Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 195 of 318
Found at i:61228834 original size:29 final size:29
Alignment explanation
Indices: 61228750--61228851 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
61228740 GAGTCCGCAA
* * * *
61228750 GTATGTATCCACCAAGTATTAGCCCGTAG
1 GTATATATCCACCAAGTATAAGCCTGCAG
* *
61228779 GTATATATCCACCAAGTATGAGTCTGCAG
1 GTATATATCCACCAAGTATAAGCCTGCAG
* *
61228808 GTATATATCCACCAAATATAAACCTGCA-
1 GTATATATCCACCAAGTATAAGCCTGCAG
**
61228836 AAAT-TATCCACCAAGT
1 GTATATATCCACCAAGT
61228852 TTTATGCTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 11 0.18
28 2 0.03
29 48 0.79
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (29 bp):
GTATATATCCACCAAGTATAAGCCTGCAG
Found at i:61230811 original size:42 final size:43
Alignment explanation
Indices: 61230711--61230821 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
61230701 CTCGTACAAT
* * * * * * *
61230711 GCCAACGTTCCAGACGAGGTCTTTCATGTAATTAAATATCGAT
1 GCCAATGTCCCAGACAAGGTCTTACATGAAATCAAATATCGAA
* *
61230754 GCCACTGTCCCAGACAAGGTCTTACATGAAATCATATA-CGAA
1 GCCAATGTCCCAGACAAGGTCTTACATGAAATCAAATATCGAA
*
61230796 GCCAATGTCCCAGACATGGTCTTACA
1 GCCAATGTCCCAGACAAGGTCTTACA
61230822 CGTAAATCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 27 0.47
43 30 0.53
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACAAGGTCTTACATGAAATCAAATATCGAA
Found at i:61230853 original size:44 final size:41
Alignment explanation
Indices: 61230748--61230863 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 41
61230738 GTAATTAAAT
* * *
61230748 ATCGATGCC-ACTGTCCCAGACAAGGTCTTACATGAAATCAT
1 ATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAA
* *
61230789 ATACGAAGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCAACGTCCCAGACATGGTCTTACACG-AAA--TCAA
* *
61230834 ATCGATGCCAACATCCCAGACGTGGTCTTA
1 ATCGATGCCAACGTCCCAGACATGGTCTTA
61230864 ATGTCCCAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 26 0.43
43 4 0.07
44 24 0.39
45 5 0.08
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
ATCGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:61230900 original size:64 final size:64
Alignment explanation
Indices: 61230799--61230927 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
61230789 ATACGAAGCC
61230799 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACATCCCAGACGTGGTCTT
1 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACATCCCAGACGTGGTCTT
*
61230863 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTT
1 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACATCCCAGACGTGGTCTT
61230927 A
1 A
61230928 CACGAAATCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (64 bp):
AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACATCCCAGACGTGGTCTT
Found at i:61235761 original size:40 final size:40
Alignment explanation
Indices: 61235702--61235909 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
61235692 CATTGGAATG
* * *
61235702 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
61235742 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
61235782 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
61235822 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
61235862 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
61235902 ATATCCGG
1 ATATCCGG
61235910 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:61243788 original size:40 final size:40
Alignment explanation
Indices: 61243729--61243936 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
61243719 CATTGGAATG
* * *
61243729 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
61243769 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
61243809 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
61243849 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
61243889 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
61243929 ATATCCGG
1 ATATCCGG
61243937 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:61249873 original size:46 final size:46
Alignment explanation
Indices: 61249806--61249980 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
61249796 TGTAACCCGC
*
61249806 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
* * *
61249852 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCAT
* * ***
61249902 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
*
61249945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
61249981 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
Found at i:61249925 original size:93 final size:93
Alignment explanation
Indices: 61249813--61249984 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61249803 CGCCCATAAG
***
61249813 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61249878 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
61249906 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
61249971 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
61249985 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:61252267 original size:22 final size:21
Alignment explanation
Indices: 61252232--61252307 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
61252222 AAAAGGTATC
* *
61252232 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
61252253 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
61252276 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
61252295 TGC-AATCATATCT
1 TACAAATCATATCT
61252308 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:61252292 original size:19 final size:19
Alignment explanation
Indices: 61252268--61252355 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
61252258 AATCATATCT
61252268 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
61252287 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
61252305 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
61252322 TCTAAGATAGCATATCATA
1 TCTAAGATTGCATATCATA
61252341 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
61252356 TATTGAAGAC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:61252765 original size:45 final size:45
Alignment explanation
Indices: 61252703--61252976 Score: 268
Period size: 45 Copynumber: 6.1 Consensus size: 45
61252693 AGAAGGCGAT
* *
61252703 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
61252748 ATATGTTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
61252793 ATCTGCT-TCTTCAATCTGCTCACCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
61252837 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * * *
61252882 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
* * *
61252927 ATCTGTTATTTCTTCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
61252974 ATC
1 ATC
61252977 ATCTTGGATC
Statistics
Matches: 185, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
43 6 0.03
44 44 0.24
45 106 0.57
47 18 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:61252868 original size:89 final size:90
Alignment explanation
Indices: 61252703--61252886 Score: 271
Period size: 89 Copynumber: 2.1 Consensus size: 90
61252693 AGAAGGCGAT
** * *
61252703 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATATGTTATCTTCGATCTAC
1 ATCTGCTATCTTCAATCTGCTCACCGTCTAATACAGAGACGCCAAATATGTTATCTCCGATCTAC
*
61252768 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCTAATACAAAGACGCCAA
* * * *
61252793 ATCTGCT-TCTTCAATCTGCTCACCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCACCGTCTAATACAGAGACGCCAAATATGTTATCTCCGATCTAC
*
61252857 TCCCCGTCTAATACAAAGATGCCAA
66 TCCCCGTCTAATACAAAGACGCCAA
61252882 ATCTG
1 ATCTG
61252887 TCATCTTGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 77 0.92
90 7 0.08
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCACCGTCTAATACAGAGACGCCAAATATGTTATCTCCGATCTAC
TCCCCGTCTAATACAAAGACGCCAA
Found at i:61253051 original size:78 final size:78
Alignment explanation
Indices: 61252916--61253210 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
61252906 ATGTAAACAC
* * * * *
61252916 ATGAAGGTCAGATCTGTTATTTCTTCGATTTGCTCCCCGTCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
61252981 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
61252994 ATGAAGGTCTA-ATCTGTTATGTCTTCGATCTGCTCCCCGTTTAATATAGAGAGGCCAAATCATC
1 ATGAAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
61253058 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
61253072 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
61253137 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* ** * *
61253150 ATGAAGGTCAGATTTGCTATGTCTTCGATCTGCTTTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATC
61253211 TGTTTCTTCG
Statistics
Matches: 197, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 195 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:61253443 original size:209 final size:209
Alignment explanation
Indices: 61253083--61253720 Score: 728
Period size: 209 Copynumber: 3.0 Consensus size: 209
61253073 TGAAGGTCAG
* *
61253083 ATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTT
* * **
