Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 97 of 332
Found at i:31225248 original size:30 final size:30
Alignment explanation
Indices: 31225214--31225270 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
31225204 TATCGTATCT
* *
31225214 TGGGTTTCTTTAT-TCTGGATTTCTTTATTA
1 TGGGTTTCTCTATCT-TGAATTTCTTTATTA
31225244 TGGGTTTCTCTATCTTGAATTTCTTTA
1 TGGGTTTCTCTATCTTGAATTTCTTTA
31225271 CTTGGTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGAATTTCTTTATTA
Found at i:31227956 original size:44 final size:43
Alignment explanation
Indices: 31227885--31228042 Score: 173
Period size: 42 Copynumber: 3.7 Consensus size: 43
31227875 TATGTGATAT
*
31227885 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TTTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTG-TTTA
* * *
31227929 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATCTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTG-TTTA
* * *
31227971 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGTTTA
*
31228014 CATGTAAGA-CACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
31228043 TGTATATGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 48 0.50
43 19 0.20
44 29 0.30
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGTTTA
Found at i:31229777 original size:13 final size:13
Alignment explanation
Indices: 31229756--31229788 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
31229746 CCGTGTGAGG
31229756 GACACGGCCTGGA
1 GACACGGCCTGGA
*
31229769 GACATGGCCTGGA
1 GACACGGCCTGGA
31229782 GACACGG
1 GACACGG
31229789 GCGTGTAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.39, T:0.09
Consensus pattern (13 bp):
GACACGGCCTGGA
Found at i:31236719 original size:48 final size:46
Alignment explanation
Indices: 31236510--31236867 Score: 181
Period size: 46 Copynumber: 7.6 Consensus size: 46
31236500 ATGCCGACAC
* *
31236510 CATGTCCCAGACATAGTCTTACACTGGCT-TCCATATAGCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-C--ATCGCGAGGCCGATG
* * * * * *
31236559 TCATGTCCCAAACAGGTCTTACACTGGCTCTCGTCTATC-AGTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATC--GCGAG-GCCGATG
* * * * * * * * *
31236608 CCATGTCCCAGATAGGTCTTACACT-G-ACACACCAC-AAGCTGACG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATCGCGAGGCCGATG
* * * * *
31236652 CCATGTCCCAAATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCGCGAGGCCGATG
* * * * *
31236701 CATGTCCCAGACATGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCGCGAGGCCGATG
* * * * * * * *
31236747 CATGCCCCATACGTGTCTTACATTGGCT-TAAATATCTCGAGCCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT---CATCGCGAGGCCGATG
* * *
31236795 CATGTCCCAGACATGTCTTACACTGGCTCTCAT-GCTATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCGCGA-GGCCGATG
31236841 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
31236868 ACACATATCA
Statistics
Matches: 235, Mismatches: 59, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
44 28 0.12
45 6 0.03
46 67 0.29
47 6 0.03
48 64 0.27
49 51 0.22
50 13 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCGCGAGGCCGATG
Found at i:31236841 original size:94 final size:93
Alignment explanation
Indices: 31236684--31236862 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 93
31236674 ACTAGCTTGT
* * *
31236684 ATATCGCGAGGCCGATGCATGTCCCAGACATGTCTTACGCTAGCTCTCGTCTCAATGCCGATGCA
1 ATATCGCGAGCCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGCCGATGCA
* *
31236749 TGCCCCATACGTGTCTTACATTGGCTTAA
65 TGCCCCAGACATGTCTTACATTGGCTTAA
* * *
31236778 ATATCTCGAGCCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATGCT-ATGGCTGATGC
1 ATATCGCGAGCCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTAAT-GCCGATGC
*
31236842 ATGTCCCAGACATGTCTTACA
64 ATGCCCCAGACATGTCTTACA
31236863 CTAGCACACA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 70 0.95
95 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (93 bp):
ATATCGCGAGCCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGCCGATGCAT
GCCCCAGACATGTCTTACATTGGCTTAA
Found at i:31239833 original size:53 final size:54
Alignment explanation
Indices: 31239769--31239975 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
31239759 TTCCTTTTTA
* * *
31239769 AACTTACCATTGCAATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
31239822 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
31239876 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
31239931 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGTTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
31239976 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 46 0.37
54 38 0.31
55 40 0.32
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:31250614 original size:39 final size:39
Alignment explanation
Indices: 31250571--31250645 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
31250561 CCAGAGTATG
* * *
31250571 ATCTGATACTCTAATTCTAATAATTAGAATGGTCTTATA
1 ATCTGATACTATAATGCTAATAATTAGAATAGTCTTATA
31250610 ATCTGATACTATAATGCTAATAATTAGAATAGTCTT
1 ATCTGATACTATAATGCTAATAATTAGAATAGTCTT
31250646 GTTATGCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (39 bp):
ATCTGATACTATAATGCTAATAATTAGAATAGTCTTATA
Found at i:31252016 original size:17 final size:17
Alignment explanation
Indices: 31251984--31252016 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31251974 AATAAACCTA
31251984 TACTAAATATATAATAC
1 TACTAAATATATAATAC
31252001 TACTATAATATA-AATA
1 TACTA-AATATATAATA
31252017 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTAAATATATAATAC
Found at i:31252747 original size:9 final size:8
Alignment explanation
Indices: 31252736--31252763 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
31252726 TAGTTTTAAT
31252736 TTTTTCAA
1 TTTTTCAA
31252744 TTTTTCAA
1 TTTTTCAA
31252752 TTTTTCAA
1 TTTTTCAA
31252760 TTTT
1 TTTT
31252764 AATATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTTCAA
Found at i:31252860 original size:19 final size:19
Alignment explanation
Indices: 31252832--31252869 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31252822 TCCCATTATT
*
31252832 TATTTATTTTTTGTTTTAA
1 TATTTATTTTATGTTTTAA
*
31252851 TATTTGTTTTATGTTTTAA
1 TATTTATTTTATGTTTTAA
31252870 ATGTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (19 bp):
TATTTATTTTATGTTTTAA
Found at i:31257062 original size:3 final size:3
Alignment explanation
Indices: 31257054--31257084 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
31257044 AAGAGAAAAT
31257054 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31257085 CCAGAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31258874 original size:88 final size:88
Alignment explanation
Indices: 31258749--31259235 Score: 724
Period size: 88 Copynumber: 5.5 Consensus size: 88
31258739 ACTACGGTGG
* * * *
31258749 TCTGTCATTTTCAGCCTGTTTTCCTTACTGCTTAGGGGGATAGGGCTCACCGTCTTCGATCTGCT
1 TCTGTAATTTTCAGCCTG-TTTCCCTACTGCTTAGGAGGATAAGGCTCACCGTCTTCGATCTGCT
* *
31258814 CCACTACTGCTTAGAGAGATAAAA
65 CCACTACTGCTTAGGGAGATAAGA
* * * *
31258838 TTTGTAATTTTCAGCCTGTTTGCCTATTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTC
1 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGGCTCACCGTCTTCGATCTGCTC
*
31258903 CACTACTTCTTAGGGAGATAAGA
66 CACTACTGCTTAGGGAGATAAGA
*** * *
31258926 TCTGTAATTTTCAATTTGTTTCCCTACTGCTTAGTG-GGATAAGACTCACCATCTTCGATCTGCT
1 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAG-GAGGATAAGGCTCACCGTCTTCGATCTGCT
31258990 CCACTACTGCTTAGGGAGATAAGA
65 CCACTACTGCTTAGGGAGATAAGA
* * * *
31259014 TCTGTAATTTTTAGCCTGTTTTCCTACTGTTTAGGAGGATAAGGCTCACCGTCTTCTATCTGCTC
1 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGGCTCACCGTCTTCGATCTGCTC
*
31259079 CTCTACTGCTTAGGGAGATAAGA
66 CACTACTGCTTAGGGAGATAAGA
* * * *
31259102 TCTGTAATTATCAACCTGTTTCCCTACTGCTTAGGAGGATAAGGCTCACTGTCTTTGATCTGCTC
1 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGGCTCACCGTCTTCGATCTGCTC
31259167 CACTACTGCTTAGGGAGATAAGA
66 CACTACTGCTTAGGGAGATAAGA
31259190 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGGCT
1 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGGCT
31259236 AGTCTAGGTT
Statistics
Matches: 357, Mismatches: 39, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 339 0.95
89 17 0.05
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (88 bp):
TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGGCTCACCGTCTTCGATCTGCTC
CACTACTGCTTAGGGAGATAAGA
Found at i:31259217 original size:44 final size:44
Alignment explanation
Indices: 31258817--31259232 Score: 197
Period size: 44 Copynumber: 9.5 Consensus size: 44
31258807 ATCTGCTCCA
* * * * *
31258817 CTACTGCTTAGAGAGATAAAATTTGTAATTTTCAGCCTGTTTGC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTCC
* * * * * * *
31258861 CTATTGCTTAGGGGGATAAG-GCT-CACCGTCTTC-GATCTG-CTCC
1 CTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCAG-TCTGTTTCC
* * *
31258904 ACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAATTTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTCC
* * *
31258949 CTACTGCTTAGTGG-GATAAGA-CT-CACCATCTTC-GATCTG-CTCC
1 CTACTGCTTAG-GGAGATAAGATCTGTA--ATTTTCAG-TCTGTTTCC
* * *
31258992 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTTTC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTCC
* * * * * *
31259037 CTACTGTTTA-GGAGGATAAG-GCT-CACCGTCTTCTA-TCTG-CTCC
1 CTACTGCTTAGGGA-GATAAGATCTGTA--ATTTTC-AGTCTGTTTCC
* **
31259080 TCTACTGCTTAGGGAGATAAGATCTGTAATTATCAACCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTCC
* * * *
31259125 CTACTGCTTA-GGAGGATAAGGCTCACTGT--CTTTGA-TCTG-CTCC
1 CTACTGCTTAGGGA-GATAA-GAT--CTGTAATTTTCAGTCTGTTTCC
*
31259168 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTCC
31259213 CTACTGCTTA-GGAGGATAAG
1 CTACTGCTTAGGGA-GATAAG
31259233 GCTAGTCTAG
Statistics
Matches: 271, Mismatches: 62, Indels: 78
0.66 0.15 0.19
Matches are distributed among these distances:
41 4 0.01
42 3 0.01
43 34 0.13
44 191 0.70
45 32 0.12
46 3 0.01
47 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTCC
Found at i:31272091 original size:21 final size:23
Alignment explanation
Indices: 31272044--31272097 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
