Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 56 of 378
Found at i:14135231 original size:20 final size:20
Alignment explanation
Indices: 14135189--14135238 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14135179 AAACATGTCT
* *
14135189 CAAATGTGTTTTAACTTATC
1 CAAATGTGTTTCAACATATC
14135209 CAAATGTGTTTCAAGCATA-C
1 CAAATGTGTTTCAA-CATATC
14135229 C-AATGTGTTT
1 CAAATGTGTTT
14135239 TTAAGTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
CAAATGTGTTTCAACATATC
Found at i:14137612 original size:89 final size:90
Alignment explanation
Indices: 14137496--14137766 Score: 262
Period size: 89 Copynumber: 2.9 Consensus size: 90
14137486 TTAAGGGTGT
** * *
14137496 AAAAA-ACCCTCAAACTTTTTTTTAAAAAAAGTAATTAAGTCTCTACTTTTTTTTTGCTCTCAAT
1 AAAAAGACCCTCAAA--TTTTTCAAAAAAAAGCAATTAA-TCTCTACTTTTTTTTTGCACTCAAT
*
14137560 TGGGTACTTGAACTTTCAAAATGA-ATA
63 TGAGTACTTGAACTTTCAAAATGACATA
* * * * * * *
14137587 AAAATG-CTCTCAAATTTTTCAAAAAAAAACAATTAATTTCCTGCTTTTGTTTTGCACTTAATTG
1 AAAAAGACCCTCAAATTTTTCAAAAAAAAGCAATTAATCT-CTACTTTTTTTTTGCACTCAATTG
*
14137651 AGTATTTGAACTTTCAAAAT-ACATA
65 AGTACTTGAACTTTCAAAATGACATA
* * * *
14137676 AAAAAGACCCTCAAATTTTTTACAAAAAAGCAATTAACCCCTTACTCTTATTTTTTGTTGCACTC
1 AAAAAGACCCTCAAATTTTTCAAAAAAAAGCAATTAATCTC-TA--C-T-TTTTTT-TTGCACTC
*
14137741 AATTGAGTACTTGAACTTCCAAAATG
60 AATTGAGTACTTGAACTTTCAAAATG
14137767 CATCAAGAAG
Statistics
Matches: 143, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
88 3 0.02
89 65 0.45
90 27 0.19
91 11 0.08
92 1 0.01
93 1 0.01
94 5 0.03
95 30 0.21
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (90 bp):
AAAAAGACCCTCAAATTTTTCAAAAAAAAGCAATTAATCTCTACTTTTTTTTTGCACTCAATTGA
GTACTTGAACTTTCAAAATGACATA
Found at i:14137931 original size:9 final size:9
Alignment explanation
Indices: 14137917--14137984 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
14137907 ATTAAATTTT
14137917 TAAAAATAA
1 TAAAAATAA
14137926 TAAAAAT--
1 TAAAAATAA
* *
14137933 TAAAATTTAT
1 TAAAA-ATAA
14137943 TAAAAATAA
1 TAAAAATAA
*
14137952 -AAAAATTA
1 TAAAAATAA
*
14137960 TAAAAATCA
1 TAAAAATAA
*
14137969 TAAAAGATTA
1 TAAAA-ATAA
14137979 TAAAAA
1 TAAAAA
14137985 ATGTAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
7 5 0.10
8 8 0.17
9 22 0.46
10 13 0.27
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
TAAAAATAA
Found at i:14137946 original size:17 final size:18
Alignment explanation
Indices: 14137903--14138012 Score: 75
Period size: 17 Copynumber: 6.1 Consensus size: 18
14137893 AAGTTATACC
** *
14137903 AATTATTAAATTTTTAAA
1 AATTATTAAAAATATAAA
*
14137921 AA-TAATAAAAAT-TAAA
1 AATTATTAAAAATATAAA
* *
14137937 ATTTATTAAAAATAAAAA
1 AATTATTAAAAATATAAA
14137955 AATTA-TAAAAATCATAAA
1 AATTATTAAAAAT-ATAAA
* *
14137973 AGATTATAAAAAATGT-AA
1 A-ATTATTAAAAATATAAA
*
14137991 AATTTTATAAAAATCATAAA
1 AATTAT-TAAAAAT-ATAAA
14138011 AA
1 AA
14138013 ATGTAAAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
16 5 0.07
17 27 0.38
18 23 0.32
19 6 0.08
20 10 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATTAAAAATATAAA
Found at i:14137958 original size:19 final size:20
Alignment explanation
Indices: 14137934--14138014 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 20