61253148 CAATGAAGGTCAGATTTGCTATGTCTTCGATCTGCTTTCCGTCGAATATGGAGATGCCAAATCTG
66 CAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCGAATACAGAGATGCCAAATCTG
61253213 TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAA
131 TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAA
61253278 CACGTGAAAGCCAA
196 CACGTGAAAGCCAA
*
61253292 ATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTT
* * *
61253357 CAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGTCAAATCTG
66 CAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCGAATACAGAGATGCCAAATCTG
61253422 TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTACTT---C----A
131 TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAA
* * *
61253480 -A--TGAAGGTCAG
196 CACGTGAAAGCCAA
* * ** *
61253491 ATCTACTGTGTCTTCGATCTGCTCCTTGTC-AACGCA-AG-GATGCCAAATCATCTTGGATTTAC
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAA--TATAGAGATGCCAAATCATCTTGGA--T-C
* * * * **
61253553 TTTCATCTGAAGACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGC-TCTCCATCGAATATG
61 -TGC-T-T---CA-AT--GAAGGTCAGATCTGCTATGTCTTCGATCTGCTTC-CCGTCGAATACA
* * * ** *
61253617 GAGATGCCAAATCTATTTCTTCGATTTATTCTCTGACAATACAGAGATGTTAAATCATCTTGGAT
116 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT
** * * *
61253682 CCGCTTCAGCGTAAACACCTGAAGGTCAA
181 CTACTTCAGCGTAAACACGTGAAAGCCAA
61253711 ATCTGCTATG
1 ATCTGCTATG
61253721 CTTTAGCCTG
Statistics
Matches: 365, Mismatches: 39, Indels: 39
0.82 0.09 0.09
Matches are distributed among these distances:
198 21 0.06
199 34 0.09
200 2 0.01
201 2 0.01
202 3 0.01
203 1 0.00
204 1 0.00
206 1 0.00
207 1 0.00
208 2 0.01
209 178 0.49
210 99 0.27
213 1 0.00
217 1 0.00
218 1 0.00
220 17 0.05
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (209 bp):
ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCGAATACAGAGATGCCAAATCTG
TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAA
CACGTGAAAGCCAA
Found at i:61264048 original size:38 final size:38
Alignment explanation
Indices: 61264006--61264145 Score: 210
Period size: 38 Copynumber: 3.7 Consensus size: 38
61263996 CAGGCTATAT
61264006 GCTGG-AATTATATCCGGGTTAAATCCCACAGGCTTCGC
1 GCTGGTAA-TATATCCGGGTTAAATCCCACAGGCTTCGC
*
61264044 GCTGGTAATATATCCGGGTTAAATCCCATAGGCTTCGC
1 GCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGC
* * *
61264082 GCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGT
1 GCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGC
* *
61264120 GCTAGTATTATATCCGGGTTAAATCC
1 GCTGGTAATATATCCGGGTTAAATCC
61264146 AGCAGGCCTA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 91 0.98
39 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (38 bp):
GCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGC
Found at i:61264151 original size:38 final size:38
Alignment explanation
Indices: 61264006--61264171 Score: 208
Period size: 38 Copynumber: 4.4 Consensus size: 38
61263996 CAGGCTATAT
*
61264006 GCTGGAATTATATCCGGGTTAAATCCCACAGGCTTCGC
1 GCTGGTATTATATCCGGGTTAAATCCCACAGGCTTCGC
* *
61264044 GCTGGTAATATATCCGGGTTAAATCCCATAGGCTTCGC
1 GCTGGTATTATATCCGGGTTAAATCCCACAGGCTTCGC
* * * *
61264082 GCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGT
1 GCTGGTATTATATCCGGGTTAAATCCCACAGGCTTCGC
* * ***
61264120 GCTAGTATTATATCCGGGTTAAAT-CCAGCAGGCCTAAT
1 GCTGGTATTATATCCGGGTTAAATCCCA-CAGGCTTCGC
61264158 GCTGGTATTATATC
1 GCTGGTATTATATC
61264172 TGAGCTTAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
37 2 0.02
38 110 0.98
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
GCTGGTATTATATCCGGGTTAAATCCCACAGGCTTCGC
Found at i:61264162 original size:76 final size:76
Alignment explanation
Indices: 61263976--61264200 Score: 213
Period size: 76 Copynumber: 2.9 Consensus size: 76
61263966 ATTTGATGTG
* * * *
61263976 TATCCGGGCTTAAAGACCTGCAGG-CTATATGCTGG-AATTATATCCGGGTTAAATCCCACAGGC
1 TATCCGGG-TTAAA-TCCAGCAGGCCTA-ATGCTGGTAA-TATATCCAGGTTAAATCCCGCAGGC
* *
61264039 TTCGCGCTGGTAATA
62 TTCGTGCTAGTAATA
* * ***
61264054 TATCCGGGTTAAATCCCA-TAGGCTTCGCGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTC
1 TATCCGGGTTAAAT-CCAGCAGGCCTAATGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTC
*
61264118 GTGCTAGTATTA
65 GTGCTAGTAATA
* * * *
61264130 TATCCGGGTTAAATCCAGCAGGCCTAATGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGGTTT
1 TATCCGGGTTAAATCCAGCAGGCCTAATGCTGGTAATATATC-CAGGTTAAA-TCCCGCAGGCTT
*
61264195 TGTGCT
64 CGTGCT
61264201 GGTGACTGGA
Statistics
Matches: 119, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
75 3 0.03
76 75 0.63
77 17 0.14
78 24 0.20
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (76 bp):
TATCCGGGTTAAATCCAGCAGGCCTAATGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCG
TGCTAGTAATA
Found at i:61264201 original size:40 final size:38
Alignment explanation
Indices: 61263995--61264203 Score: 165
Period size: 38 Copynumber: 5.4 Consensus size: 38
61263985 TTAAAGACCT
*
61263995 GCAGGCTATA-TGCTGGAATTATATCCG-GGTTAAATCCC
1 GCAGGCT-TAGTGCTGGTATTATAT-CGAGGTTAAATCCC
* * * *
61264033 ACAGGCTTCGCGCTGGTAATATATCCG-GGTTAAATCCC
1 GCAGGCTTAGTGCTGGTATTATAT-CGAGGTTAAATCCC
** * * * *
61264071 ATAGGCTTCGCGCTGGTAATATATCCAGGTTAAATCCC
1 GCAGGCTTAGTGCTGGTATTATATCGAGGTTAAATCCC
* * *
61264109 GCAGGCTTCGTGCTAGTATTATATCCG-GGTTAAATCCA
1 GCAGGCTTAGTGCTGGTATTATAT-CGAGGTTAAATCCC
* * *
61264147 GCAGGCCTAATGCTGGTATTATATCTGAGCTTAAAGTCCC
1 GCAGGCTTAGTGCTGGTATTATATC-GAGGTTAAA-TCCC
* *
61264187 GCAGGTTTTGTGCTGGT
1 GCAGGCTTAGTGCTGGT
61264204 GACTGGATTT
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
37 3 0.02
38 115 0.82
39 7 0.05
40 16 0.11
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (38 bp):
GCAGGCTTAGTGCTGGTATTATATCGAGGTTAAATCCC
Found at i:61266742 original size:30 final size:30
Alignment explanation
Indices: 61266708--61266767 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61266698 ATTTAATACG
61266708 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
61266738 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
61266768 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:61270748 original size:40 final size:40
Alignment explanation
Indices: 61270685--61270868 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
61270675 TATTCGAATG
* *
61270685 ATATCCGGGCTAAG-TCCCAAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
61270725 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* *
61270765 ATATCCGGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
* * *
61270805 ATATCCGGGCTAAG-TCCCGGAGTCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
61270845 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
61270869 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.02
40 113 0.93
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:61270818 original size:80 final size:80
Alignment explanation
Indices: 61270685--61270868 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
61270675 TATTCGAATG
* * * *
61270685 ATATCCGGGCTAAGTCCCAAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
61270749 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * * * *
61270765 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGGAGTCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
61270830 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
61270845 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
61270869 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 3 0.03
80 86 0.97
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:61280050 original size:19 final size:20
Alignment explanation
Indices: 61280026--61280063 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61280016 GGTACCACCA
61280026 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
61280045 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
61280064 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:61284077 original size:23 final size:22
Alignment explanation
Indices: 61284034--61284091 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
61284024 AAAAGGTATC
* *
61284034 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
61284055 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
61284078 TGCATATCATATCT
1 TACAAATCATATCT
61284092 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:61284094 original size:19 final size:19
Alignment explanation
Indices: 61284070--61284106 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
61284060 AATCATATCT
61284070 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
61284089 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
61284107 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:61284114 original size:17 final size:19
Alignment explanation
Indices: 61284073--61284114 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
61284063 CATATCTTCT
*
61284073 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
61284092 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
61284109 AAGATT
1 AAGATT
61284115 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:61286151 original size:12 final size:12