31272034 CATTTAAGAT
**
31272044 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
31272067 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
31272088 AAAAT-ATATA
1 AAAATAATATA
31272098 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:31272150 original size:51 final size:49
Alignment explanation
Indices: 31272045--31272167 Score: 119
Period size: 51 Copynumber: 2.5 Consensus size: 49
31272035 ATTTAAGATA
* * *
31272045 AAATAATATATAAAACTCTTTAAA-A-ATAATATATAAACAATTCAAAAT
1 AAATAATGTATAAAAAT-TTGAAATATATAATATATAAACAATTCAAAAT
* * *
31272093 ATATAATGTGTAAAAAAGTTTGAAATATATAATATATGAAA-ATATT-AAAGT
1 AAATAATGTAT-AAAAA-TTTGAAATATATAATATAT-AAACA-ATTCAAAAT
31272144 AAATAATGTATAAAAATTTGAAAT
1 AAATAATGTATAAAAATTTGAAAT
31272168 GAGCGTTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
48 8 0.13
49 17 0.28
50 7 0.11
51 23 0.38
52 6 0.10
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (49 bp):
AAATAATGTATAAAAATTTGAAATATATAATATATAAACAATTCAAAAT
Found at i:31272331 original size:15 final size:15
Alignment explanation
Indices: 31272307--31272352 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
31272297 ATATAAATAG
*
31272307 AAATAAAAATATAAT
1 AAATAGAAATATAAT
31272322 AAATAGAAATATAAT
1 AAATAGAAATATAAT
31272337 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
31272353 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:31272353 original size:29 final size:29
Alignment explanation
Indices: 31272320--31272436 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
31272310 TAAAAATATA
*
31272320 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * *
31272349 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
31272378 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
* *
31272407 ATAAATAGAAACATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
31272436 A
1 A
31272437 ATATATTAAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
28 2 0.03
29 59 0.92
30 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:31272355 original size:44 final size:44
Alignment explanation
Indices: 31272301--31272387 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
31272291 ATTAGTATAT
31272301 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
31272345 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
31272388 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:31272372 original size:15 final size:14
Alignment explanation
Indices: 31272299--31272415 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
31272289 ATATTAGTAT
*
31272299 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
31272312 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
31272328 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
31272342 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
31272357 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
31272372 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
31272386 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
31272401 ATAAATATAAATAG
1 ATAAATAAAAATAG
31272415 A
1 A
31272416 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:31272825 original size:32 final size:35
Alignment explanation
Indices: 31272784--31272848 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 35
31272774 CCACGTAATT
*
31272784 GAAAGAGGAAAAAA-A-ATAACT-CAATTCCAATG
1 GAAAGAGGAAAAAAGAGATAAATCCAATTCCAATG
*
31272816 GAAATAGGAAAAAAGAGATAAATCCAATTCCAA
1 GAAAGAGGAAAAAAGAGATAAATCCAATTCCAA
31272849 ATTGAAGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 1 0.04
34 5 0.18
35 9 0.32
ACGTcount: A:0.57, C:0.12, G:0.15, T:0.15
Consensus pattern (35 bp):
GAAAGAGGAAAAAAGAGATAAATCCAATTCCAATG
Found at i:31284529 original size:21 final size:22
Alignment explanation
Indices: 31284505--31284555 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
31284495 AAATCATATT
*
31284505 TAATTATTTTGTAATTTTTT-A
1 TAATTATTTTATAATTTTTTAA
* *
31284526 TAATTAGTTTATCATTTTTTAAA
1 TAATTATTTTATAATTTTTT-AA
31284549 TAATTAT
1 TAATTAT
31284556 AATGTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
23 7 0.29
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
TAATTATTTTATAATTTTTTAA
Found at i:31284904 original size:24 final size:22
Alignment explanation
Indices: 31284867--31284914 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
31284857 TAAAAATAAT
31284867 TTAATTTAAAATTTT-AAACATA
1 TTAATTTAAAATTTTCAAA-ATA
31284889 TTAATTTAAAATATTTTCAAAATA
1 TTAATTT-AAA-ATTTTCAAAATA
31284913 TT
1 TT
31284915 GAGAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.30
23 3 0.13
24 10 0.43
25 3 0.13
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATTTAAAATTTTCAAAATA
Found at i:31288315 original size:40 final size:40
Alignment explanation
Indices: 31288271--31288357 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
31288261 GCTACTTGCT
31288271 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
* *
31288311 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
31288351 CAAATGC
1 CAAATGC
31288358 TTAAGCCCGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31293274 original size:7 final size:7
Alignment explanation
Indices: 31293262--31293295 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
31293252 ATACCACCAT
31293262 ATATGTG
1 ATATGTG
31293269 ATATGTG
1 ATATGTG
31293276 ATATGTG
1 ATATGTG
*
31293283 ACATGTG
1 ATATGTG
*
31293290 AGATGT
1 ATATGT
31293296 AATGTTGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.38
Consensus pattern (7 bp):
ATATGTG
Found at i:31295752 original size:7 final size:7
Alignment explanation
Indices: 31295742--31295767 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31295732 AGAAGAGAAT
31295742 GATGAGG
1 GATGAGG
31295749 GATGAGG
1 GATGAGG
31295756 GATGAGG
1 GATGAGG
31295763 GATGA
1 GATGA
31295768 TATGAGGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:31305890 original size:40 final size:40
Alignment explanation
Indices: 31305835--31306020 Score: 277
Period size: 40 Copynumber: 4.7 Consensus size: 40
31305825 TTGAATGATG
* * * *
31305835 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
31305875 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31305915 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
31305955 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31305996 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
31306021 AATGAGTAGC
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 127 0.93
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31306038 original size:80 final size:80
Alignment explanation
Indices: 31305835--31306043 Score: 246
Period size: 80 Copynumber: 2.6 Consensus size: 80
31305825 TTGAATGATG
* ** * * *
31305835 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCAAAGGCATTTGAAC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
31305899 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* **
31305915 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
31305980 GTGCGAGTTACTATAA
66 GTGCGAGTTACTA-AA
* * * *
31305996 -CCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTATATCC-GGTTAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAA
31306044 ATTTCGAAGG
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 8 0.07
80 97 0.85
81 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:31314191 original size:47 final size:47
Alignment explanation
Indices: 31314069--31314280 Score: 262
Period size: 47 Copynumber: 4.7 Consensus size: 47
31314059 GTTATACGTG
* * *
31314069 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
31314116 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
**
31314164 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-CCA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
31314202 TAACGTGATGCTAAGTTGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
31314249 TAACGTAGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
31314281 AAAATGTAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 1 0.01
41 2 0.01
44 2 0.01
45 1 0.01
46 1 0.01
47 59 0.42
48 43 0.31
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:31314215 original size:38 final size:38
Alignment explanation
Indices: 31314164--31314318 Score: 132
Period size: 38 Copynumber: 3.8 Consensus size: 38
31314154 ATTGATTCAT
* **
31314164 TAACGTGGTGCTAAGTGGATATACCACGGTTAACCATG
1 TAACGTGATGCTAAGTGGATATACCACGGTTAAAAATG
* * *
31314202 TAACGTGATGCTAAGTTGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGATGCTAAGTGGATATACCACGGTTA-A-A-A---A-T--G
31314249 TAACGT-AGTGCTAAGTGGATATACCACGGTTAAAAATG
1 TAACGTGA-TGCTAAGTGGATATACCACGGTTAAAAATG
* * *
31314287 TAACATGGTGCTAAGTGGATATGCCACGGTTA
1 TAACGTGATGCTAAGTGGATATACCACGGTTA
31314319 TACATGTTAA
Statistics
Matches: 94, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
38 57 0.61
39 1 0.01
40 1 0.01
41 1 0.01
44 2 0.02
45 2 0.02
46 2 0.02
47 28 0.30
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (38 bp):
TAACGTGATGCTAAGTGGATATACCACGGTTAAAAATG
Found at i:31314260 original size:85 final size:85
Alignment explanation
Indices: 31314112--31314318 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
31314102 ACATATTGAT
*
31314112 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTAGTGCTA
31314177 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* * *
31314197 CCATGTAACGTGATGCTAAGTTGATATGCCACGGTTACATATATTGATTCATTAACGTAGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTAGTGCTA
31314262 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
31314282 AAATGTAACATGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
31314319 TACATGTTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTAGTGCTA
AGTGGATATACCACGGTTAA
Found at i:31317599 original size:15 final size:15
Alignment explanation
Indices: 31317579--31317619 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
31317569 CTATAAATGA
31317579 GATTTCCTTATCATG
1 GATTTCCTTATCATG
* * *
31317594 GATTTCTTTACCTTG
1 GATTTCCTTATCATG
31317609 GATTTCCTTAT
1 GATTTCCTTAT
31317620 TCTGGGCTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.51
