--20243221 Score: 57
Period size: 14 Copynumber: 7.6 Consensus size: 14
20243104 TATAAGTGAA
*
20243114 AATATAATAATAAT
1 AATAAAATAATAAT
*
20243128 AATAAAATAATGTAT
1 AATAAAATAAT-AAT
20243143 AAT-AAATAATAAT
1 AATAAAATAATAAT
20243156 ATTATAAAAT-ATAA-
1 A--ATAAAATAATAAT
* *
20243170 AATGAAAA-CATAAA
1 AAT-AAAATAATAAT
20243184 AATTAAAATTAA-AGAT
1 AA-TAAAA-TAATA-AT
* *
20243200 AAAAAAATAACAAT
1 AATAAAATAATAAT
20243214 -ATAAAATA
1 AATAAAATA
20243222 TATATATATA
Statistics
Matches: 75, Mismatches: 7, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
12 2 0.03
13 18 0.24
14 29 0.39
15 18 0.24
16 8 0.11
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:20243146 original size:15 final size:16
Alignment explanation
Indices: 20243082--20243166 Score: 68
Period size: 21 Copynumber: 5.1 Consensus size: 16
20243072 AATATATATA
20243082 AATAAT-TAATAAATAT
1 AATAATATAATAAA-AT
20243098 ACATAATATAAGTGAAAATAT
1 A-ATAATATAA-T--AAA-AT
20243119 AATAATAATAATAAAAT
1 AATAAT-ATAATAAAAT
*
20243136 AAT-GTATAAT-AAAT
1 AATAATATAATAAAAT
*
20243150 AATAATATTATAAAAT
1 AATAATATAATAAAAT
20243166 A
1 A
20243167 TAAAATGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
14 7 0.12
15 10 0.17
16 7 0.12
17 10 0.17
18 6 0.10
19 1 0.02
20 6 0.10
21 11 0.19
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (16 bp):
AATAATATAATAAAAT
Found at i:20243168 original size:25 final size:24
Alignment explanation
Indices: 20243112--20243169 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
20243102 AATATAAGTG
20243112 AAAATATAATAATAATAATAAAAT
1 AAAATATAATAATAATAATAAAAT
** **
20243136 AATGTATAATAAATAATAATATTAT
1 AAAATATAAT-AATAATAATAAAAT
20243161 AAAATATAA
1 AAAATATAA
20243170 AATGAAAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATATAATAATAATAATAAAAT
Found at i:20243204 original size:27 final size:28
Alignment explanation
Indices: 20243158--20243223 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
20243148 ATAATAATAT
* *
20243158 TATAAAATATAAAATGAAAACATAAAAA
1 TATAAAATATAAAATAAAAAAATAAAAA
*
20243186 T-TAAAAT-TAAAGATAAAAAAATAACAA
1 TATAAAATATAAA-ATAAAAAAATAAAAA
20243213 TATAAAATATA
1 TATAAAATATA
20243224 TATATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.12
27 19 0.59
28 7 0.22
29 2 0.06
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (28 bp):
TATAAAATATAAAATAAAAAAATAAAAA
Found at i:20273096 original size:64 final size:65
Alignment explanation
Indices: 20272979--20273140 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 65
20272969 CTACTATGAA
* *
20272979 TTTTAGAGTTTCAACTTTATCATTGAATCAAATCTTCATTTAATTCTTATATAAATTCCTATAAT
1 TTTTAGAGTTTCAACTTTATCATTGAATAAAATCTTCATTTAATTATTATATAAATTCCTATAAT
* * * ** *
20273044 TTTTAGTGTTTCAACTTTGTCATTAGAA-AAAATC-TCGTTTAATTATTATATAAATTTTTATGA
1 TTTTAGAGTTTCAACTTTATCATT-GAATAAAATCTTCATTTAATTATTATATAAATTCCTATAA
20273107 T
65 T
* * *
20273108 TATCAGAGTTTTAACTTTATCATTTGAACTAAA
1 TTTTAGAGTTTCAACTTTATCA-TTGAA-TAAA
20273141 TGTTAGAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
64 45 0.56
65 29 0.36
66 6 0.08
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (65 bp):
TTTTAGAGTTTCAACTTTATCATTGAATAAAATCTTCATTTAATTATTATATAAATTCCTATAAT
Found at i:20276649 original size:89 final size:89
Alignment explanation
Indices: 20276357--20276665 Score: 252
Period size: 89 Copynumber: 3.4 Consensus size: 89
20276347 AAGGTTTGTT
* * * * * *
20276357 GCTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-ATTCAATCTGCTCCACTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCA-TGAGTCTGCTCCACTG
* * *
20276421 CAACTTTAGGGAGATAAG-GTTAATG
65 CAACTTCAGGGAGATAAGACTT-ATA
* * * * * *
20276446 GGTTCGATCTGCTCCACTGCAACTTCAGGGTGATAAGATTCG---TCATGGTAGATTTGATCCGA
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCAT-G-AG-TCTGCTCC-A
* * *
20276508 CCTGCTGCAACTTCAGAGG-TATAGGATTTATA
62 ----CTGCAACTTCAG-GGAGATAAGACTTATA
* *
20276540 GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCATGAGTCTGCTCCACTGC
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCATGAGTCTGCTCCACTGC
*
20276605 AACTTCAGGGAGATAAGACTTGTA
66 AACTTCAGGGAGATAAGACTTATA
* * * *