Alignment explanation
Indices: 61286134--61286167 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
61286124 AAAACCTTAG
61286134 TTTTTCCTTTTC
1 TTTTTCCTTTTC
61286146 TTTTT-CTTTTC
1 TTTTTCCTTTTC
61286157 TTCTTTCCTTT
1 TT-TTTCCTTT
61286168 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:61286240 original size:2 final size:2
Alignment explanation
Indices: 61286233--61286258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61286223 ACTTGATTTC
61286233 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
61286259 TAGTTAATAA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61286278 original size:3 final size:3
Alignment explanation
Indices: 61286263--61286311 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
61286253 ATATATTAGT
*
61286263 TAA TAA TAT TAA TAA TAA TACA TAA TAA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
61286307 TAA TA
1 TAA TA
61286312 TTTAATTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:61286293 original size:16 final size:15
Alignment explanation
Indices: 61286263--61286311 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
61286253 ATATATTAGT
*
61286263 TAATAATATTAATAA
1 TAATAATAATAATAA
61286278 TAATACATAATAATAA
1 TAATA-ATAATAATAA
61286294 TAAT-ATAAT-ATAA
1 TAATAATAATAATAA
61286307 TAATA
1 TAATA
61286312 TTTAATTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 8 0.26
14 5 0.16
15 5 0.16
16 13 0.42
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:61286306 original size:19 final size:21
Alignment explanation
Indices: 61286263--61286311 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
61286253 ATATATTAGT
*
61286263 TAATAATATTAATAATAATACA
1 TAATAATAATAATAATAATA-A
61286285 TAATAATAATAAT-ATAAT-A
1 TAATAATAATAATAATAATAA
61286304 TAATAATA
1 TAATAATA
61286312 TTTAATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
21 5 0.19
22 12 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAATAATAATAA
Found at i:61286473 original size:24 final size:23
Alignment explanation
Indices: 61286423--61286475 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
61286413 TTGTCTTCAT
61286423 TTTAATAATTTAATATAAAACTA
1 TTTAATAATTTAATATAAAACTA
*
61286446 --TAATAATTATAATA-AATATCTA
1 TTTAATAATT-TAATATAA-AACTA
61286468 TTTAATAA
1 TTTAATAA
61286476 CAAATACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
24 6 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAATAATTTAATATAAAACTA
Found at i:61286909 original size:10 final size:11
Alignment explanation
Indices: 61286893--61286934 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
61286883 CTCCTTATAC
61286893 CTAATTAACCT
1 CTAATTAACCT
*
61286904 -TAATTAAACT
1 CTAATTAACCT
*
61286914 CTAATTAACCC
1 CTAATTAACCT
61286925 CTCAATTAAC
1 CT-AATTAAC
61286935 TTCGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.33
Consensus pattern (11 bp):
CTAATTAACCT
Found at i:61286967 original size:13 final size:13
Alignment explanation
Indices: 61286951--61286977 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61286941 AATATTTTTA
61286951 ATAAATATTTACG
1 ATAAATATTTACG
61286964 ATAAATATTTACG
1 ATAAATATTTACG
61286977 A
1 A
61286978 ATTCGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
ATAAATATTTACG
Found at i:61287557 original size:30 final size:31
Alignment explanation
Indices: 61287533--61287591 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
61287523 GTAAATACTC
* *
61287533 AAAATTTGAAGGATTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
*
61287563 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
61287592 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:61287868 original size:8 final size:8
Alignment explanation
Indices: 61287845--61287869 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
61287835 TTTAATAATA
61287845 TATTTTAT
1 TATTTTAT
61287853 TATTTTAT
1 TATTTTAT
61287861 TATTTTAT
1 TATTTTAT
61287869 T
1 T
61287870 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:61289157 original size:18 final size:18
Alignment explanation
Indices: 61289108--61289149 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
61289098 AAAAATGTTA
61289108 GAAATGACCAATTTGCAT
1 GAAATGACCAATTTGCAT
61289126 GAAATGACCAATTTGCAT
1 GAAATGACCAATTTGCAT
61289144 GAAATG
1 GAAATG
61289150 GATTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (18 bp):
GAAATGACCAATTTGCAT
Found at i:61296112 original size:46 final size:46
Alignment explanation
Indices: 61296059--61296234 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61296049 TATTTGGGCA
61296059 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
61296105 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
61296152 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
61296198 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61296235 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:61296214 original size:93 final size:93
Alignment explanation
Indices: 61296055--61296226 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61296045 GGGATATTTG
* *
61296055 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61296120 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
61296148 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61296213 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61296227 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61299170 original size:15 final size:15
Alignment explanation
Indices: 61299150--61299218 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
61299140 GTATCTTGGG
61299150 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
61299165 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
61299180 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
61299195 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
61299210 TTTCTTTAT
1 TTTCTTTAT
61299219 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:61299219 original size:30 final size:30
Alignment explanation
Indices: 61299141--61299228 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
61299131 CATAGTATCG
* * * *
61299141 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
61299171 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
61299201 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
61299229 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:61301665 original size:46 final size:46
Alignment explanation
Indices: 61301612--61301787 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61301602 TATTTGGGCA
61301612 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
61301658 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
61301705 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
61301751 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61301788 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:61301767 original size:93 final size:93
Alignment explanation
Indices: 61301608--61301779 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61301598 GGGATATTTG
* *
61301608 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61301673 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
61301701 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61301766 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61301780 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61303832 original size:6 final size:6
Alignment explanation
Indices: 61303823--61303850 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
61303813 GTTATTGTTA
61303823 TTATTC TTATTC TTATTC TTATTC TTAT
1 TTATTC TTATTC TTATTC TTATTC TTAT
61303851 ACTTGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATTC
Found at i:61304838 original size:27 final size:27
Alignment explanation
Indices: 61304800--61304888 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
61304790 AGACTTTGAC
61304800 TGGCGAACCCCAATCCACCAAACCAAT
1 TGGCGAACCCCAATCCACCAAACCAAT
* * * *
61304827 TGGCGAACCCCAGTTCACTAAACAAAT
1 TGGCGAACCCCAATCCACCAAACCAAT
* ** *
61304854 TGGCAAACCCCAA-CTTGCCAAACCAAC
1 TGGCGAACCCCAATC-CACCAAACCAAT
61304881 TGGCGAAC
1 TGGCGAAC
61304889 ATAACTTGCA
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.36, C:0.36, G:0.15, T:0.13
Consensus pattern (27 bp):
TGGCGAACCCCAATCCACCAAACCAAT
Found at i:61315378 original size:22 final size:22
Alignment explanation
Indices: 61315353--61315418 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
61315343 TGTCGTAATC
*
61315353 TTAGTTAATTAGATAATCAGTG
1 TTAGTTAATTAGATAATCAATG
* *
61315375 TTAG-T--TTA-A-AA-CATTC
1 TTAGTTAATTAGATAATCAATG
61315391 TTAGTTAATTAGATAATCAATG
1 TTAGTTAATTAGATAATCAATG
61315413 TTAGTT
1 TTAGTT
61315419 TAAAACATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 1 0.03
19 6 0.18
20 1 0.03
21 3 0.09
22 13 0.38
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (22 bp):
TTAGTTAATTAGATAATCAATG
Found at i:61315402 original size:38 final size:38
Alignment explanation
Indices: 61315351--61315429 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