14137924 AATAAAAATT
14137934 AAAATTTATTAAAAAT-A-AA
1 AAAATTTA-TAAAAATCATAA
14137953 AAAA-TTATAAAAATCATAA
1 AAAATTTATAAAAATCATAA
* *
14137972 AAGA-TTATAAAAA--ATGTA
1 AAAATTTATAAAAATCAT-AA
*
14137990 AAATTTTATAAAAATCATAA
1 AAAATTTATAAAAATCATAA
14138010 AAAAT
1 AAAAT
14138015 GTAAAATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 9 0.18
18 7 0.14
19 27 0.54
20 5 0.10
21 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATTTATAAAAATCATAA
Found at i:14137991 original size:28 final size:28
Alignment explanation
Indices: 14137917--14138040 Score: 93
Period size: 26 Copynumber: 4.6 Consensus size: 28
14137907 ATTAAATTTT
* *
14137917 TAAAAATAAT-AAAAAT-TAAAAT-TTA
1 TAAAAATCATAAAAAATGTAAAATATCA
*
14137942 TTAAAAAT-A-AAAAAAT-TATAAAAATCA
1 -TAAAAATCATAAAAAATGTA-AAATATCA
* * *
14137969 TAAAAGATTATAAAAAATGTAAAATTTTA
1 TAAAA-ATCATAAAAAATGTAAAATATCA
14137998 TAAAAATCATAAAAAATGTAAAATAT-A
1 TAAAAATCATAAAAAATGTAAAATATCA
* *
14138025 TAGAAAT-ATAGAAAAT
1 TAAAAATCATAAAAAAT
14138041 AATTATAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.11
26 23 0.28
27 11 0.13
28 20 0.24
29 17 0.21
30 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (28 bp):
TAAAAATCATAAAAAATGTAAAATATCA
Found at i:14138071 original size:58 final size:59
Alignment explanation
Indices: 14137933--14138099 Score: 156
Period size: 55 Copynumber: 2.9 Consensus size: 59
14137923 TAATAAAAAT
* * *
14137933 TAAAA-TTTATTAAAAAT-A-AAAAAATTATAAAAATCATAAA-AGAT-TATAAAA-AA-TG
1 TAAAATTTTA-TAAAAATCATAAAAAAATATAAAAAT-ATAAAGAAATATA-AAAATAATTA
* *
14137988 TAAAATTTTATAAAAATCAT-AAAAAATGT-AAAATATATAGAAATATAGAAAATAATTA
1 TAAAATTTTATAAAAATCATAAAAAAATATAAAAATATAAAGAAATATA-AAAATAATTA
* *
14138046 TAAAATTTTAT-AAAATCGTAAAAAAAATATAAAAATGTAAAGAAATATAAAAAT
1 TAAAATTTTATAAAAATCAT-AAAAAAATATAAAAATATAAAGAAATATAAAAAT
14138100 TATCGTAACA
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
54 4 0.04
55 20 0.22
56 18 0.20
57 9 0.10
58 12 0.13
59 13 0.14
60 16 0.17
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (59 bp):
TAAAATTTTATAAAAATCATAAAAAAATATAAAAATATAAAGAAATATAAAAATAATTA
Found at i:14138076 original size:19 final size:17
Alignment explanation
Indices: 14138054--14138097 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
14138044 TATAAAATTT
14138054 TATAAAATCGTAAAAAAAA
1 TATAAAAT-GT-AAAAAAA
*
14138073 TATAAAAATGTAAAGAAA
1 TAT-AAAATGTAAAAAAA
14138091 TATAAAA
1 TATAAAA
14138098 ATTATCGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 5 0.22
20 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (17 bp):
TATAAAATGTAAAAAAA
Found at i:14138407 original size:9 final size:9
Alignment explanation
Indices: 14138304--14138418 Score: 59
Period size: 9 Copynumber: 12.0 Consensus size: 9
14138294 ATTTTAATAA
*
14138304 AATTTTAAT
1 AATTTTTAT
*
14138313 ATTTTTTAT
1 AATTTTTAT
* *
14138322 ATTTTTTTAC
1 A-ATTTTTAT
14138332 AATTTTTAT
1 AATTTTTAT
*
14138341 AATTTGTTTCT
1 AA-TT-TTTAT
*
14138352 AATTTTAATAA
1 AATTTT--TAT
*
14138363 AATTTTAAT
1 AATTTTTAT
*
14138372 ATTTTTTAT
1 AATTTTTAT
*
14138381 ATTTTTTATT
1 AATTTTTA-T
**
14138391 AAAATTTAT
1 AATTTTTAT
14138400 AATTTTTAT