Consensus pattern (15 bp):
GATTTCCTTATCATG
Found at i:31319920 original size:38 final size:38
Alignment explanation
Indices: 31319868--31320161 Score: 192
Period size: 38 Copynumber: 7.0 Consensus size: 38
31319858 AGAATGGAAA
* *
31319868 AACGTGGTGTTAAGTGGATATACCATGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
31319906 AACGTGGTGCTAAGTGGATATACCACGATTGCACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---G------TT-ATACATGT
* * *
31319954 AACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
31320001 AACGTGGTGCTAAGTGGATATACCACTGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* ** *
31320039 AATGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCAGT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA--CA-T--GT
* *
31320086 AACGTGGTGCTAAGTGGATATACCACGGTTAAAAATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
31320124 AACGTGGTGCTAAGTGGATATGCCACAGTTGTACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
31320162 TAATTTGAAA
Statistics
Matches: 202, Mismatches: 27, Indels: 54
0.71 0.10 0.19
Matches are distributed among these distances:
38 85 0.42
39 3 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 3 0.01
44 3 0.01
45 4 0.02
46 1 0.00
47 57 0.28
48 34 0.17
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:31319969 original size:48 final size:48
Alignment explanation
Indices: 31319898--31320112 Score: 256
Period size: 47 Copynumber: 4.7 Consensus size: 48
31319888 TACCATGGTT
* *
31319898 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTGCACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
*
31319946 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
* *
31319994 ATTCAT-TAACGTGGTGCTAAGTGGATATACCAC---T--GT-TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
* ** *
31320032 A-ACATGTAATGTGGTGCTAAGTGGATATGTCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
*
31320079 ATTCA-GTAACGTGGTGCTAAGTGGATATACCACG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACG
31320113 GTTAAAAATG
Statistics
Matches: 141, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
37 3 0.02
38 25 0.18
41 3 0.02
42 1 0.01
43 1 0.01
44 3 0.02
47 53 0.38
48 52 0.37
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
Found at i:31320048 original size:85 final size:85
Alignment explanation
Indices: 31319948--31320149 Score: 350
Period size: 85 Copynumber: 2.4 Consensus size: 85
31319938 ACATATTGAT
*
31319948 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCAGTAACGTGGTGCTA
*
31320013 AGTGGATATACCACTGTTAA
66 AGTGGATATACCACGGTTAA
* * *
31320033 ACATGTAATGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCAGTAACGTGGTGCTA
31320098 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
31320118 AAATGTAACGTGGTGCTAAGTGGATATGCCAC
1 ACATGTAACGTGGTGCTAAGTGGATATGCCAC
31320150 AGTTGTACAT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 109 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCAGTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:31320777 original size:21 final size:21
Alignment explanation
Indices: 31320751--31320790 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31320741 GGACTAAACT
*
31320751 GAAAACTTTGAAAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
*
31320772 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
31320791 CCATGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:31322907 original size:50 final size:49
Alignment explanation
Indices: 31322741--31323053 Score: 191
Period size: 47 Copynumber: 6.6 Consensus size: 49
31322731 GGGTATAATA
31322741 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--ATCAAGT-
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTC-TCACATATC-AGTG
* * *
31322789 -CGATGCCATGTCCCAGACATGG-CTTACACTGACTATCGAAAT-TGAG-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-ACATATCAGTG
** *
31322836 CCGACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACATATCAGTG
* * *
31322886 CCGATGCCATGTCCCAAACATGGTCTTACACTG---ACACATCTC-GTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACATATCAGT-G
* * * * * *
31322932 CCGATG-CATGTCCCAGACAT-ATCTTACGCTAGCTCT--CGTCTCAATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACATATCAGTG
* * ** * *
31322978 TCAATGCCATGTCTTAGACATGATCTTACACTGGCTCTCATA-AT--GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACATATCAGT-G
*
31323026 CCGATG-CATGTCTCAGACAT-GTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
31323054 TTGGCACACA
Statistics
Matches: 207, Mismatches: 36, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
44 8 0.04
45 19 0.09
46 40 0.19
47 51 0.25
48 42 0.20
49 16 0.08
50 31 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACATATCAGTG
Found at i:31322942 original size:95 final size:93
Alignment explanation
Indices: 31322741--31323053 Score: 241
Period size: 95 Copynumber: 3.3 Consensus size: 93
31322731 GGGTATAATA
* *
31322741 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGA
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCCATCAAGTCGATGCCATGTCCCAAA
*
31322806 CATGGCTTACACTGACTATCGAAATTGAGG
64 CATGGCTTACACTGACTATCGAAATCGAGG
** *
31322836 CCGACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATCCGTGCCGATGCCATGTCC
1 CCGA-TGCATGTCCCAGACATGGTCTTACACTAGCTCTC-CATCA--AGT--CGATGCCATGTCC
**
31322900 CAAACATGGTCTTACACTGAC-A-C-ATCTCGTA-G
60 CAAACATGG-CTTACACTGACTATCGAAATCG-AGG
* * * * ** *
31322932 CCGATGCATGTCCCAGACAT-ATCTTACGCTAGCTCTCGTC-TCAATATCAATGCCATGTCTTAG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTC--CATCAA-GTCGATGCCATGTCCCAA
* * * *
31322995 ACATGATCTTACACTGGCTCTC-ATAAT-GTGG
63 ACATG-GCTTACACTGACTATCGA-AATCGAGG
*
31323026 CCGATGCATGTCTCAGACAT-GTCTTACA
1 CCGATGCATGTCCCAGACATGGTCTTACA
31323054 TTGGCACACA
Statistics
Matches: 174, Mismatches: 28, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
92 27 0.16
94 49 0.28
95 53 0.30
96 10 0.06
97 2 0.01
98 22 0.13
99 11 0.06
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCCATCAAGTCGATGCCATGTCCCAAACA
TGGCTTACACTGACTATCGAAATCGAGG
Found at i:31325567 original size:20 final size:21
Alignment explanation
Indices: 31325542--31325580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31325532 TCTTAGTTAC
31325542 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
31325562 AGGGCAACATGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
31325581 TAATTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.28, G:0.38, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:31326429 original size:211 final size:212
Alignment explanation
Indices: 31326059--31326477 Score: 714
Period size: 211 Copynumber: 2.0 Consensus size: 212
31326049 TTTACTCATC
*
31326059 CATGAAAATCACATCTTTGCATATAAATCAAAATGAATATTAGCCATCATTCAATGCTTAATACA
1 CATGAAAATCACATATTTGCATATAAATCAAAATGAATATTAGCCATCATTCAATGCTTAATACA
* *
31326124 AAATGAGGGATTTATCCCAAGCCAACACATTTGGCCAAATTAACAATAACACAAAACACAAGTCT
66 AAATAAGGCATTTATCCCAAGCCAACACATTTGGCCAAATTAACAATAACACAAAACACAAGTCT
**
31326189 AATTCCCTAAACATGCCATATTAAAAAATATAAATCAAACTATACTGAAAGCTTCGATTGATAGT
131 AATTCCCTAAACATGCCATATTAAAAAATATAAATCAAACTATACCAAAAGCTTCGATTGATAGT
31326254 ATGGTCAATATCTTTGA
196 ATGGTCAATATCTTTGA
31326271 CATGAAAATCACATATTTGCATATAAATCAAAATGAATATTAGCCATCATTCAATGCTTAATAC-
1 CATGAAAATCACATATTTGCATATAAATCAAAATGAATATTAGCCATCATTCAATGCTTAATACA
* * * *
31326335 AAATAAGTCATTTATCCCAAGCCAACACATTTGGCCAAATTAATAATAACACGAAACACAAGTTT
66 AAATAAGGCATTTATCCCAAGCCAACACATTTGGCCAAATTAACAATAACACAAAACACAAGTCT
* *
31326400 AATTCCCTATACATGCCATATTCAAAAATATAAATCAAACTATACCAAAAGCTTCGATTGATAGT
131 AATTCCCTAAACATGCCATATTAAAAAATATAAATCAAACTATACCAAAAGCTTCGATTGATAGT
* *
31326465 GTGGTCGATATCT
196 ATGGTCAATATCT
31326478 CTAACTTTTG
Statistics
Matches: 194, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
211 131 0.68
212 63 0.32
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (212 bp):
CATGAAAATCACATATTTGCATATAAATCAAAATGAATATTAGCCATCATTCAATGCTTAATACA
AAATAAGGCATTTATCCCAAGCCAACACATTTGGCCAAATTAACAATAACACAAAACACAAGTCT
AATTCCCTAAACATGCCATATTAAAAAATATAAATCAAACTATACCAAAAGCTTCGATTGATAGT
ATGGTCAATATCTTTGA
Found at i:31331471 original size:46 final size:46
Alignment explanation
Indices: 31331375--31331530 Score: 203
Period size: 46 Copynumber: 3.4 Consensus size: 46
31331365 GTGCTAATGT
*
31331375 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-G-TGGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTTACGTCTCG-AGGCT-GATG
*
31331420 CATGTCCCAGACATGTCTTACATTGACTTACGTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCTGATG
* * * *
31331466 CATGTCCCAGACATGTCTTACACTGACTTATGTCTCAAGCCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCTGATG
31331512 CATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTT
31331531 CCAGTAGCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
44 12 0.12
45 15 0.15
46 72 0.72
47 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCTGATG
Found at i:31331557 original size:46 final size:44
Alignment explanation
Indices: 31331375--31331581 Score: 170
Period size: 46 Copynumber: 4.5 Consensus size: 44
31331365 GTGCTAATGT
* * **
31331375 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGTGGATG
1 CATGTCCCAGACAT-GTCTTACA-TGACTTACGTCTC-AAGACGATG
* *
31331420 CATGTCCCAGACATGTCTTACATTGACTTACGTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACA-TGACTTACGTCTCAAGAC-GATG
* *
31331466 CATGTCCCAGACATGTCTTACACTGACTTATGTCTCAAGCCCGATG
1 CATGTCCCAGACATGTCTTACA-TGACTTACGTCTCAAG-ACGATG
*
31331512 CATGTCCCAGACATGTCTTCCAGTAGCAC-T-CGTCTCAATGACGATG
1 CATGTCCCAGACATGTCTTACA-T-G-ACTTACGTCTCAA-GACGATG
**
31331558 CCATGTCCTTGACATGGTCTTACA
1 -CATGTCCCAGACAT-GTCTTACA
31331582 CTGGCTCTTA
Statistics
Matches: 137, Mismatches: 16, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
44 12 0.09
45 16 0.12
46 84 0.61
47 16 0.12
48 9 0.07
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACATGACTTACGTCTCAAGACGATG
Found at i:31334844 original size:43 final size:43
Alignment explanation
Indices: 31334783--31334907 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