61315341 TCTGTCGTAA
*
61315351 TCTTAGTTAATTAGATAATCAGTGTTAGTTTAAAACAT
1 TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
61315389 TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
1 TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
61315427 TCT
1 TCT
61315430 CTTAATTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (38 bp):
TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
Found at i:61319023 original size:49 final size:49
Alignment explanation
Indices: 61318961--61319089 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 49
61318951 ATCAAAGTCG
* * *
61318961 ATGCCATGTCCCAGACCGGTCTTACACTGACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAT-AAGTGCCA
* * * *
61319010 ATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATAAGTGTCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAAGTGCCA
61319059 ATGCCATGTCCCAGACAGGTCTTACACTGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC
61319090 ACAAAACAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
48 2 0.03
49 68 0.97
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAAGTGCCA
Found at i:61321480 original size:20 final size:20
Alignment explanation
Indices: 61321452--61321507 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
61321442 TGCCCATGGG
* *
61321452 TAGGTCACACGGGCATGTTC
1 TAGGCCACACGGGCATGTCC
*
61321472 TAGGCCACACGGGCGTGTCC
1 TAGGCCACACGGGCATGTCC
* *
61321492 CAAGCCACACGGGCAT
1 TAGGCCACACGGGCAT
61321508 CTGCCCCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.16
Consensus pattern (20 bp):
TAGGCCACACGGGCATGTCC
Found at i:61327945 original size:52 final size:51
Alignment explanation
Indices: 61327887--61328037 Score: 128
Period size: 52 Copynumber: 2.9 Consensus size: 51
61327877 GACGGAAAGG
61327887 ATGTGATATGTACTTCCATATAAGACCATAGCTGGACTATGGCATCAGTACA
1 ATGTGATATGTA-TTCCATATAAGACCATAGCTGGACTATGGCATCAGTACA
* * * * * ***
61327939 ATGTGAT-TCG-AGATCTCGTATAAGACCATAGTTGGGCTATGGCATCGGTGTG
1 ATGTGATAT-GTA-TTC-CATATAAGACCATAGCTGGACTATGGCATCAGTACA
* *
61327991 ATTTGATAATGTGATTCCATATAAGACCATATCTGGGA-TATGGCATC
1 ATGTGAT-ATGT-ATTCCATATAAGACCATAGCT-GGACTATGGCATC
61328038 GGTATGTTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
51 4 0.05
52 43 0.56
53 24 0.31
54 5 0.06
55 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (51 bp):
ATGTGATATGTATTCCATATAAGACCATAGCTGGACTATGGCATCAGTACA
Found at i:61328865 original size:20 final size:20
Alignment explanation
Indices: 61328839--61328911 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
61328829 ATGGGTAGGT
* *
61328839 CACACGGGCATGTTCCAAGC
1 CACACGGGCATGTCCCAGGC
* *
61328859 AACACGGGCGTGTCCCAGGC
1 CACACGGGCATGTCCCAGGC
61328879 CACACGGGCATGTCCCAGGC
1 CACACGGGCATGTCCCAGGC
61328899 CACACGGGCATGT
1 CACACGGGCATGT
61328912 GCCCCTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.22, C:0.36, G:0.30, T:0.12
Consensus pattern (20 bp):
CACACGGGCATGTCCCAGGC
Found at i:61329211 original size:46 final size:46
Alignment explanation
Indices: 61329143--61329254 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 46
61329133 GGTGTTACAT
* * *
61329143 CAGACATGTCTTACACTAGCTCTCGTCTCAT-T-GCCAATGCATGTCC
1 CAGACATGTCTTACACTAGCTCTC--ATAATGTCGCCAATGCATGCCC
* * *
61329189 TAGACATGTCTTACACTGGCTCTCATAATGTCGCCGATGCATGCCC
1 CAGACATGTCTTACACTAGCTCTCATAATGTCGCCAATGCATGCCC
61329235 CAGACATGTCTTACACTAGC
1 CAGACATGTCTTACACTAGC
61329255 GCACATATCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 3 0.05
45 1 0.02
46 52 0.93
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (46 bp):
CAGACATGTCTTACACTAGCTCTCATAATGTCGCCAATGCATGCCC
Found at i:61335904 original size:312 final size:311
Alignment explanation
Indices: 61335340--61335963 Score: 1176
Period size: 312 Copynumber: 2.0 Consensus size: 311
61335330 CTTGGGAAAC
61335340 TGATAATGCTCTAGAATAACGTATTTTTATGTATTAATCATGTGTTTATTCTAGGCTTGATCCTA
1 TGATAATGCTCTAGAATAACGTATTTTTATGTATTAATCATGTGTTTATTCTAGGCTTGATCCTA
*
61335405 CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTGGAGGCAAAAGCAAATTAAG
66 CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTGGAGGAAAAAGCAAATTAAG
* *
61335470 GGACAAAAGTGCGAATTTGGAGACACAATGGGCTGATATGCGACGCAGGAAAAAGATTGTGCCAA
131 GGACAAAAGTGCGAATTTAGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCAA
61335535 AAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGACT
196 AAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGACT
61335600 CCATTTTATTAGGATAATTAATATTAAGATAATTATTAGGATTATTTAATT
261 CCATTTTATTAGGATAATTAATATTAAGATAATTATTAGGATTATTTAATT
* *
61335651 TGATAATGCTCTAGAATAACGTATTTTTATGTATTAATCATGTGTTTATTTTGGGCTTGATCCTA
1 TGATAATGCTCTAGAATAACGTATTTTTATGTATTAATCATGTGTTTATTCTAGGCTTGATCCTA
61335716 CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTGGAGGAAAAAGCAAAATTAA
66 CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTGGAGGAAAAAGC-AAATTAA
61335781 GGGACAAAAGTGCGAATTTAGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCA
130 GGGACAAAAGTGCGAATTTAGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCA
* *
61335846 AAAGTGCAAGCATGGAAGACACAAGGATTAAAAACGCAAAAAGAATAGATTTTATTTTATAAGAC
195 AAAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGAC
61335911 TCCATTTTATTAGGATAATTAATATTAAGATAATTATTAGGATTATTTAATT
260 TCCATTTTATTAGGATAATTAATATTAAGATAATTATTAGGATTATTTAATT
61335963 T
1 T
61335964 TAGGATTTTA
Statistics
Matches: 305, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
311 119 0.39
312 186 0.61
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (311 bp):
TGATAATGCTCTAGAATAACGTATTTTTATGTATTAATCATGTGTTTATTCTAGGCTTGATCCTA
CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTGGAGGAAAAAGCAAATTAAG
GGACAAAAGTGCGAATTTAGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCAA
AAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGACT
CCATTTTATTAGGATAATTAATATTAAGATAATTATTAGGATTATTTAATT
Found at i:61335974 original size:27 final size:26
Alignment explanation
Indices: 61335914--61335975 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
61335904 ATAAGACTCC
61335914 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
61335940 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
61335968 ATTTTATT
1 ATTTTATT
61335976 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:61341571 original size:14 final size:13
Alignment explanation
Indices: 61341546--61341579 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
61341536 CTGGAATATC
61341546 AAAACAATAATTA
1 AAAACAATAATTA
61341559 AAAACACATAATTA
1 AAAACA-ATAATTA
*
61341573 AGAACAA
1 AAAACAA
61341580 GTCAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACAATAATTA
Found at i:61348447 original size:28 final size:28
Alignment explanation
Indices: 61348342--61348453 Score: 120
Period size: 28 Copynumber: 4.0 Consensus size: 28
61348332 ACCTATATAT
*
61348342 ATATGGCCCACTAGGCCCAATCTA-TTTC
1 ATATGGCCCACTAGGCCCAATC-ACATTC
* * *
61348370 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
61348398 ATGTGGCCCATTAGGCCCAAATCACATCC
1 ATATGGCCCACTAGGCCC-AATCACATTC
61348427 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
61348454 TACAGTCATA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
27 1 0.01
28 58 0.82
29 12 0.17
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:61348689 original size:16 final size:16
Alignment explanation
Indices: 61348668--61348702 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
61348658 TTAGCCAAAC
*
61348668 TTTCAGCTTTTCGGTA
1 TTTCAGCTTTTCGGGA
61348684 TTTCAGCTTTTCGGGA
1 TTTCAGCTTTTCGGGA
61348700 TTT
1 TTT
61348703 GCCGATCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGGA
Found at i:61355007 original size:40 final size:40
Alignment explanation
Indices: 61354951--61355168 Score: 197
Period size: 40 Copynumber: 5.5 Consensus size: 40
61354941 CATGAGCATT
* * *
61354951 TGAATAATACCCGGGCTAAGTCCTGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* *
61354992 TGAATATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* ** *
61355032 TGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* * *
61355072 TTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 -TGAATATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* ** * ** * * *
61355112 TTACCAAATCCGGATTAAGACCCGAAGGCAATTGTGCTTG
1 TGAATATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
**
61355152 TGGTTATATCC-GGCTAA
1 TGAATATATCCGGGCTAA
61355169 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
39 5 0.03
40 138 0.92
41 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
Found at i:61363094 original size:39 final size:39
Alignment explanation
Indices: 61363048--61363253 Score: 220
Period size: 39 Copynumber: 5.2 Consensus size: 39
61363038 TGAATGATAC
* *
61363048 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATATAT
* *
61363087 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TATAT
* *
61363127 CC-GGCTAAGACCCGAAGGCATTCGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATATAT
* * * *