1 AATTTTTAT
*
14138409 TATCTTTTAT
1 AAT-TTTTAT
14138419 TGGTTTTTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
9 44 0.54
10 24 0.30
11 13 0.16
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:14138416 original size:29 final size:29
Alignment explanation
Indices: 14138294--14138419 Score: 98
Period size: 28 Copynumber: 4.3 Consensus size: 29
14138284 GCATTTTCTA
*
14138294 ATTTTAATAAAATTTTAATATTTTT-TAT
1 ATTTTATTAAAATTTTAATATTTTTATAT
* * * *
14138322 ATTTTTTTACAATTTTTATAATTTGTT-TCT
1 ATTTTATTAAAATTTTAAT-ATTT-TTATAT
*
14138352 AATTTTAATAAAATTTTAATATTTTTTATAT
1 -ATTTTATTAAAATTTTAATA-TTTTTATAT
*
14138383 TTTTTATTAAAA-TTT-ATAATTTTTATTAT
1 ATTTTATTAAAATTTTAAT-ATTTTTA-TAT
*
14138412 CTTTTATT
1 ATTTTATT
14138420 GGTTTTTATT
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
28 23 0.29
29 18 0.23
30 17 0.22
31 20 0.26
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (29 bp):
ATTTTATTAAAATTTTAATATTTTTATAT
Found at i:14138417 original size:19 final size:19
Alignment explanation
Indices: 14138335--14138418 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 19
14138325 TTTTTACAAT
14138335 TTTTATAATTTGTT-TCTA-A
1 TTTTATAATTT-TTAT-TATA
* * *
14138354 TTTTAATAAAATTTTAATATT
1 TTTT-AT-AATTTTTATTATA
* *
14138375 TTTTATATTTTTTATTAAA
1 TTTTATAATTTTTATTATA
* *
14138394 ATTTATAATTTTTATTATC
1 TTTTATAATTTTTATTATA
14138413 TTTTAT
1 TTTTAT
14138419 TGGTTTTTAT
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
19 32 0.67
20 8 0.17
21 8 0.17
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTATTATA
Found at i:14138417 original size:59 final size:59
Alignment explanation
Indices: 14138288--14138404 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
14138278 TTTGATGCAT
*
14138288 TTTCTAATTTTAATAAAATTTTAATATTTTTTATATTTTTTTACAATTTTTATAATTTG
1 TTTCTAATTTTAATAAAATTTTAATATTTTTTATATTTTTTTACAATATTTATAATTTG
14138347 TTTCTAATTTTAATAAAATTTTAATATTTTTTATATTTTTTATTA-AA-ATTTATAATTT
1 TTTCTAATTTTAATAAAATTTTAATATTTTTTATA-TTTTT-TTACAATATTTATAATTT
14138405 TTATTATCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
59 45 0.82
60 7 0.13
61 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (59 bp):
TTTCTAATTTTAATAAAATTTTAATATTTTTTATATTTTTTTACAATATTTATAATTTG
Found at i:14138736 original size:17 final size:18
Alignment explanation
Indices: 14138714--14138747 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14138704 ATATTTATAT
14138714 CCAAACAC-AATATTATC
1 CCAAACACAAATATTATC
14138731 CCAAACACAAATATTAT
1 CCAAACACAAATATTAT
14138748 ACACATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CCAAACACAAATATTATC
Found at i:14141169 original size:32 final size:34
Alignment explanation
Indices: 14141128--14141195 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
14141118 GGTGCCTAAG
14141128 AGTTGTTATTGA-TTTT-TCTTTCTTTTCAAAGA
1 AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
14141160 AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
1 AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
14141194 AG
1 AG
14141196 AAATTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 12 0.35
33 4 0.12
34 18 0.53
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.54