31334773 ATCACATGTA
* * * *
31334783 TCGCATCCATTACGAACTCTGACCACTGAACGAGCTCGGATGC
1 TCGCATCCATAACGAACTCGGACCACTCAACGAGCTCAGATGC
*
31334826 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
1 TCGCATCCATAACGAACTCGGACCACTCAACGAGCTCAGATGC
* ** * * * *
31334869 -CACATATATCACGAACCCGGACCACTCAACAAGTTCAGA
1 TCGCATCCATAACGAACTCGGACCACTCAACGAGCTCAGA
31334908 CTTCTTAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (43 bp):
TCGCATCCATAACGAACTCGGACCACTCAACGAGCTCAGATGC
Found at i:31346063 original size:21 final size:20
Alignment explanation
Indices: 31346024--31346063 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31346014 TATGTATGAG
31346024 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
31346044 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
31346064 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:31355806 original size:40 final size:40
Alignment explanation
Indices: 31355722--31355797 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
31355712 TATATATATA
*
31355722 TAGCCGAAGCTATCACAAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCACAAACCGCACACCAAGTGCCACATT
* ** *
31355762 TAGCCTAAGCTATTTCAAACCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCACAAACCGCACACCAAGTGCCA
31355798 TTCTTAGCCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (40 bp):
TAGCCGAAGCTATCACAAACCGCACACCAAGTGCCACATT
Found at i:31359997 original size:42 final size:42
Alignment explanation
Indices: 31359779--31360004 Score: 173
Period size: 42 Copynumber: 5.2 Consensus size: 42
31359769 GTCCAACTAC
* * * * *
31359779 GGTCTTACACGAAGTCTCACATCGATGCCATGTCCTATACAT
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAT
* * * ** *
31359821 GGTCTCATACGAAATCACATATCGATGCCGCATCCCAGACAC
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAT
* * * * * * *
31359863 GGTCTTATACGAAATCTTATACCGAAGCTATATCCTAGATAT
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAT
* * * *
31359905 AGTCTTACACGTAATCTCATATCGATGCTGATGCCATATCTCAGATAT
1 GGTCTTACACGAAATCTC--AT--AT-C-GATGCCATATCCCAGACAT
** *
31359953 GGTCTTACACGGGATCTCATATCGATGCCATGTCCCAGACAT
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAT
31359995 GGTCTTACAC
1 GGTCTTACAC
31360005 ATATCACAAT
Statistics
Matches: 141, Mismatches: 37, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
42 102 0.72
43 1 0.01
44 4 0.03
46 3 0.02
47 1 0.01
48 30 0.21
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAT
Found at i:31362754 original size:28 final size:28
Alignment explanation
Indices: 31362709--31362783 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
31362699 ATCTTCGCTG
* * *
31362709 TCTCGCAAACTAACTGCC-TTACTTAATA
1 TCTCGCACACTAAGTGCCATT-CTCAATA
*
31362737 TCTCGCACACCAAGTGCCATTCTCAATA
1 TCTCGCACACTAAGTGCCATTCTCAATA
* *
31362765 TTTCACACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
31362784 CACACACACA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATTCTCAATA
Found at i:31362787 original size:2 final size:2
Alignment explanation
Indices: 31362782--31362807 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31362772 CACTAAGTGC
31362782 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
31362808 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31370355 original size:27 final size:27
Alignment explanation
Indices: 31370321--31370520 Score: 240
Period size: 27 Copynumber: 7.4 Consensus size: 27
31370311 TGGATAAGTT
31370321 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
31370348 GTAGAATTACCAAAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
** * *
31370374 GATAGAATTATTGAAATACCTCTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
*
31370402 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
31370429 ATAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
31370456 ATAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * **
31370483 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
31370510 GTAAAATTACC
1 GTAGAATTACC
31370521 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 143 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:31370504 original size:54 final size:54
Alignment explanation
Indices: 31370322--31370520 Score: 265
Period size: 54 Copynumber: 3.7 Consensus size: 54
31370312 GGATAAGTTG
* *
31370322 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGA
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTATAGGA
** * *
31370376 TAGAATTATTGAAATA-CCTCTGTAGGGTAGAATTACCGAAATACCCCTATAAGA
1 TAGAATTACCGAAATACCCT-TGTAAGGTAGAATTACCGAAATACCCCTATAGGA
* * *
31370430 TAGAATTACCGAAATACCCTTGTAAGATAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTATAGGA
* ** *
31370484 TAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTACC
31370521 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.02
54 120 0.96
55 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTATAGGA
Found at i:31370518 original size:81 final size:81
Alignment explanation
Indices: 31370321--31370521 Score: 276
Period size: 81 Copynumber: 2.5 Consensus size: 81
31370311 TGGATAAGTT
* **
31370321 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGATAGAATTATT
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAAGATAGAATTACC
*
31370386 GAAATACCTCTGTAGG
66 GAAATACCCCTGTAGG
* * * * *
31370402 GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCGAAATACCCTTGTAAGATAGAATTACC
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAAGATAGAATTACC
31370467 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* * ** *
31370483 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCA
31370522 TTTTGCCCCT
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAAGATAGAATTACC
GAAATACCCCTGTAGG
Found at i:31371217 original size:27 final size:26
Alignment explanation
Indices: 31371173--31371224 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31371163 CTCGCTGCAA
*
31371173 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
31371200 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
31371225 GCAGCCTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:31371278 original size:31 final size:32
Alignment explanation
Indices: 31371240--31371300 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
31371230 CTAGCTGCAA
* *
31371240 TCTGGTGGCTTCGCCAC-ATATATATATCTAT
1 TCTGGTGGCCTAGCCACAATATATATATCTAT
*
31371271 TCTGGTGGCCTAGCCACAATATCTATATCT
1 TCTGGTGGCCTAGCCACAATATATATATCT
31371301 GGTGACTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTAT
Found at i:31371315 original size:27 final size:26
Alignment explanation
Indices: 31371263--31371321 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
31371253 CCACATATAT
*
31371263 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
31371289 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
31371316 ATATCT
1 ATATCT
31371322 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:31377099 original size:27 final size:27
Alignment explanation
Indices: 31377065--31377264 Score: 260
Period size: 27 Copynumber: 7.4 Consensus size: 27
31377055 TGGATAAGTT
31377065 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
31377092 GTAGAATTACCAAAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
** *
31377118 GATAGAATTATTGAAATACCCCTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
31377146 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
31377172 GATAGAATTACCAAAATACCCTTGTAAG
1 G-TAGAATTACCGAAATACCCCTGTAAG
*
31377200 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
31377227 GTAGAATTACTGAGATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
31377254 GTAAAATTACC
1 GTAGAATTACC
31377265 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
26 5 0.03
27 138 0.93
28 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:31377205 original size:81 final size:81
Alignment explanation
Indices: 31377065--31377265 Score: 298
Period size: 81 Copynumber: 2.5 Consensus size: 81
31377055 TGGATAAGTT
**
31377065 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGATAGAATTATT
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGATAGAATTACC
31377130 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* *
31377146 GTAGAATTACCGAAATACCCCTGT-AGGATAGAATTACCAAAATACCCTTGTAAGG-TAGAATTA
1 GTAGAATTACCGAAATACCCCTGTAAGG-TAGAATTACCAAAATACCCCTAT-AGGATAGAATTA
31377209 CCGAAATACCCCTGTAGG
64 CCGAAATACCCCTGTAGG
* * * *
31377227 GTAGAATTACTGAGATACCCTTGTAAGGTAAAATTACCA
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCA
31377266 TTTTGCCCCT
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
80 3 0.03
81 100 0.92
82 6 0.06
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGATAGAATTACC
GAAATACCCCTGTAGG
Found at i:31377275 original size:54 final size:54
Alignment explanation
Indices: 31377066--31377264 Score: 290
Period size: 54 Copynumber: 3.7 Consensus size: 54
31377056 GGATAAGTTG
* *
31377066 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGA
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
** *
31377120 TAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
* * *
31377174 TAGAATTACCAAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
* * * *
31377228 TAGAATTACTGAGATACCCTTGTAAGGTAAAATTACC
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACC
31377265 ATTTTGCCCC
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 130 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
Found at i:31377961 original size:27 final size:26
Alignment explanation
Indices: 31377917--31377968 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31377907 CTCGCTGTAA
*
31377917 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
31377944 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
31377969 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:31382406 original size:39 final size:39
Alignment explanation
Indices: 31382352--31382520 Score: 243
Period size: 39 Copynumber: 4.3 Consensus size: 39
31382342 TAATGGAGAA
*
31382352 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
31382391 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