61363166 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TATAT
* * * *
61363206 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GATATAT
61363246 CC-GGCTAA
1 CCGGGCTAA
61363254 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 70 0.50
40 70 0.50
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATATAT
Found at i:61363252 original size:79 final size:79
Alignment explanation
Indices: 61363048--61363253 Score: 231
Period size: 79 Copynumber: 2.6 Consensus size: 79
61363038 TGAATGATAC
* * * * *
61363048 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATATATCCGGGCTAAGTCCCGAAGGCATTTAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCATTTAT
* ** *
61363113 GCTAGTGATTATAT
66 GCAAGTGACCAAAT
61363127 CC-GGCTAAGACCCGAAGGC-ATTCGTG-TGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCT-AG-TGTTATATCCGGGCTAAGACCCGAAGGCATT
* *
61363189 TGTGCAAGTTACCAAAT
63 TATGCAAGTGACCAAAT
* *
61363206 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GTTATATCCGGGCTAA
61363254 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
77 3 0.03
78 20 0.19
79 51 0.48
80 29 0.27
81 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCAAGTGACCAAAT
Found at i:61369660 original size:28 final size:28
Alignment explanation
Indices: 61369623--61369707 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
61369613 CTTAATCTCT
*
61369623 TTCATATGGCCCATTAGGCCCATTCACA
1 TTCATATGGCCCATTAGGCCCAATCACA
* *
61369651 TTTATGTGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCC-AATCACA
*
61369680 TTCATATGG-CCACTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCC-AATCACA
61369708 ATTACAGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 37 0.74
29 13 0.26
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
TTCATATGGCCCATTAGGCCCAATCACA
Found at i:61369815 original size:19 final size:18
Alignment explanation
Indices: 61369782--61369818 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
61369772 TGGGCCCAAC
61369782 AGCCCATCGAGCCCATTT
1 AGCCCATCGAGCCCATTT
*
61369800 AGCCCATTCTAGCCCATTT
1 AGCCCA-TCGAGCCCATTT
61369819 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.27
Consensus pattern (18 bp):
AGCCCATCGAGCCCATTT
Found at i:61369827 original size:19 final size:19
Alignment explanation
Indices: 61369791--61369827 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61369781 CAGCCCATCG
*
61369791 AGCCCATTTAGCCCATTCT
1 AGCCCATTTAGCCAATTCT
*
61369810 AGCCCATTTGGCCAATTC
1 AGCCCATTTAGCCAATTC
61369828 ACAACCCAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (19 bp):
AGCCCATTTAGCCAATTCT
Found at i:61372995 original size:46 final size:46
Alignment explanation
Indices: 61372820--61372995 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
61372810 TGTAACCCGC
* *
61372820 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
61372866 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
61372916 --TTCA-CGAGCTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
61372959 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
61372996 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:61374975 original size:35 final size:34
Alignment explanation
Indices: 61374894--61375165 Score: 206
Period size: 35 Copynumber: 7.7 Consensus size: 34
61374884 AAGTCGGTCC
*
61374894 TCTTTCAAATAACATCTCACCACAACACCAA-ACTT
1 TCTTTCAATTAACATC-CACCACAACACCAATAC-T
* *
61374929 CTCTTTCAATTAACAGTCCACCACGACATCAATACT
1 -TCTTTCAATTAACA-TCCACCACAACACCAATACT
* * *
61374965 TCTTTCAATTAACATCCCACTACAACATCGATACT
1 TCTTTCAATTAACAT-CCACCACAACACCAATACT
* * * * *
61375000 TCATTCATTTAACATCTCACCATAAAACTAATACT
1 TCTTTCAATTAACATC-CACCACAACACCAATACT
* * * * * * *
61375035 TCTTTTAATGAGCTTCTCGCCACAACATCGATACT
1 TCTTTCAATTAACATC-CACCACAACACCAATACT
* * *
61375070 TCATTCATTTAACATCC-CGCAACAACACCGATACT
1 TCTTTCAATTAACATCCAC-C-ACAACACCAATACT
* * *
61375105 TCTTCCAATTTAACGTCCCACCACAACACCAATAAT
1 TCTTTCAA-TTAACAT-CCACCACAACACCAATACT
61375141 TCTTTCAATTAACATCCCACCACAA
1 TCTTTCAATTAACAT-CCACCACAA
61375166 ATTTGATACT
Statistics
Matches: 186, Mismatches: 41, Indels: 19
0.76 0.17 0.08
Matches are distributed among these distances:
33 1 0.01
34 4 0.02
35 122 0.66
36 51 0.27
37 7 0.04
38 1 0.01
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.29
Consensus pattern (34 bp):
TCTTTCAATTAACATCCACCACAACACCAATACT
Found at i:61377805 original size:43 final size:43
Alignment explanation
Indices: 61377726--61377807 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
61377716 AACACCATGC
* * ** *
61377726 CTGGGACATTGGCATCGTTATATGATTTTGTATAAGACCCTGT
1 CTGGGACAGTGGCATCGATATATGATAATATATAAGACCCTGT
* *
61377769 CTGGGACAGTGGCATCGATATGTGATAATATGTAAGACC
1 CTGGGACAGTGGCATCGATATATGATAATATATAAGACC
61377808 ATATCCGGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
CTGGGACAGTGGCATCGATATATGATAATATATAAGACCCTGT
Found at i:61383536 original size:3 final size:3
Alignment explanation
Indices: 61383528--61383552 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61383518 CAACACTAAT
61383528 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
61383553 TGAATTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:61383596 original size:16 final size:17
Alignment explanation
Indices: 61383565--61383597 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
61383555 AATTTCTATC
61383565 CAATTTATACCCTAATT
1 CAATTTATACCCTAATT
*
61383582 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
61383598 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
CAATTTATACCCTAATT
Found at i:61384272 original size:15 final size:15
Alignment explanation
Indices: 61384243--61384291 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
61384233 CATAATATGA
61384243 TATTT-ATAATAAAT
1 TATTTAATAATAAAT
61384257 TAATTTAATAAT-AAT
1 T-ATTTAATAATAAAT
61384272 TA-TT-ATAATAAAT
1 TATTTAATAATAAAT
61384285 ATATTTA
1 -TATTTA
61384292 GCTTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 4 0.14
15 10 0.34
16 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTTAATAATAAAT
Found at i:61384543 original size:5 final size:5
Alignment explanation
Indices: 61384535--61384584 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
61384525 TATTTATTTC
* * *
61384535 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -TATT ATAAT TTAAC ATAAT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
61384585 TAAATTTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:61384560 original size:16 final size:16
Alignment explanation
Indices: 61384535--61384586 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
61384525 TATTTATTTC
61384535 ATAA-TATAATATAAT
1 ATAATTATAATATAAT
61384550 ATAATTATAATATAAT
1 ATAATTATAATATAAT
* *
61384566 -T-ATTATAATTTAAC
1 ATAATTATAATATAAT
61384580 ATAATTA
1 ATAATTA
61384587 AATTTATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 11 0.34
15 6 0.19
16 15 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATAATATAAT
Found at i:61385178 original size:22 final size:22
Alignment explanation
Indices: 61385153--61385196 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61385143 TAGTCATATA
61385153 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
61385175 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
61385197 GATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:61385232 original size:13 final size:13
Alignment explanation
Indices: 61385215--61385258 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
61385205 ATTTCAATTT
61385215 TATTTTAATAATAA
1 TATTTTAA-AATAA
61385229 -ATTTTAAAAATAA
1 TATTTT-AAAATAA
*
61385242 TAATTTAAAATAA
1 TATTTTAAAATAA
61385255 TATT
1 TATT
61385259 ATTCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:61385538 original size:32 final size:32
Alignment explanation
Indices: 61385502--61385567 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
61385492 TTTGTCAATT
61385502 TTGTTGATGTCACATTTTTAAATAAAAAATAC
1 TTGTTGATGTCACATTTTTAAATAAAAAATAC
61385534 TTGTTGATGTCACATTTTTAAATAAAAAATAC
1 TTGTTGATGTCACATTTTTAAATAAAAAATAC
61385566 TT
1 TT
61385568 ACTTAGTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (32 bp):
TTGTTGATGTCACATTTTTAAATAAAAAATAC
Found at i:61385858 original size:14 final size:14
Alignment explanation
Indices: 61385839--61385876 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
61385829 CTAAAAAAAT
61385839 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
61385853 AAATTATTTTTCTA
1 AAATTATTTTTCAA
61385867 AAATTATTTT
1 AAATTATTTT
61385877 CAGTGAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:61389781 original size:8 final size:8
Alignment explanation
Indices: 61389768--61389796 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
61389758 GATGCATGAA
61389768 TTTTTTAT
1 TTTTTTAT
61389776 TTTTTTA-
1 TTTTTTAT
61389783 TTTTTTAT
1 TTTTTTAT
61389791 TTTTTT
1 TTTTTT
61389797 GAGAAATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:61389787 original size:15 final size:15
Alignment explanation
Indices: 61389767--61389796 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61389757 TGATGCATGA