Consensus pattern (34 bp):
AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
Found at i:14146710 original size:22 final size:22
Alignment explanation
Indices: 14146669--14146712 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14146659 TTTAGCCATT
*
14146669 TTTTTATTTTTATTGCAATTTA
1 TTTTTATTTTTATTACAATTTA
*
14146691 TTTTTATTTTTATTATAATTTA
1 TTTTTATTTTTATTACAATTTA
14146713 CTAACTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTATTTTTATTACAATTTA
Found at i:14149997 original size:43 final size:43
Alignment explanation
Indices: 14149939--14150039 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
14149929 GTTTATTTGA
** * *
14149939 AAAAACGCTTCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGACCCTTTTCCC
* * * *
14149982 ACAAATGCCGCTAAAGATCATTACCTTTAGCGACCCTTTTTCC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGACCCTTTTCCC
14150025 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
14150040 AGTCATAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCATGACCTTTAGCGACCCTTTTCCC
Found at i:14150512 original size:64 final size:64
Alignment explanation
Indices: 14150438--14150564 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
14150428 TGTAAAATAT
* *
14150438 AAGATTTGAATATCCATTCCTATGTGGAATATCAACATTGATTATTTAAATTGATTAACTAAGA
1 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAGA
14150502 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAG
1 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAG
14150565 TCAAAATTGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (64 bp):
AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAGA
Found at i:14151451 original size:16 final size:15
Alignment explanation
Indices: 14151418--14151448 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14151408 CTCAGATGAA
*
14151418 CAAAAATGGTACATC
1 CAAAAATGGAACATC
14151433 CAAAAATGGAACATC
1 CAAAAATGGAACATC
14151448 C
1 C
14151449 CAACATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (15 bp):
CAAAAATGGAACATC
Found at i:14156892 original size:7 final size:7
Alignment explanation
Indices: 14156880--14157038 Score: 85
Period size: 7 Copynumber: 22.6 Consensus size: 7
14156870 CTAATTAATA
14156880 TAAACCC
1 TAAACCC
14156887 TAAACCTC
1 TAAACC-C
*
14156895 TAACCCC
1 TAAACCC
*
14156902 T-ACCCC
1 TAAACCC
* *
14156908 TAAATCT
1 TAAACCC
*
14156915 TAAATCC
1 TAAACCC
*
14156922 TAAACAC
1 TAAACCC
14156929 TAAA-CC
1 TAAACCC
14156935 TATAACCC
1 TA-AACCC
*
14156943 T-ATCCC
1 TAAACCC
*
14156949 TTAACCC
1 TAAACCC
14156956 TTAAACCC
1 -TAAACCC
14156964 TAAACCC
1 TAAACCC
*
14156971 TTAACACC
1 TAAAC-CC
*
14156979 TAACCCC
1 TAAACCC
14156986 T-AACCC
1 TAAACCC
14156992 TTAAACCC
1 -TAAACCC
*
14157000 T-AACACG
1 TAAAC-CC
*
14157007 TAATCCC
1 TAAACCC
*
14157014 TAAACCA
1 TAAACCC
* *
14157021 TAATCCA
1 TAAACCC
*
14157028 TAAACCT
1 TAAACCC
14157035 TAAA
1 TAAA
14157039 ATATTAACTC
Statistics
Matches: 118, Mismatches: 23, Indels: 22
0.72 0.14 0.13
Matches are distributed among these distances:
6 21 0.18
7 70 0.59
8 27 0.23
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:14156941 original size:42 final size:42
Alignment explanation