20276629 ACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAG
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG
20276666 GTCAGTGGCT
Statistics
Matches: 170, Mismatches: 35, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
86 2 0.01
87 1 0.01
88 3 0.02
89 93 0.55
90 1 0.01
93 1 0.01
94 58 0.34
95 6 0.04
96 1 0.01
97 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (89 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCATGAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACTTATA
Found at i:20276688 original size:44 final size:44
Alignment explanation
Indices: 20276596--20276754 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
20276586 CATGAGTCTG
* *
20276596 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTA
* * ** * *
20276640 CTCCACTGCAACTTTAGGGAGATAAG-GTCAGTGGCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACT-AGTAACTTCAACCTA
* * * *
20276684 CTCCACTGCAACTTCAGGGAGACAAGATCTA-CAATCTTTAGCCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTAGTAA-CTTCAACCTA
* **
20276729 CTCCACTACTGCTT-AGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
20276755 TGGTGGCTTA
Statistics
Matches: 89, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
43 1 0.01
44 69 0.78
45 18 0.20
46 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTA
Found at i:20276822 original size:131 final size:131
Alignment explanation
Indices: 20276674--20277238 Score: 839
Period size: 131 Copynumber: 4.3 Consensus size: 131
20276664 AGGTCAGTGG
**
20276674 CTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
* * *
20276739 GCTTAGGGAGATAAGATGGTGGCTTAAATTTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
66 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
20276804 T
131 T
* *
20276805 CTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTACAATCCTTAGCCTACTCCACTACT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
* * * *
20276870 ACTTAGAGAGATAGGATGATGGCTTAAATCTGCTCCACTACTGGTTAGGGAGATAAGATTCGCCG
66 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
20276935 T
131 T
* * * * *
20276936 CTTCAATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTTCTCCACTACT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
* *
20277001 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGTAAAT--TTAGAGAGACAAGATTTG
66 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCAC--T-ACTGGTTAGGGAGACAAGATTTG
* *
20277064 CTGC
128 CCGT
*
20277068 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATATTTCA-CCTACTCCACTAC
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTT-AGCCTACTCCACTAC
* * *
20277132 TGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATCTGTC
65 TACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCC
20277197 GT
130 GT
* *
20277199 CTTCGACCTATTCCACTGCAACTTCAGGGAGACAAGATCT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCT
20277239 GTAAATTCAC
Statistics
Matches: 387, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
129 2 0.01
130 1 0.00
131 269 0.70
132 111 0.29
133 2 0.01
134 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (131 bp):
CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
T
Found at i:20276907 original size:42 final size:43
Alignment explanation
Indices: 20276860--20277039 Score: 116
Period size: 42 Copynumber: 4.2 Consensus size: 43
20276850 CCTTAGCCTA
*
20276860 CTCCACTACTACTTAGAGAGATAGGA-TGATGGCTTAAATCTG
1 CTCCACTACTACTTAGAGAGATAAGATTGATGGCTTAAATCTG
** * ** * *
20276902 CTCCACTACTGGTTAGGGAGATAAGATTCGCCGTCTTCAATCTG
1 CTCCACTACTACTTAGAGAGATAAGATT-GATGGCTTAAATCTG
* * * * * ** *
20276946 TTCCACTGCAACTTCAGAGAGACAAGATCTGCAAT--CTTCAGCCTT
1 CTCCACTACTACTT-AGAGAGATAAGAT-TG--ATGGCTTAAATCTG
* * *
20276991 CTCCACTACTACTTAGGGAGATAGGA-TGGTGGCTTAAATCTG
1 CTCCACTACTACTTAGAGAGATAAGATTGATGGCTTAAATCTG
20277033 CTCCACT
1 CTCCACT
20277040 GTAAATTTAG
Statistics
Matches: 99, Mismatches: 31, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
40 1 0.01
42 37 0.37
43 1 0.01
44 29 0.29
45 30 0.30
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
CTCCACTACTACTTAGAGAGATAAGATTGATGGCTTAAATCTG