61389767 ATTTTTTATTTTTTT
1 ATTTTTTATTTTTTT
61389782 ATTTTTTATTTTTTT
1 ATTTTTTATTTTTTT
61389797 GAGAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
ATTTTTTATTTTTTT
Found at i:61391452 original size:27 final size:27
Alignment explanation
Indices: 61391411--61391485 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
61391401 TTTCTTTCCT
*
61391411 TAGATCGCCAC-AAGGCTTCCATTTCA
1 TAGATTGCCACAAAGGCTTCCATTTCA
**
61391437 TAGATTGCCACAAAGGCTAACATTTCA
1 TAGATTGCCACAAAGGCTTCCATTTCA
* *
61391464 TAGATTTCCATAAAGGCTTCCA
1 TAGATTGCCACAAAGGCTTCCA
61391486 CTTTATGGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 10 0.24
27 31 0.76
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (27 bp):
TAGATTGCCACAAAGGCTTCCATTTCA
Found at i:61392458 original size:2 final size:2
Alignment explanation
Indices: 61392451--61392480 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
61392441 ACAAGTACAA
61392451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61392481 GACACTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61392961 original size:22 final size:22
Alignment explanation
Indices: 61392921--61392962 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
61392911 TATACCACTC
*
61392921 TCGTGTTCCTTATCTCATTCTT
1 TCGTGTTCCTTAACTCATTCTT
61392943 TCGTGATTCCTTAAC-CATTC
1 TCGTG-TTCCTTAACTCATTC
61392963 CCATAGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.29, G:0.10, T:0.48
Consensus pattern (22 bp):
TCGTGTTCCTTAACTCATTCTT
Found at i:61393365 original size:28 final size:28
Alignment explanation
Indices: 61393293--61393387 Score: 120
Period size: 28 Copynumber: 3.3 Consensus size: 28
61393283 TCCAGAGGTT
*
61393293 GCCACAAAGGC-ATCCTTTTCATTGAGTACTC
1 GCCACAAAGGCTTTCC-TTTCA--GAGT-CTC
*
61393324 ACCACAAAGGCTTTCCTTTCAGAGTCTC
1 GCCACAAAGGCTTTCCTTTCAGAGTCTC
*
61393352 GCCACAAAGGCTTTCATTTCAGAGTCTC
1 GCCACAAAGGCTTTCCTTTCAGAGTCTC
61393380 GCCACAAA
1 GCCACAAA
61393388 TGCATCCTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
28 37 0.63
29 4 0.07
31 15 0.25
32 3 0.05
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
GCCACAAAGGCTTTCCTTTCAGAGTCTC
Found at i:61393522 original size:57 final size:57
Alignment explanation
Indices: 61393357--61393534 Score: 180
Period size: 58 Copynumber: 3.1 Consensus size: 57
61393347 GTCTCGCCAC
* * * * * * * *
61393357 AAAGGCTTTCATTTC-AGAGTCTCGCCACAAATGC-ATCCTTTAAGAGGTTTACCAA
1 AAAGGCTTACATTTCTAGAGTTTTGCCATAAAGGCTGTCCTTTAACAGGTTCACCAA
* * * * * * *
61393412 AAAGGCTTACCTTTCTAGCGTTTTTCCGTAAAAGGATGTCCTTTAACAGGTTCACGAT
1 AAAGGCTTACATTTCTAGAGTTTTGCCAT-AAAGGCTGTCCTTTAACAGGTTCACCAA
* *
61393470 AAAGGCTTACATTTCTAGAGTTTTGCCATAAAGGCTGTCCTTTAATAGGTTCACCAC
1 AAAGGCTTACATTTCTAGAGTTTTGCCATAAAGGCTGTCCTTTAACAGGTTCACCAA
61393527 AAAGGCTT
1 AAAGGCTT
61393535 TTCTTTTCCT
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
55 13 0.13
56 7 0.07
57 36 0.37
58 41 0.42
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (57 bp):
AAAGGCTTACATTTCTAGAGTTTTGCCATAAAGGCTGTCCTTTAACAGGTTCACCAA
Found at i:61407305 original size:40 final size:40
Alignment explanation
Indices: 61407260--61407426 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
61407250 CGGAATATAA
61407260 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
61407300 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
61407340 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61407380 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61407419 CCGGATAT
1 CCGGATAT
61407427 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61415344 original size:40 final size:40
Alignment explanation
Indices: 61415299--61415466 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
61415289 CGGAATATAA
61415299 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
61415339 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
61415379 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
61415419 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61415459 CCGGATAT
1 CCGGATAT
61415467 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61417535 original size:43 final size:43
Alignment explanation
Indices: 61417487--61417656 Score: 209
Period size: 43 Copynumber: 4.0 Consensus size: 43
61417477 GTTACAGAGA
* *
61417487 TGTGATTACACGTAAGACCATGTCTGGGACATTGGAATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
61417530 TGTGATTACATGTAAAACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
61417573 TGTGATTACGTGTAAGACCCTGTCTGGCACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
61417615 ATGTGATTACATGTAAGACCATATCTAGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
61417657 CGAGCTTATG
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 9 0.08
43 98 0.92
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:61419937 original size:44 final size:42
Alignment explanation
Indices: 61419789--61419937 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
61419779 CAATACCAAC
61419789 GTCCCAAACGTGGTCTTACATGT-AATCAAATATCGATGCCACT
1 GTCCCAAACGTGGTCTTACATGTAAATC-AA-ATCGATGCCACT
*
61419832 GTCCCAGATA-G-GGTCTTACATG-AAATCAAATACGATGCCAAT
1 GTCCCA-A-ACGTGGTCTTACATGTAAATCAAAT-CGATGCCACT
* *
61419874 G-CCTCAAACATGGTTTTACATGTAAATCATAAGTCGATGCCACT
1 GTCC-CAAACGTGGTCTTACATGTAAATCA-AA-TCGATGCCACT
*
61419918 GTCCCAGACGTGGTCTTACA
1 GTCCCAAACGTGGTCTTACA
61419938 CAAAATCCCA
Statistics
Matches: 88, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
40 1 0.01
41 5 0.06
42 24 0.27
43 27 0.31
44 27 0.31
45 4 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAAACGTGGTCTTACATGTAAATCAAATCGATGCCACT
Found at i:61427505 original size:42 final size:43
Alignment explanation
Indices: 61427397--61427506 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
61427387 AACTGGTACA
* ** * * * *
61427397 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATTAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
61427440 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
61427482 ATGCTAATGTCCCAGTCATGGTCTT
1 ATGCCAATGTCCCAGACATGGTCTT
61427507 TGTAACACCT
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 22 0.41
43 32 0.59
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:61427712 original size:30 final size:31
Alignment explanation
Indices: 61427688--61427746 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
61427678 GTAAATACTC
* * *
61427688 AAAATTTGAGGGATTAAT-GTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
61427718 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
61427747 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:61428005 original size:29 final size:31
Alignment explanation
Indices: 61427957--61428020 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
61427947 TTTATAATTA
*
61427957 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
61427988 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
61428017 TTTA
1 TTTA
61428021 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:61428009 original size:8 final size:8
Alignment explanation
Indices: 61427998--61428022 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
61427988 TTTAATAAGA
61427998 TATTTTAT
1 TATTTTAT
61428006 TATTTTAT
1 TATTTTAT
61428014 TATTTTAT
1 TATTTTAT
61428022 T
1 T
61428023 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:61434425 original size:49 final size:49
Alignment explanation
Indices: 61434259--61434483 Score: 299
Period size: 49 Copynumber: 4.5 Consensus size: 49
61434249 TGAGGTCGCA
* * * *
61434259 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-T-TGGTCACG
* * **
61434310 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
61434360 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
61434409 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
61434458 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
61434484 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
49 79 0.50
50 46 0.29
51 32 0.20
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:61434434 original size:99 final size:100
Alignment explanation
Indices: 61434252--61434490 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
61434242 TCTATTGTGA
* *
61434252 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTGTGATCACGTGTGTAG
* **
61434317 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
61434352 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-T-TGGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTC-GAAAACTGTGATCACGTGTGT
*
61434414 AGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
61434451 GGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC
61434491 CAGATAGCTT
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 34 0.28
99 45 0.37
100 2 0.02
101 40 0.33
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:61437505 original size:15 final size:15
Alignment explanation
Indices: 61437481--61437542 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
61437471 TAGTATCGTA
*
61437481 TCTGGGTTTCTTTAT