31382430 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
31382469 TTATATCCGGGATAAAGTCCC-ATAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGA-AGGCATTCGTGCTGGTG
*
31382508 TTATATTCGGGCT
1 TTATATCCGGGCT
31382521 TAAAGTTCTG
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 108 0.92
40 10 0.08
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:31387809 original size:306 final size:306
Alignment explanation
Indices: 31387256--31387867 Score: 1215
Period size: 306 Copynumber: 2.0 Consensus size: 306
31387246 CTTCTAAGTT
31387256 AAATTTTTTAGATAATTATGTTTATTTTCTTTGAATTAAGAGTTAATTTTTAATTTAATGTATTA
1 AAATTTTTTAGATAATTATGTTTATTTTCTTTGAATTAAGAGTTAATTTTTAATTTAATGTATTA
31387321 TTTATTTATTTTATTATTTTCCCCATGTAATTATCTTATTGGGTTATCTAAGTAATAAATTACAT
66 TTTATTTATTTTATTATTTTCCCCATGTAATTATCTTATTGGGTTATCTAAGTAATAAATTACAT
*
31387386 CTCATTAAAAATATTCTACATATGAAATTCCACATCATCCCCATTAACTTTTTTAATGGCACTTT
131 CTCATTAAAAATATTCCACATATGAAATTCCACATCATCCCCATTAACTTTTTTAATGGCACTTT
31387451 CATTAAATCTGCTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCTAAAAAACGCTAA
196 CATTAAATCTGCTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCTAAAAAACGCTAA
31387516 AAAATACAATTAGGGCCATTTTGACAAAATATGCAAACATTAGTGA
261 AAAATACAATTAGGGCCATTTTGACAAAATATGCAAACATTAGTGA
31387562 AAATTTTTTAGATAATTATGTTTATTTTCTTTGAATTAAGAGTTAATTTTTAATTTAATGTATTA
1 AAATTTTTTAGATAATTATGTTTATTTTCTTTGAATTAAGAGTTAATTTTTAATTTAATGTATTA
31387627 TTTATTTATTTTATTATTTTCCCCATGTAATTATCTTATTGGGTTATCTAAGTAATAAATTACAT
66 TTTATTTATTTTATTATTTTCCCCATGTAATTATCTTATTGGGTTATCTAAGTAATAAATTACAT
31387692 CTCATTAAAAATATTCCACATATGAAATTCCACATCATCCCCATTAACTTTTTTAATGGCACTTT
131 CTCATTAAAAATATTCCACATATGAAATTCCACATCATCCCCATTAACTTTTTTAATGGCACTTT
31387757 CATTAAATCTGCTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCTAAAAAACGCTAA
196 CATTAAATCTGCTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCTAAAAAACGCTAA
31387822 AAAATACAATTAGGGCCATTTTGACAAAATATGCAAACATTAGTGA
261 AAAATACAATTAGGGCCATTTTGACAAAATATGCAAACATTAGTGA
31387868 TCAAATTTGC
Statistics
Matches: 305, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
306 305 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (306 bp):
AAATTTTTTAGATAATTATGTTTATTTTCTTTGAATTAAGAGTTAATTTTTAATTTAATGTATTA
TTTATTTATTTTATTATTTTCCCCATGTAATTATCTTATTGGGTTATCTAAGTAATAAATTACAT
CTCATTAAAAATATTCCACATATGAAATTCCACATCATCCCCATTAACTTTTTTAATGGCACTTT
CATTAAATCTGCTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCTAAAAAACGCTAA
AAAATACAATTAGGGCCATTTTGACAAAATATGCAAACATTAGTGA
Found at i:31387933 original size:23 final size:22
Alignment explanation
Indices: 31387905--31387965 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
31387895 AAATAATATT
31387905 ATATTAGGCATGCTTTTAAATA
1 ATATTAGGCATGCTTTTAAATA
* * * *
31387927 ATTATTATGCAT-ATTTTAACTT
1 A-TATTAGGCATGCTTTTAAATA
*
31387949 ATATTAGGTATGCTTTT
1 ATATTAGGCATGCTTTT
31387966 TTTTAAATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 8 0.27
22 13 0.43
23 9 0.30
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.49
Consensus pattern (22 bp):
ATATTAGGCATGCTTTTAAATA
Found at i:31389545 original size:31 final size:31
Alignment explanation
Indices: 31389507--31389585 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
31389497 TTTAACGGTT
31389507 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
31389538 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
31389569 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
31389586 ATTATAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:31389669 original size:42 final size:42
Alignment explanation
Indices: 31389609--31389700 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
31389599 TGGCCTATAG
*
31389609 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
* *
31389651 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAG
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
31389693 GCCCATTT
1 GCCCATTT
31389701 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:31389916 original size:26 final size:26
Alignment explanation
Indices: 31389845--31390019 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
31389835 CCTCTTTAAT
* **
31389845 AACTGGGGCA-AAGCCCTTCTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31389870 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
31389895 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31389921 AACTGGGGCATAAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
31389947 AACTGGGGCATAAACCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31389973 AACTGGGACATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
31389999 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31390020 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
25 30 0.23
26 100 0.77
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:31389958 original size:52 final size:52
Alignment explanation
Indices: 31389845--31390019 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
31389835 CCTCTTTAAT
* *
31389845 AACTGGGGCA-AAGCCCTTCTCGGTAAACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
31389895 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
31389947 AACTGGGGCATAAACCCTTTTCGGTAAACTGGGACATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
31389999 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31390020 GCACTTCCTC
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 23 0.20
52 83 0.72
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:31390094 original size:20 final size:20
Alignment explanation
Indices: 31390069--31390143 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
31390059 TTATGAATTC
*
31390069 ATCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
31390089 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31390109 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
31390129 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
31390144 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31390100 original size:11 final size:11
Alignment explanation
Indices: 31390069--31390124 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
31390059 TTATGAATTC
31390069 ATCATGTGCAT
1 ATCATGTGCAT
* *
31390080 CTCA--TACAT
1 ATCATGTGCAT
31390089 ATCATGTGCAT
1 ATCATGTGCAT
*
31390100 ATCA--TACAT
1 ATCATGTGCAT
31390109 ATCATGTGCAT
1 ATCATGTGCAT
31390120 ATCAT
1 ATCAT
31390125 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:31390141 original size:9 final size:10
Alignment explanation
Indices: 31390086--31390142 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
31390076 GCATCTCATA
31390086 CATATCATGT
1 CATATCATGT
*
31390096 GCATATCAT-A
1 -CATATCATGT
31390106 CATATCATGT
1 CATATCATGT
*
31390116 GCATATCATAT
1 -CATATCATGT
31390127 CA-ATCATGT
1 CATATCATGT
31390136 -ATATCAT
1 CATATCAT
31390143 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:31390904 original size:27 final size:27
Alignment explanation
Indices: 31390842--31390906 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
31390832 CGGCATATTC
*
31390842 GTCATTTTACCGTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
31390869 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAAGGG-TATTACG
*
31390896 GTCTTTTTACC
1 GTCATTTTACC
31390907 TAATAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:31390908 original size:26 final size:26
Alignment explanation
Indices: 31390842--31390943 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
31390832 CGGCATATTC
31390842 GTCATTTTACCGTACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
31390869 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* ***
31390896 GTCTTTTTACCTA-ATAGGGGTATTTTA
1 GTCATTTTACCTACA-A-GGGTATTACG
*
31390923 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
31390944 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
25 1 0.02
26 5 0.09
27 43 0.74
28 8 0.14
29 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:31390990 original size:27 final size:27
Alignment explanation
Indices: 31390937--31391216 Score: 195
Period size: 27 Copynumber: 10.3 Consensus size: 27
31390927 TTTCATCCTA
* * * * *
31390937 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
31390964 CAAAGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
31390991 CAATGGTATTTCTA-TAATTTTTATAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* * *
31391020 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * * *
31391047 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* ** *
31391074 TAAGGGTATTTCGGTAATTTCATAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
31391101 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
31391128 TAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
31391155 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* **** * *
31391182 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
31391209 CAAGGGTA
1 CAAGGGTA
31391217 AAATAATAAT
Statistics
Matches: 205, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.00
27 172 0.84
28 17 0.08
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:31391108 original size:54 final size:54
Alignment explanation
Indices: 31390937--31391216 Score: 220
Period size: 54 Copynumber: 5.1 Consensus size: 54
31390927 TTTCATCCTA
* * * * * *
31390937 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
* * * * * * * *
31390991 CAATGGTATTTCT-ATAATTTTTATAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTCAGTAATTTTATAAAC
* * ** * *
31391047 TAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
* * * *
31391101 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
* ** * * *** * *
31391155 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
31391209 CAAGGGTA
1 CAAGGGTA
31391217 AAATAATAAT
Statistics
Matches: 177, Mismatches: 45, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
54 128 0.72
55 16 0.09
56 33 0.19
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
Found at i:31391188 original size:81 final size:81
Alignment explanation
Indices: 31390937--31391189 Score: 258
Period size: 81 Copynumber: 3.1 Consensus size: 81
31390927 TTTCATCCTA