Found at i:20277100 original size:45 final size:45
Alignment explanation
Indices: 20276545--20277105 Score: 153
Period size: 45 Copynumber: 12.8 Consensus size: 45
20276535 TTATAGCTTT
* * * * * * * *
20276545 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCATG
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * * * **
20276590 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * * * * ** *
20276634 AACCTGCTCCACTGCAACTTTAGGGAGATAAGGTCAG-TGGCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* ** * * ** *
20276678 GATCTACTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
** ** * ** * * * *
20276723 AGCCTACTCCACTACTGCTT-AGGGAGATAAGA--TGGTGGCTTA
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * * *** *
20276765 AATTTGCTCCACTACTGGTT-AGGGAGACAAGATTTGCCGTCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * * * **
20276809 GATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTACAATCCTT-
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGT-CTTC
** ** * * * * * * * *
20276854 AGCCTACTCCACTACTACTT-AGAGAGATAGGA--TGATGGCTTA
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * *** * * *
20276896 AATCTGCTCCACTACTGGTT-AGGGAGATAAGATTCGCCGTCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * **
20276940 AATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
** * * * * * * *
20276985 AGCCT-TCTCCACTACTACTT-AGGGAGATAGGA--TGGTGGCTTA
1 AATCTGT-TCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
* * * * * *
20277027 AATCTGCTCCACTGTAAATTTAGAGAGACAAGATTTGCTGCCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
*
20277072 GATCTGTTCCACTGCAACTTCAGGGAGACAAGAT
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGAT
20277106 CTACAATATT
Statistics
Matches: 368, Mismatches: 134, Indels: 28
0.69 0.25 0.05
Matches are distributed among these distances:
41 3 0.01
42 73 0.20
43 9 0.02
44 136 0.37
45 144 0.39
46 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
AATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCTGTCTTC
Found at i:20277159 original size:263 final size:261
Alignment explanation
Indices: 20276685--20277239 Score: 837
Period size: 263 Copynumber: 2.1 Consensus size: 261
20276675 TTCGATCTAC
* * *
20276685 TCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACTGCTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGA
* * * *
20276750 TAAGATGGTGGCTTAAATTTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCGTCTTCGATCTG
66 TAAGATGGTGGCTTAAATCTGCTCCACTAAT-GTTAGAGAGACAAGATTTGCCGCCTTCGATCTG
* *
20276815 TTCCACTGTAACTTCAGGGAGACAAGATCTACAATCCTTAGCCTACTCCACTACTACTTAGAGAG
130 TTCCACTGCAACTTCAGGGAGACAAGATCTACAATACTTAGCCTACTCCACTACTACTTAGAGAG
* *
20276880 ATAGGATGATGGCTTAAATCTGCTCCACTACTGGTTAGGGAGATAAGAT-TCGCCGTCTTCAATC
195 ATAGGATGATGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATCT-GCCGTCTTCAACC
*
20276944 TGT
259 TAT
* *
20276947 TCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTTCTCCACTACTACTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGA
* *
20277012 TAGGATGGTGGCTTAAATCTGCTCCACTGTAAAT-TTAGAGAGACAAGATTTGCTGCCTTCGATC
66 TAAGATGGTGGCTTAAATCTGCTCCAC--T-AATGTTAGAGAGACAAGATTTGCCGCCTTCGATC
* * *
20277076 TGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATATTTCA-CCTACTCCACTACTGCTTAGG
128 TGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATACTT-AGCCTACTCCACTACTACTTAGA
* * *
20277140 GAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATCTGTCGTCTTCGA
192 GAGATAGGATGATGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATCTGCCGTCTTCAA
20277205 CCTAT
257 CCTAT
20277210 TCCACTGCAACTTCAGGGAGACAAGATCTG
1 TCCACTGCAACTTCAGGGAGACAAGATCTG
20277240 TAAATTCACC
Statistics
Matches: 265, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
262 85 0.32
263 175 0.66
264 3 0.01
265 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (261 bp):
TCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGA
TAAGATGGTGGCTTAAATCTGCTCCACTAATGTTAGAGAGACAAGATTTGCCGCCTTCGATCTGT
TCCACTGCAACTTCAGGGAGACAAGATCTACAATACTTAGCCTACTCCACTACTACTTAGAGAGA
TAGGATGATGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATCTGCCGTCTTCAACCTA
T
Done.