1 TCTGGATTTCTTTAT
61437496 TCTGGATTTCTTTAT
1 TCTGGATTTCTTTAT
*
61437511 TCTGGGTTT-TTCTA-
1 TCTGGATTTCTT-TAT
61437525 TCTTGGATTTCTTTAT
1 TC-TGGATTTCTTTAT
61437541 TC
1 TC
61437543 GATTTTCTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.10
15 32 0.80
16 4 0.10
ACGTcount: A:0.10, C:0.15, G:0.16, T:0.60
Consensus pattern (15 bp):
TCTGGATTTCTTTAT
Found at i:61437515 original size:30 final size:30
Alignment explanation
Indices: 61437481--61437542 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
61437471 TAGTATCGTA
61437481 TCTGGGTTTCTT-TAT-TCTGGATTTCTTTAT
1 TCTGGGTTT-TTCTATCT-TGGATTTCTTTAT
61437511 TCTGGGTTTTTCTATCTTGGATTTCTTTAT
1 TCTGGGTTTTTCTATCTTGGATTTCTTTAT
61437541 TC
1 TC
61437543 GATTTTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 2 0.07
30 27 0.90
31 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.16, T:0.60
Consensus pattern (30 bp):
TCTGGGTTTTTCTATCTTGGATTTCTTTAT
Found at i:61439858 original size:99 final size:101
Alignment explanation
Indices: 61439671--61439858 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 101
61439661 TGAGGTCGCA
* * *
61439671 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGCACTAAG
* *
61439736 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
66 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCATG
* ** * * * *
61439772 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-T-TGGTCGCATGTGTAGCACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGCACTAAG
*
61439835 TGCAGGCTACTATGCGTACCAGAT
66 TGCAGGCTACTACGCGTACCAGAT
61439859 AGCTTTGGCT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 38 0.51
100 1 0.01
101 35 0.47
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGCACTAAG
TGCAGGCTACTACGCGTACCAGATGGTTAGGTCATG
Found at i:61443137 original size:24 final size:24
Alignment explanation
Indices: 61443073--61443225 Score: 98
Period size: 24 Copynumber: 6.3 Consensus size: 24
61443063 GGTAGCTCAT
*
61443073 AAGAGCCATAATCGGGAAGTTCACA
1 AAGAACCAT-ATCGGGAAGTTCACA
* *
61443098 AAGAACCTTGTCGGGAAGTTCACA
1 AAGAACCATATCGGGAAGTTCACA
* *
61443122 AAGAACCATATTGGGAAGCTTCAGA
1 AAGAACCATATCGGGAAG-TTCACA
* *
61443147 TAG--CCAATATCAGGAAGTTCA-A
1 AAGAACC-ATATCGGGAAGTTCACA
** * *
61443169 GCG-AGCACTATCGGGAAGCTCACA
1 AAGAACCA-TATCGGGAAGTTCACA
* * *
61443193 AAGAGCCAATTAACGAGAAGTTCACA
1 AAGAACC-A-TATCGGGAAGTTCACA
61443219 AAGAACC
1 AAGAACC
61443226 TTTAATCGGG
Statistics
Matches: 97, Mismatches: 24, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
22 3 0.03
23 19 0.20
24 40 0.41
25 15 0.15
26 20 0.21
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
AAGAACCATATCGGGAAGTTCACA
Found at i:61445323 original size:40 final size:40
Alignment explanation
Indices: 61445268--61445425 Score: 291
Period size: 40 Copynumber: 4.0 Consensus size: 40
61445258 GTGCATTCAA
*
61445268 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGG
1 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
61445308 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
1 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
61445348 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
1 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
61445388 GGTACC-AAGGTACAAACAGGGGCACGTATGTGCAATCA
1 GGTACCGAA-GTACAAACAGGGGCACGTATGTGCAATCA
61445426 TACAATAATT
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
39 2 0.02
40 114 0.98
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.16
Consensus pattern (40 bp):
GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
Found at i:61445327 original size:20 final size:20
Alignment explanation
Indices: 61445268--61445409 Score: 103
Period size: 20 Copynumber: 7.1 Consensus size: 20
61445258 GTGCATTCAA
*
61445268 GGTACCGAAGTACAAATAGG
1 GGTACCGAAGTACAAACAGG
* * * *
61445288 GGCA-CGTATGTGCAATCAGG
1 GGTACCG-AAGTACAAACAGG
61445308 GGTACCGAAGTACAAACAGG
1 GGTACCGAAGTACAAACAGG
* * * *
61445328 GGCA-CGTATGTGCAATCAGG
1 GGTACCG-AAGTACAAACAGG
61445348 GGTACCGAAGTACAAACAGG
1 GGTACCGAAGTACAAACAGG
* * * *
61445368 GGCA-CGTATGTGCAATCAGG
1 GGTACCG-AAGTACAAACAGG
61445388 GGTACC-AAGGTACAAACAGG
1 GGTACCGAA-GTACAAACAGG
61445408 GG
1 GG
61445410 CACGTATGTG
Statistics
Matches: 90, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
19 7 0.08
20 78 0.87
21 5 0.06
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (20 bp):
GGTACCGAAGTACAAACAGG
Found at i:61455282 original size:12 final size:12
Alignment explanation
Indices: 61455265--61455289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61455255 TTTTATGCTT
61455265 AAATATTTTTGA
1 AAATATTTTTGA
61455277 AAATATTTTTGA
1 AAATATTTTTGA
61455289 A
1 A
61455290 GGATTATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AAATATTTTTGA
Found at i:61456044 original size:92 final size:91
Alignment explanation
Indices: 61455888--61456092 Score: 286
Period size: 92 Copynumber: 2.2 Consensus size: 91
61455878 CACAAGCCAT
**
61455888 CATTTAGAACAAATAAATTTAAGCCTTTCCTTTAGAAAATACACTATGTTACTATTATTTTTCTA
1 CATTTAGAACAAATAAATTTAAGCCTTTCCTTTAGAAAATACACTATGTTACTATTAGATTTCTA
* ** *
61455953 TTCAAATATTTTTTATTCTTATTAAA
66 TTAAAATATTTTCCATTCCTATTAAA
* * * * *
61455979 CATTTAAAATAAATAAGTTTAAGCCTTTTCTTTTAGAAAATACTCTAAT-TTACTATTAGATTTC
1 CATTTAGAACAAATAAATTTAAGCC-TTTCCTTTAGAAAATACACT-ATGTTACTATTAGATTTC
61456043 TATTAAAATATTTTCCATTCCTATTAAA
64 TATTAAAATATTTTCCATTCCTATTAAA
61456071 CATTTAGAACAAATAAATTTAA
1 CATTTAGAACAAATAAATTTAA
61456093 ATTTTAAACA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 22 0.22
92 74 0.76
93 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (91 bp):
CATTTAGAACAAATAAATTTAAGCCTTTCCTTTAGAAAATACACTATGTTACTATTAGATTTCTA
TTAAAATATTTTCCATTCCTATTAAA
Found at i:61459821 original size:21 final size:20
Alignment explanation
Indices: 61459795--61459851 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
61459785 AAAAATAATG
61459795 GTAGTGGTGAGATTAATTACT
1 GTAGTGGTGAGATTAA-TACT
61459816 GTAGTGGTGAGATTGAATACT
1 GTAGTGGTGAGATT-AATACT
* *
61459837 ATAGCGGTGAGATTA
1 GTAGTGGTGAGATTA
61459852 GAAATAGCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.91
22 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33
Consensus pattern (20 bp):
GTAGTGGTGAGATTAATACT
Found at i:61460094 original size:104 final size:99
Alignment explanation
Indices: 61459964--61460189 Score: 251
Period size: 100 Copynumber: 2.2 Consensus size: 99
61459954 AAAATAAATA
* * * *
61459964 ATTAAATTTATATTAATATTAAATAATATAACATAAAATAAAATTTTATTTTTTATAAAATGATA
1 ATTAAA-TTATATTAATAATAAATAATAAAACAT--AATAAAA--TTATTTTATATAAAATAATA
61460029 ATTAAAA-TATTATAATCATATG-CAATAAAATTTAAATATTT
61 ATTAAAATTA-TAT-AT-ATATGACAAT-AAATTTAAATATTT
* * *
61460070 -TTAAATTATATTAATAATAAATAATAAAACATATTTAAATTATTTTATATTAAATAATAATTAA
1 ATTAAATTATATTAATAATAAATAATAAAACATAATAAAATTATTTTATATAAAATAATAATTAA
* *
61460134 AATTATATATTTATGACAATAAATTTATATATTT
66 AATTATATATATATGACAATAAATTTAAATATTT
61460168 ATTAAATTATTATATAATAATA
1 ATTAAATTA-TAT-TAATAATA
61460190 TCTAATAATA
Statistics
Matches: 106, Mismatches: 9, Indels: 15
0.82 0.07 0.12
Matches are distributed among these distances:
98 17 0.16
99 14 0.13
100 30 0.28
101 10 0.09
102 5 0.05
104 25 0.24
105 5 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (99 bp):
ATTAAATTATATTAATAATAAATAATAAAACATAATAAAATTATTTTATATAAAATAATAATTAA
AATTATATATATATGACAATAAATTTAAATATTT
Found at i:61460159 original size:98 final size:103
Alignment explanation
Indices: 61459964--61460189 Score: 259
Period size: 104 Copynumber: 2.2 Consensus size: 103
61459954 AAAATAAATA
* * * *
61459964 ATTAAATTTATATTAATATTAAATAATATAACATAAAATAAAATTTTATTTTTTATAAAATGATA
1 ATTAAA-TTATATTAATAATAAATAATAAAACAT-AAATAAAA-TTTATTTTATATAAAATAATA
61460029 ATTAAAATATTATAATCATATGCAATAAAATTTAAATATTT
63 ATTAAAATATTATAATCATATGCAATAAAATTTAAATATTT
* * *
61460070 -TTAAATTATATTAATAATAAATAATAAAACAT-ATTTAAA-TTATTTTATATTAAATAATAATT
1 ATTAAATTATATTAATAATAAATAATAAAACATAAATAAAATTTATTTTATATAAAATAATAATT
* *
61460132 -AAA-ATTATATAT-TTATGACAAT-AAATTTATATATTT
66 AAAATATTATA-ATCATATG-CAATAAAATTTAAATATTT
61460168 ATTAAATTATTATATAATAATA
1 ATTAAATTA-TAT-TAATAATA
61460190 TCTAATAATA
Statistics
Matches: 106, Mismatches: 9, Indels: 15
0.82 0.07 0.12
Matches are distributed among these distances:
98 23 0.22
99 17 0.16
100 23 0.22
101 8 0.08
102 5 0.05
104 25 0.24
105 5 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (103 bp):
ATTAAATTATATTAATAATAAATAATAAAACATAAATAAAATTTATTTTATATAAAATAATAATT
AAAATATTATAATCATATGCAATAAAATTTAAATATTT
Found at i:61472502 original size:27 final size:26
Alignment explanation
Indices: 61472458--61472515 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
61472448 AATATTAAAT
* *
61472458 TATTTATATAATTTTATTATATATTA
1 TATTTTTAAAATTTTATTATATATTA
* *
61472484 TATTTTTAAAATTTATATTTTCTATTA
1 TATTTTTAAAATTT-TATTATATATTA
61472511 T-TTTT
1 TATTTT
61472516 AATGGTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTTTTAAAATTTTATTATATATTA
Found at i:61475448 original size:47 final size:48