* * * ** ** *
31390937 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTTAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
31391002 CTA-TAATTTTTATAAAGT
66 -TAGTAA-TTTTATAAA-T
* ** * * **
31391020 CAAGGGTATTTCT-GTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATT
1 CAAGGGTATTT-TGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATT
** * *
31391084 TCGGTAATTTCATAAAC
65 TTAGTAATTTTATAAAT
*
31391101 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
*
31391166 TAGTAATTTTGTAAAT
66 TAGTAATTTTATAAAT
*
31391182 CGAGGGTA
1 CAAGGGTA
31391190 AAACAGTAAT
Statistics
Matches: 135, Mismatches: 32, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
80 1 0.01
81 74 0.55
82 8 0.06
83 51 0.38
84 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
TAGTAATTTTATAAAT
Found at i:31391216 original size:81 final size:81
Alignment explanation
Indices: 31391142--31391371 Score: 203
Period size: 81 Copynumber: 2.8 Consensus size: 81
31391132 GGTATTTTAG
* *** *
31391142 TAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTATA
1 TAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
31391206 AATCAAGGGTAAAATAA
65 AATCAAGGGTAAAATAA
* * * *
31391223 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAA
1 TAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAA
* * **
31391288 GTCGAGGGTAAAACGA
66 ATCAAGGGTAAAATAA
* ** * ** ** * * * *
31391304 TAATTATGTAAATCGGGGGTAAAACGGTAATTATGTAAATTGGGGGTAAAAC-AGTAATTCTGTA
1 TAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
31391368 AATC
65 AATC
31391372 GGGGGTACTT
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 123 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (81 bp):
TAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAA
ATCAAGGGTAAAATAA
Found at i:31391217 original size:27 final size:27
Alignment explanation
Indices: 31391167--31391378 Score: 257
Period size: 27 Copynumber: 7.9 Consensus size: 27
31391157 AGGGTATTTT
*
31391167 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
31391194 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
31391221 AATAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
31391248 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31391275 -GATAATTCTGTAAGTCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
31391302 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
31391329 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31391356 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
31391379 CTTTGGTAAT
Statistics
Matches: 166, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:31391405 original size:27 final size:27
Alignment explanation
Indices: 31391384--31391473 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
31391374 GGGTACTTTG
*
31391384 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
31391411 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
31391438 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
31391465 GTAATTTTA
1 GTAATTTTA
31391474 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:31391425 original size:54 final size:54
Alignment explanation
Indices: 31391367--31391473 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
31391357 GTAATTCTGT
* * *
31391367 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
31391421 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
31391474 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:31391487 original size:27 final size:27
Alignment explanation
Indices: 31391384--31391488 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
31391374 GGGTACTTTG
* *
31391384 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
31391411 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
31391438 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
31391465 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
31391489 CTAAACAGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:31394201 original size:29 final size:28
Alignment explanation
Indices: 31394134--31394201 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
31394124 ACATGTGATT
*
31394134 ATTT-CATATATTTATAACATTTATATA
1 ATTTACATAAATTTATAACATTTATATA
* * * * *
31394161 ATTCAAACAAATTTTTAGCATTTCATATA
1 ATTTACATAAATTTATAACATTT-ATATA
31394190 ATTTACATAAAT
1 ATTTACATAAAT
31394202 ACATACTACA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
27 3 0.10
28 13 0.43
29 14 0.47
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (28 bp):
ATTTACATAAATTTATAACATTTATATA
Found at i:31407054 original size:42 final size:40
Alignment explanation
Indices: 31406987--31407123 Score: 98
Period size: 42 Copynumber: 3.3 Consensus size: 40
31406977 TGGCTTATTT
*
31406987 GATGATGCACTT-ATGTCCTAGTATAATTGTTTTGGTATATCC
1 GATGATGCACTTAATG-CC-AATATAATTGTTTTGGT-TATCC
* ***
31407029 GATGATGCACTTACATGCCAATATAATTGCTTCAATTCATCC
1 GATGATGCACTTA-ATGCCAATATAATTGTTTTGGTT-ATCC
* * * * *
31407071 GATGATGCACTTATGTGCCAACATGATT-TCTTTGGCCTATTC
1 GATGATGCACTTA-ATGCCAATATAATTGT-TTTGG-TTATCC
31407113 GATGATGCACT
1 GATGATGCACT
31407124 ATGTGTGCTA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 68 0.91
43 3 0.04
44 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (40 bp):
GATGATGCACTTAATGCCAATATAATTGTTTTGGTTATCC
Found at i:31408932 original size:40 final size:40
Alignment explanation
Indices: 31408874--31409002 Score: 190
Period size: 40 Copynumber: 3.2 Consensus size: 40
31408864 GTGATGATTG
*
31408874 TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTA
1 TACTTCGGTACCCATGAATGCACATACGTGCCCCTGTTTA
*
31408914 TACTTCGGTACCCATGAATGCACATACGTGCCCCT-TTGTG
1 TACTTCGGTACCCATGAATGCACATACGTGCCCCTGTT-TA
* *
31408954 TACTTCGGTACCCTTGAATGCACATATGTG-CCCTGTTTA
1 TACTTCGGTACCCATGAATGCACATACGTGCCCCTGTTTA
*
31408993 TACTTTGGTA
1 TACTTCGGTA
31409003 ACCTCGAATT
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 16 0.20
40 65 0.80
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (40 bp):
TACTTCGGTACCCATGAATGCACATACGTGCCCCTGTTTA
Found at i:31412708 original size:39 final size:39
Alignment explanation
Indices: 31412664--31413018 Score: 620
Period size: 39 Copynumber: 9.1 Consensus size: 39
31412654 AATTATATTA
* *
31412664 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
31412703 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
31412742 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
31412781 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
31412820 CCAGCACGAACCCTGCGGGTCTTTAGCCGGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
31412859 CCAGCACGAAGCCTGCGGGGCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
31412898 CCAGCACGAAGCCTGCTGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
31412937 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
31412976 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
31413015 CCAG
1 CCAG
31413019 TGTCTTGCTT
Statistics
Matches: 302, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 302 1.00
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:31418585 original size:39 final size:39
Alignment explanation
Indices: 31418541--31418778 Score: 413
Period size: 39 Copynumber: 6.1 Consensus size: 39
31418531 AATTATATTA
* *
31418541 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
31418580 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
31418619 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
31418658 CCAGCACGAAGCCTGCGGGTCTTTAGCCGGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
31418697 CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
31418736 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
31418775 CCAG
1 CCAG
31418779 TGTCTTGCTT
Statistics
Matches: 193, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 193 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:31420742 original size:30 final size:30
Alignment explanation
Indices: 31420708--31420766 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
31420698 ATTTTCGGGC
* *
31420708 CTAGGGGTAAAATGGTCATTTTATCAAAGT
1 CTAGGGGAAAAATGGTCATTTTACCAAAGT
31420738 CTAGGGGAAAAATGGTCATTTTACCAAAG
1 CTAGGGGAAAAATGGTCATTTTACCAAAG
31420767 ATATGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
CTAGGGGAAAAATGGTCATTTTACCAAAGT
Found at i:31421166 original size:47 final size:47
Alignment explanation
Indices: 31421100--31421372 Score: 227
Period size: 50 Copynumber: 5.7 Consensus size: 47
31421090 GGGTTATTGT
* *
31421100 GAGCTAGTATAAGA-CATGTCTGGGACATGCATCGGCCACATTATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACAATATGTA
* * * *
31421146 GAGCCAGTGTAAGACCATGTCTGGGACATGCATTGGCCTCAAAATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACAATATGTA
* * ** *
31421194 -AGTTAGTGTAAGA-CATGTCTGGGACATGCACCGGCTAGGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACAATATGTA
* *
31421239 --GTTAGTGTAAGACCATGTCTGGGACACAGCATCGGCACAGATATGCTA
1 GAGCTAGTGTAAGACCATGTCTGGGACA-TGCATCGGCACA-ATATG-TA
* * * * *
31421287 GAGCTTGTGTAAGACCATGTCTGGGATAGAGTATCGGCATAGATATGCTA
1 GAGCTAGTGTAAGACCATGTCTGGGACA-TGCATCGGCACA-ATATG-TA
* *
31421337 GAGCTTGTGTAACACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCG
31421373 ACACTTTACC
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
44 12 0.06
45 15 0.08
46 47 0.25
47 39 0.21
48 1 0.01
50 73 0.39
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAATATGTA
Found at i:31425813 original size:46 final size:46
Alignment explanation
Indices: 31425746--31425912 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
31425736 TGTAACCCGC
31425746 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
31425792 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
31425842 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
31425885 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
31425913 AAGTTCAGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:31425924 original size:93 final size:93
Alignment explanation
Indices: 31425754--31425924 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31425744 GCCCATAAGT
** *
31425754 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31425819 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
*
31425847 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31425912 CAAGTTCAGATGC
66 CAAGCTCAGATGC
31425925 TCAACCATCC
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:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:31425940 original size:46 final size:45
Alignment explanation
Indices: 31425847--31425932 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
31425837 TACATCTCAC
* * *
31425847 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTC-AACATGCGCAACCATAAGT
* *
31425893 GAACTCGGACTCAACTCAACAAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCAT
31425933 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
46 25 0.71
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCATAAGT
Found at i:31429413 original size:44 final size:44
Alignment explanation
Indices: 31429311--31429475 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 44
31429301 GTCGATGTTG
* * * * *
31429311 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCT---CGTAGCCGATGCA
*
31429357 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
* *
31429401 TGTCCCAGACATGTCTGACATTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-A-CATCTCGTA-GCCGATGCA
* * *
31429447 TATCCCATACATGGTTTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
31429476 CAAATCTCAT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.03
44 29 0.29
45 4 0.04
46 54 0.54
47 10 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
Found at i:31432035 original size:46 final size:46
Alignment explanation
Indices: 31431968--31432134 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
31431958 TGTAACCCGC
31431968 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
31432014 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
31432064 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
31432107 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
31432135 AAGTTCAGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:31432146 original size:93 final size:93
Alignment explanation
Indices: 31431976--31432146 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31431966 GCCCATAAGT
** *
31431976 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31432041 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
*
31432069 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31432134 CAAGTTCAGATGC
66 CAAGCTCAGATGC
31432147 TCAACCATCC
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:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:31432162 original size:46 final size:45
Alignment explanation
Indices: 31432069--31432154 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
31432059 TACATCTCAC
* * *
31432069 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTC-AACATGCGCAACCATAAGT
* *
31432115 GAACTCGGACTCAACTCAACAAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCAT
31432155 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
46 25 0.71
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCATAAGT
Found at i:31435632 original size:44 final size:44
Alignment explanation
Indices: 31435530--31435694 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 44
31435520 GTCGATGTTG
* * * * *
31435530 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCT---CGTAGCCGATGCA
*
31435576 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
* *
31435620 TGTCCCAGACATGTCTGACATTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-A-CATCTCGTA-GCCGATGCA
* * *
31435666 TATCCCATACATGGTTTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
31435695 CAAATCTCAT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.03
44 29 0.29
45 4 0.04
46 54 0.54
47 10 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
Found at i:31438259 original size:46 final size:46
Alignment explanation
Indices: 31438192--31438358 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
31438182 TGTAACCCGC
31438192 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
31438238 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
31438288 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
31438331 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
31438359 AAGTTCAGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:31438370 original size:93 final size:93
Alignment explanation
Indices: 31438200--31438370 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31438190 GCCCATAAGT
** *
31438200 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31438265 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
*
31438293 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31438358 CAAGTTCAGATGC
66 CAAGCTCAGATGC
31438371 TCAACCATCC
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:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:31438386 original size:46 final size:45
Alignment explanation
Indices: 31438293--31438378 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
31438283 TACATCTCAC
* * *
31438293 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTC-AACATGCGCAACCATAAGT
* *
31438339 GAACTCGGACTCAACTCAACAAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCAT
31438379 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
46 25 0.71
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCATAAGT
Found at i:31441859 original size:44 final size:44
Alignment explanation
Indices: 31441757--31441921 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 44
31441747 GTCGATGTTG
* * * * *
31441757 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCT---CGTAGCCGATGCA
*
31441803 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
* *
31441847 TGTCCCAGACATGTCTGACATTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-A-CATCTCGTA-GCCGATGCA
* * *
31441893 TATCCCATACATGGTTTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
31441922 CAAATCTCAT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.03
44 29 0.29
45 4 0.04
46 54 0.54
47 10 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
Found at i:31444485 original size:46 final size:46
Alignment explanation
Indices: 31444418--31444584 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
31444408 TGTAACCCGC
31444418 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
31444464 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
31444514 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
31444557 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
31444585 AAGTTCAGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:31444596 original size:93 final size:93
Alignment explanation
Indices: 31444426--31444596 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31444416 GCCCATAAGT
** *
31444426 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31444491 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
*
31444519 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31444584 CAAGTTCAGATGC
66 CAAGCTCAGATGC
31444597 TCAACCATCC
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:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:31444612 original size:46 final size:45
Alignment explanation
Indices: 31444519--31444604 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
31444509 TACATCTCAC
* * *
31444519 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTC-AACATGCGCAACCATAAGT
* *
31444565 GAACTCGGACTCAACTCAACAAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCAT
31444605 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
46 25 0.71
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCAACATGCGCAACCATAAGT
Found at i:31451318 original size:21 final size:21
Alignment explanation
Indices: 31451294--31451337 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
31451284 ATGATCAACT
31451294 AGTTTAATTATTATATGAGAG
1 AGTTTAATTATTATATGAGAG
31451315 AGTTTAATTATTATATGAGAG
1 AGTTTAATTATTATATGAGAG
31451336 AG
1 AG
31451338 GACTCATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (21 bp):
AGTTTAATTATTATATGAGAG
Found at i:31452275 original size:40 final size:40
Alignment explanation
Indices: 31452231--31452339 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
31452221 TATTGATGAT
* * *
31452231 TGCACATACTTGCCCCTGTTTGTACTTCGGTACTCCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
*
31452271 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
*
31452311 TGCACATACGTGACCCTATTTGTACTTCG
1 TGCACATACGTGCCCCTATTTGTACTTCG
31452340 ATTCCCTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
Found at i:31464222 original size:34 final size:34
Alignment explanation
Indices: 31464179--31464248 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
31464169 AAATATTAAG
31464179 AATGACACTTAGTGTGCGAAATATCGAATGATTC
1 AATGACACTTAGTGTGCGAAATATCGAATGATTC
* *
31464213 AATGACACTTAGTGTGTGAAATATCTAATGATTC
1 AATGACACTTAGTGTGCGAAATATCGAATGATTC
31464247 AA
1 AA
31464249 AGGGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (34 bp):
AATGACACTTAGTGTGCGAAATATCGAATGATTC
Found at i:31473660 original size:40 final size:40
Alignment explanation
Indices: 31473572--31473648 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
31473562 GAGTAGTTGA
*
31473572 TATACA-CTCGTTCATCATTTGAAAGAAAGCTTCTTTTACC
1 TATACACCT-GTTCATCATTTAAAAGAAAGCTTCTTTTACC
*
31473612 TATACACCTGTTCATCATTTAAAAGAAGGCTTCTTTT
1 TATACACCTGTTCATCATTTAAAAGAAAGCTTCTTTT
31473649 GCCTCCTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (40 bp):
TATACACCTGTTCATCATTTAAAAGAAAGCTTCTTTTACC
Found at i:31481090 original size:23 final size:24
Alignment explanation
Indices: 31481060--31481108 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
31481050 TGTGTCTAGG
31481060 CCGTGTGTGACACAC-GTCAGCCC
1 CCGTGTGTGACACACGGTCAGCCC
31481083 CCGTGTGTGACACACGGTCAGCCC
1 CCGTGTGTGACACACGGTCAGCCC
31481107 CC
1 CC
31481109 ATGGGCGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.16
Consensus pattern (24 bp):
CCGTGTGTGACACACGGTCAGCCC
Found at i:31494638 original size:154 final size:154
Alignment explanation