Alignment explanation
Indices: 61475395--61475502 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 48
61475385 GCCAGACAGT
* * *
61475395 ATACGCCAAAAAGGT-TATAAGAGTACTCCACAAAGGAAACCTACCGA
1 ATACGCCACAAAGGTCTATAAGAGTACTCCAAAAAGGAAACATACCGA
* * * *
61475442 ATACGCCACAAA-GTCTATCAGAGTACTCTAAAAAGGCAACATACTGA
1 ATACGCCACAAAGGTCTATAAGAGTACTCCAAAAAGGAAACATACCGA
*
61475489 ATACACCACAAAGG
1 ATACGCCACAAAGG
61475503 CCCAATAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 2 0.04
47 48 0.94
48 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (48 bp):
ATACGCCACAAAGGTCTATAAGAGTACTCCAAAAAGGAAACATACCGA
Found at i:61476809 original size:20 final size:20
Alignment explanation
Indices: 61476784--61476825 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
61476774 CATCAAGAAC
61476784 TAAATCCTGGTATACATCCA
1 TAAATCCTGGTATACATCCA
*
61476804 TAAATCTTGGTATACATCCA
1 TAAATCCTGGTATACATCCA
61476824 TA
1 TA
61476826 GGCGAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
TAAATCCTGGTATACATCCA
Found at i:61478707 original size:18 final size:18
Alignment explanation
Indices: 61478684--61478763 Score: 124
Period size: 18 Copynumber: 4.4 Consensus size: 18
61478674 GTGTGTTGAA
*
61478684 CCGTGTGGTCACACATGC
1 CCGTGTGGTCACACACGC
*
61478702 CCGTGTAGTCACACACGC
1 CCGTGTGGTCACACACGC
*
61478720 CCGTGTGGTCACACATGC
1 CCGTGTGGTCACACACGC
*
61478738 CCGTGTGGTCACACACGT
1 CCGTGTGGTCACACACGC
61478756 CCGTGTGG
1 CCGTGTGG
61478764 CTTGGGATAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (18 bp):
CCGTGTGGTCACACACGC
Found at i:61478724 original size:36 final size:36
Alignment explanation
Indices: 61478684--61478763 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
61478674 GTGTGTTGAA
61478684 CCGTGTGGTCACACATGCCCGTGTAGTCACACACGC
1 CCGTGTGGTCACACATGCCCGTGTAGTCACACACGC
* *
61478720 CCGTGTGGTCACACATGCCCGTGTGGTCACACACGT
1 CCGTGTGGTCACACATGCCCGTGTAGTCACACACGC
61478756 CCGTGTGG
1 CCGTGTGG
61478764 CTTGGGATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (36 bp):
CCGTGTGGTCACACATGCCCGTGTAGTCACACACGC
Found at i:61480668 original size:50 final size:51
Alignment explanation
Indices: 61480604--61480737 Score: 191
Period size: 52 Copynumber: 2.6 Consensus size: 51
61480594 ATAGGGTATG
*
61480604 CATAGTAGCCTACACTTAGTACTACACATGTGACCT-AACCA-TCTAGTACA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAAACCATTCTA-AACA
* *
61480654 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCT-AAACCATTCTAAACA
* *
61480706 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTACACTTAGTACTACACATGTG
61480738 TTCTCACAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 35 0.47
52 37 0.49
53 3 0.04
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTACACTTAGTACTACACATGTGACCTAAACCATTCTAAACA
Found at i:61480726 original size:52 final size:50
Alignment explanation
Indices: 61480604--61480733 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
61480594 ATAGGGTATG
* *
61480604 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTAGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAGAACA
*
61480654 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCATTTTA-AACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCT--AACCA-TCTAGAACA
* *
61480706 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTACACTTAGTACTACACA
61480734 TGTGTTCTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 35 0.49
52 34 0.47
53 3 0.04
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAGAACA
Found at i:61488632 original size:5 final size:5
Alignment explanation
Indices: 61488530--61488628 Score: 153
Period size: 5 Copynumber: 19.8 Consensus size: 5
61488520 TTCATATTCA
61488530 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC
1 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC
* * * * *
61488580 AGCAC AGCAC AACAC AACAC AACAC AACAC AACAT AACAT AACAT AACA
1 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACA
61488629 TAACCATAGA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 91 1.00
ACGTcount: A:0.59, C:0.36, G:0.02, T:0.03
Consensus pattern (5 bp):
AACAC
Found at i:61489720 original size:7 final size:7
Alignment explanation
Indices: 61489708--61489732 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61489698 TGTAAATGAG
61489708 TATTAAA
1 TATTAAA
61489715 TATTAAA
1 TATTAAA
61489722 TATTAAA
1 TATTAAA
61489729 TATT
1 TATT
61489733 GTATTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TATTAAA
Found at i:61490331 original size:13 final size:13
Alignment explanation
Indices: 61490304--61490337 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
61490294 AGTAAAATAA
*
61490304 AAATTGTTAATTTT
1 AAATT-TTAAATTT
61490318 AAATTTTAAATTT
1 AAATTTTAAATTT
61490331 AAATTTT
1 AAATTTT
61490338 TGATATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
AAATTTTAAATTT
Found at i:61491886 original size:27 final size:27
Alignment explanation
Indices: 61491869--61491941 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
61491859 TGTCTTGAAT
61491869 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
61491896 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
61491928 TTGTTGGATATTGA
1 TTGTTAGATATTGA
61491942 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:61491921 original size:32 final size:32
Alignment explanation
Indices: 61491882--61491942 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
61491872 TTAGATATTG
61491882 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
61491914 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
61491943 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:61492909 original size:35 final size:35
Alignment explanation
Indices: 61492863--61492932 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
61492853 TTCAAAAATT
61492863 TTCTCAAGGTTGAAGATATTGATACTTTTAATGTG
1 TTCTCAAGGTTGAAGATATTGATACTTTTAATGTG
61492898 TTCTCAAGGTTGAAGATATTGATACTTTTAATGTG
1 TTCTCAAGGTTGAAGATATTGATACTTTTAATGTG
61492933 CTGTAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (35 bp):
TTCTCAAGGTTGAAGATATTGATACTTTTAATGTG
Found at i:61492994 original size:22 final size:22
Alignment explanation
Indices: 61492968--61493054 Score: 97
Period size: 22 Copynumber: 3.9 Consensus size: 22
61492958 CAATGTTGTT
61492968 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
*
61492990 GTTATCATGTAGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
* *
61493012 GTTATGCACT-T-GTATAATATTGTT
1 GTTAT-CA-TGTGGTGTAATA-T-TA
61493036 GTTATCATGTGGTGTAATA
1 GTTATCATGTGGTGTAATA
61493055 CTAATTATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
22 34 0.62
23 7 0.13
24 14 0.25
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.46
Consensus pattern (22 bp):
GTTATCATGTGGTGTAATATTA
Found at i:61493051 original size:46 final size:46
Alignment explanation
Indices: 61492990--61493078 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
61492980 TGTAATATTA
* * *
61492990 GTTATCATGTAGTGTAATATTAGTTATGCACTTGTATAATATTGTT
1 GTTATCATGTAGTGTAATACTAATTATGCACTTGGATAATATTGTT
* *
61493036 GTTATCATGTGGTGTAATACTAATTATGCATTTGGATAATATT
1 GTTATCATGTAGTGTAATACTAATTATGCACTTGGATAATATT
61493079 ATTAATTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (46 bp):
GTTATCATGTAGTGTAATACTAATTATGCACTTGGATAATATTGTT
Found at i:61493079 original size:68 final size:68
Alignment explanation
Indices: 61492934--61493062 Score: 197
Period size: 68 Copynumber: 1.9 Consensus size: 68
61492924 TTTAATGTGC
* * *
61492934 TGTAATATTAGTTATACACTTTGACAATGTTGTTGTTATCATGTGGTGTAATATTAGTTATCATG
1 TGTAATATTAGTTATACACTTTGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCATG
61492999 TAG
66 TAG
* *
61493002 TGTAATATTAGTTATGCAC-TTGTATAATATTGTTGTTATCATGTGGTGTAATACTAATTAT
1 TGTAATATTAGTTATACACTTTG-ACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT
61493063 GCATTTGGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 3 0.05
68 52 0.95
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (68 bp):
TGTAATATTAGTTATACACTTTGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCATG
TAG
Found at i:61498989 original size:25 final size:25
Alignment explanation
Indices: 61498951--61499027 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 25
61498941 AGCCTATGAG
* *
61498951 TTTTTGTGCCCTCGTAAACGAGACT
1 TTTTTGTGCACTCGTAAACGAGTCT
*
61498976 TTTTTGTGTACTCGTAAACGAGTCT
1 TTTTTGTGCACTCGTAAACGAGTCT
* *
61499001 TTTTTGTGCACTCATGAACGAGTCT
1 TTTTTGTGCACTCGTAAACGAGTCT
61499026 TT
1 TT
61499028 CTTATTCTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (25 bp):
TTTTTGTGCACTCGTAAACGAGTCT
Found at i:61505268 original size:19 final size:19
Alignment explanation
Indices: 61505244--61505290 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
61505234 TGATTGCTAA
*
61505244 TCCACAAGTTTGATTGTCT
1 TCCACAAATTTGATTGTCT
61505263 TCCACAAATTTGATTGTCT
1 TCCACAAATTTGATTGTCT
61505282 TCCACAAAT
1 TCCACAAAT
61505291 CAGATCTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (19 bp):
TCCACAAATTTGATTGTCT
Done.