Indices: 31494326--31494656 Score: 441
Period size: 154 Copynumber: 2.1 Consensus size: 154
31494316 ATAAATCGAG
* *
31494326 TATTAGCGGCGTTTTTTCAAAAATGCCGCTATAGGTCGACCTATAGCGGCGTTTTTATAAAAACG
1 TATTAGCGGCGATTTTTCAAAAATGCCGCTATAGGTCGACCTATAGCGGCGTTTCTATAAAAACG
* *
31494391 CCACTAAAAGATTAAGCTGAACGCGTCATTTATTGTGAGCTTCAGTGGCAATAACGGTGCTTTAT
66 CCACTAAAAGATTAAACTGAACGCGTCATTTATTGTGAGCTTCAGTGGCAATAACGGTGCTTCAT
* *
31494456 CAAAAACGCCACTATAGGTTTGAG
131 CAAAAACGCCACTATAGGATTGAA
* *
31494480 TATTAGCGGC-ATTTTTCAGAAAATGCCGCTATAGGTCGACCTATAGCGGCGTTTCTATACAAAT
1 TATTAGCGGCGATTTTTCA-AAAATGCCGCTATAGGTCGACCTATAGCGGCGTTTCTATAAAAAC
** ** * * *
31494544 GCTGCTAAAAGATTAAACTGAACGACGTTGTTTATTTTGAGCTTTAGTGGCAATAGCGGTGCTTC
65 GCCACTAAAAGATTAAACTGAACG-CGTCATTTATTGTGAGCTTCAGTGGCAATAACGGTGCTTC
* * *
31494609 CTCAAAAATGCCGCTATA-GATTGAA
129 ATCAAAAACGCCACTATAGGATTGAA
* * *
31494634 TATTAGCGGTGCTTTTTAAAAAA
1 TATTAGCGGCGATTTTTCAAAAA
31494657 CGTCACTATG
Statistics
Matches: 153, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
153 7 0.05
154 91 0.59
155 55 0.36
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (154 bp):
TATTAGCGGCGATTTTTCAAAAATGCCGCTATAGGTCGACCTATAGCGGCGTTTCTATAAAAACG
CCACTAAAAGATTAAACTGAACGCGTCATTTATTGTGAGCTTCAGTGGCAATAACGGTGCTTCAT
CAAAAACGCCACTATAGGATTGAA
Found at i:31494751 original size:42 final size:41
Alignment explanation
Indices: 31494612--31494752 Score: 176
Period size: 41 Copynumber: 3.4 Consensus size: 41
31494602 GTGCTTCCTC
* * * * *
31494612 AAAAATGCCGCTATAGA-TTGAATATTAGCGGTGCTTTTTA
1 AAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTTTTTG
* * * *
31494652 AAAAACGTCACTATGGATTTGAGTTTTAGTGGCGCTTTTTG
1 AAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTTTTTG
*
31494693 AAAAACGCCGCAATAGATTTGAGTTTTAGCGGCGCTTTTTGG
1 AAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTTTTT-G
31494735 AAAAACGCCGCTATAGAT
1 AAAAACGCCGCTATAGAT
31494753 CTAAACTATT
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 13 0.15
41 53 0.63
42 18 0.21
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (41 bp):
AAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTTTTTG
Found at i:31495251 original size:21 final size:20
Alignment explanation
Indices: 31495227--31495281 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
31495217 AACACTGCCC
*
31495227 TAACCATAAATCCTAACCCAT
1 TAACCCTAAATCCTAACCC-T
* *
31495248 TAACCCTTACTCCTAACCCT
1 TAACCCTAAATCCTAACCCT
31495268 TAACCCCTAAATCC
1 TAA-CCCTAAATCC
31495282 ATAAACTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (20 bp):
TAACCCTAAATCCTAACCCT
Found at i:31495307 original size:14 final size:14
Alignment explanation
Indices: 31495283--31495331 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
31495273 CCTAAATCCA
* *
31495283 TAAACTATAAACCT
1 TAAATTATAAACCC
*
31495297 TAAATTTTAAACCC
1 TAAATTATAAACCC
*
31495311 TAAACTATAAACCC
1 TAAATTATAAACCC
31495325 TAAATTA
1 TAAATTA
31495332 ATGACACGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATTATAAACCC
Found at i:31495810 original size:22 final size:22
Alignment explanation
Indices: 31495785--31495832 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
31495775 GGGTTAAGAT
* *
31495785 TTAAAGGTTGAGGGTCT-AGGGG
1 TTAAAGGTTAAGAGT-TAAGGGG
31495807 TTAAAGGTTAAGAGTTAAGGGG
1 TTAAAGGTTAAGAGTTAAGGGG
31495829 TTAA
1 TTAA
31495833 GGGGATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.31, C:0.02, G:0.38, T:0.29
Consensus pattern (22 bp):
TTAAAGGTTAAGAGTTAAGGGG
Found at i:31495853 original size:7 final size:7
Alignment explanation
Indices: 31495841--31495995 Score: 69
Period size: 7 Copynumber: 21.3 Consensus size: 7
31495831 AAGGGGATAT
31495841 GGTTTAG
1 GGTTTAG
31495848 GGTTTAG
1 GGTTTAG
* *
31495855 AGTTTAA
1 GGTTTAG
*
31495862 AGTTTAG
1 GGTTTAG
* *
31495869 AGATTAAG
1 -GGTTTAG
*
31495877 GGTTTAT
1 GGTTTAG
*
31495884 GGTTTAA
1 GGTTTAG
*
31495891 GGTTGAGG
1 GGTTTA-G
31495899 GGTTTAGG
1 GGTTTA-G
*
31495907 GGTTAATG
1 GGTTTA-G
** *
31495915 GG-ACAT
1 GGTTTAG
31495921 GGTTTAG
1 GGTTTAG
31495928 GGTTTAG
1 GGTTTAG
* *
31495935 TGTTTAA
1 GGTTTAG
**
31495942 ATTTTAG
1 GGTTTAG
*
31495949 GGATTAAG
1 GG-TTTAG
* *
31495957 GGTTAAT
1 GGTTTAG
31495964 GGTTTAG
1 GGTTTAG
31495971 GGTTTAGG
1 GGTTTA-G
31495979 GGTTTAGG
1 GGTTTA-G
31495987 GGTTTAG
1 GGTTTAG
31495994 GG
1 GG
31495996 GACATAGGTT
Statistics
Matches: 111, Mismatches: 32, Indels: 10
0.73 0.21 0.07
Matches are distributed among these distances:
6 2 0.02
7 69 0.62
8 40 0.36
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.39
Consensus pattern (7 bp):
GGTTTAG
Found at i:31495876 original size:43 final size:43
Alignment explanation
Indices: 31495814--31495977 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
31495804 GGGTTAAAGG
* *
31495814 TTAAGAGTTAAGGGGTTAAGGGGATATGGTTTAGGGTTTAGAGT
1 TTAA-AGTTTAGGGATTAAGGGGATATGGTTTAGGGTTTAGAGT
* ** *
31495858 TTAAAGTTTAGAGATTAAGGGTTTATGGTTTAAGG-TT-GAG-
1 TTAAAGTTTAGGGATTAAGGGGATATGGTTTAGGGTTTAGAGT
** * * * *
31495898 ---GGGTTTAGGGGTTAATGGGACATGGTTTAGGGTTTAGTGT
1 TTAAAGTTTAGGGATTAAGGGGATATGGTTTAGGGTTTAGAGT
* *
31495938 TTAAATTTTAGGGATTAA-GGGTTAATGGTTTAGGGTTTAG
1 TTAAAGTTTAGGGATTAAGGGGAT-ATGGTTTAGGGTTTAG
31495978 GGGTTTAGGG
Statistics
Matches: 91, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
37 23 0.25
38 2 0.02
39 2 0.02
41 3 0.03
42 5 0.05
43 52 0.57
44 4 0.04
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.38
Consensus pattern (43 bp):
TTAAAGTTTAGGGATTAAGGGGATATGGTTTAGGGTTTAGAGT
Found at i:31495907 original size:29 final size:29
Alignment explanation
Indices: 31495841--31495907 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
31495831 AAGGGGATAT
*
31495841 GGTTTAGGGTTTAGAGTTTAAAGTTTAGA
1 GGTTTAGGGTTTAGAGTTTAAAGTTGAGA
* * * *
31495870 GATTAAGGGTTTATG-GTTTAAGGTTGAGG
1 GGTTTAGGGTTTA-GAGTTTAAAGTTGAGA
31495899 GGTTTAGGG
1 GGTTTAGGG
31495908 GTTAATGGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (29 bp):
GGTTTAGGGTTTAGAGTTTAAAGTTGAGA
Found at i:31495908 original size:80 final size:80
Alignment explanation
Indices: 31495824--31496015 Score: 285
Period size: 80 Copynumber: 2.4 Consensus size: 80
31495814 TTAAGAGTTA
* *
31495824 AGGGGTTAAGGGGATATGGTTTAGGGTTTAGAGTTTAAAGTTTAGAGATTAAGGGTTTATGGTTT
1 AGGGGTTAAGGGGACATGGTTTAGGGTTTAGAGTTTAAAGTTTAGAGATTAAGGGTTAATGGTTT
31495889 AAGGTTGAGGGGTTT
66 AAGGTTGAGGGGTTT
* * * *
31495904 AGGGGTTAATGGGACATGGTTTAGGGTTTAGTGTTTAAATTTTAGGGATTAAGGGTTAATGGTTT
1 AGGGGTTAAGGGGACATGGTTTAGGGTTTAGAGTTTAAAGTTTAGAGATTAAGGGTTAATGGTTT
* *
31495969 AGGGTTTAGGGGTTT
66 AAGGTTGAGGGGTTT
* *
31495984 AGGGGTTTAGGGGACATAGGTTAAGGGTTTAG
1 AGGGGTTAAGGGGACAT-GGTTTAGGGTTTAG
31496016 GATAATTAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 87 0.87
81 13 0.13
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (80 bp):
AGGGGTTAAGGGGACATGGTTTAGGGTTTAGAGTTTAAAGTTTAGAGATTAAGGGTTAATGGTTT
AAGGTTGAGGGGTTT
Found at i:31495983 original size:8 final size:8
Alignment explanation
Indices: 31495964--31495996 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
31495954 AAGGGTTAAT
31495964 GGTTTA-G
1 GGTTTAGG
31495971 GGTTTAGG
1 GGTTTAGG
31495979 GGTTTAGG
1 GGTTTAGG
31495987 GGTTTAGG
1 GGTTTAGG
31495995 GG
1 GG
31495997 ACATAGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.12, C:0.00, G:0.52, T:0.36
Consensus pattern (8 bp):
GGTTTAGG
Found at i:31496183 original size:16 final size:16
Alignment explanation
Indices: 31496130--31496183 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
31496120 ATATTAAATA
31496130 ATTTCAAATTTT-AATG
1 ATTTCAAATTTTCAA-G
31496146 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
31496160 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
31496172 ATTTCAAATTTT
1 ATTTCAAATTTT
31496184 ATGTAGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
16 19 0.61
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:31496224 original size:21 final size:22
Alignment explanation
Indices: 31496202--31496244 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31496192 CTTTTAAATA
**
31496202 TTAGTTAAATTTAAAAAATTAT
1 TTAGTTAAATGAAAAAAATTAT
*
31496224 TTATTTAAATGAAAAAAATTA
1 TTAGTTAAATGAAAAAAATTA
31496245 AAATACTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TTAGTTAAATGAAAAAAATTAT
Found at i:31496330 original size:18 final size:17
Alignment explanation
Indices: 31496291--31496327 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
31496281 GTAATATAAC
31496291 ATATTGTTTTTTAATTT
1 ATATTGTTTTTTAATTT
31496308 ATATTGTTTTTT-ATTT
1 ATATTGTTTTTTAATTT
31496324 ATAT
1 ATAT
31496328 ATTAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
ATATTGTTTTTTAATTT
Found at i:31498079 original size:64 final size:64
Alignment explanation
Indices: 31498000--31498124 Score: 250
Period size: 64 Copynumber: 2.0 Consensus size: 64
31497990 GGATGGGCAC
31498000 GTCAAAATTTGAAGTTCATATATTAAACTGGACCAGGATTCGATAACTGTATATGATGTTGCAT
1 GTCAAAATTTGAAGTTCATATATTAAACTGGACCAGGATTCGATAACTGTATATGATGTTGCAT
31498064 GTCAAAATTTGAAGTTCATATATTAAACTGGACCAGGATTCGATAACTGTATATGATGTTG
1 GTCAAAATTTGAAGTTCATATATTAAACTGGACCAGGATTCGATAACTGTATATGATGTTG
31498125 ATGCATGTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (64 bp):
GTCAAAATTTGAAGTTCATATATTAAACTGGACCAGGATTCGATAACTGTATATGATGTTGCAT
Found at i:31498577 original size:11 final size:11
Alignment explanation
Indices: 31498561--31498586 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31498551 GGATTATGTT
31498561 TTTAATTCTTG
1 TTTAATTCTTG
31498572 TTTAATTCTTG
1 TTTAATTCTTG
31498583 TTTA
1 TTTA
31498587 TCCTTAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (11 bp):
TTTAATTCTTG
Found at i:31499213 original size:64 final size:64
Alignment explanation
Indices: 31499140--31499273 Score: 250
Period size: 64 Copynumber: 2.1 Consensus size: 64
31499130 TAATATTTCT
* *
31499140 ATATTTCTATCATGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
31499204 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
31499268 ATATTT
1 ATATTT
31499274 AATAAAATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Done.