Indices: 14156880--14156968 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
14156870 CTAATTAATA
* * * *
14156880 TAAACCCTAAACCTCTAACCCCTA-CCCCTAAATCTTAAATCC
1 TAAACACTAAACCTATAA-CCCTATCCCCTAAACCTTAAACCC
* *
14156922 TAAACACTAAACCTATAACCCTATCCCTTAACCCTTAAACCC
1 TAAACACTAAACCTATAACCCTATCCCCTAAACCTTAAACCC
14156964 TAAAC
1 TAAAC
14156969 CCTTAACACC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 5 0.12
42 35 0.88
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (42 bp):
TAAACACTAAACCTATAACCCTATCCCCTAAACCTTAAACCC
Found at i:14156996 original size:36 final size:35
Alignment explanation
Indices: 14156922--14157002 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 35
14156912 TCTTAAATCC
* * *
14156922 TAAACACTAAACCTATAACCCTATCCCTTAACCCT
1 TAAACCCTAAACCTATAACCCTAACCCCTAACCCT
14156957 TAAACCCTAAACCCT-TAACACCTAACCCCTAACCCT
1 TAAACCCTAAA-CCTATAAC-CCTAACCCCTAACCCT
14156993 TAAACCCTAA
1 TAAACCCTAA
14157003 CACGTAATCC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
35 14 0.34
36 27 0.66
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (35 bp):
TAAACCCTAAACCTATAACCCTAACCCCTAACCCT
Found at i:14157069 original size:7 final size:7
Alignment explanation
Indices: 14157059--14157141 Score: 60
Period size: 7 Copynumber: 11.7 Consensus size: 7
14157049 ATAAACCATA
14157059 AACCCCT
1 AACCCCT
14157066 AACCCCT
1 AACCCCT
**
14157073 CTCCCCTT
1 AACCCC-T
*
14157081 AACGCCT
1 AACCCCT
14157088 AACCCCT
1 AACCCCT
*
14157095 ATCCCCTT
1 AACCCC-T
* *
14157103 AACACTT
1 AACCCCT
14157110 AACCCCT
1 AACCCCT
*
14157117 AATCCCT
1 AACCCCT
**
14157124 AACCATT
1 AACCCCT
14157131 AACCCC-
1 AACCCCT
14157137 AACCC
1 AACCC
14157142 TTAAACCACC
Statistics
Matches: 56, Mismatches: 18, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
6 5 0.09
7 43 0.77
8 8 0.14
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.20
Consensus pattern (7 bp):
AACCCCT
Found at i:14157088 original size:22 final size:22
Alignment explanation
Indices: 14157063--14157122 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
14157053 ACCATAAACC
* *
14157063 CCTAACCCCTCTCCCCTTAACG
1 CCTAACCCCTATCCCCTTAACA
14157085 CCTAACCCCTATCCCCTTAACA
1 CCTAACCCCTATCCCCTTAACA
*
14157107 CTTAACCCCTAATCCC
1 CCTAACCCCT-ATCCC
14157123 TAACCATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 29 0.85
23 5 0.15
ACGTcount: A:0.23, C:0.52, G:0.02, T:0.23
Consensus pattern (22 bp):
CCTAACCCCTATCCCCTTAACA
Found at i:14157123 original size:22 final size:22
Alignment explanation
Indices: 14156940--14157123 Score: 80
Period size: 22 Copynumber: 8.5 Consensus size: 22
14156930 AAACCTATAA
*
14156940 CCCT-ATCCCTTAAC-CCTTAAA
1 CCCTAATCCCTTAACACC-TAAC
*
14156961 CCCTAAACCCTTAACACCTAAC
1 CCCTAATCCCTTAACACCTAAC
14156983 CCCTAA-CCCTTAA-ACCCTAAC
1 CCCTAATCCCTTAACA-CCTAAC
* * *
14157004 ACGTAATCCC-TAA-ACCATAAT
1 CCCTAATCCCTTAACACC-TAAC
* * * **
14157025 CCATAA-ACCTTAAAATATTAAC
1 CCCTAATCCCTTAACA-CCTAAC
* * * * * *
14157047 TCATAAACCATAAACCCCTAAC
1 CCCTAATCCCTTAACACCTAAC
* *
14157069 CCCT-CTCCCCTTAACGCCTAAC
1 CCCTAAT-CCCTTAACACCTAAC
*
14157091 CCCT-ATCCCCTTAACACTTAAC
1 CCCTAAT-CCCTTAACACCTAAC
14157113 CCCTAATCCCT
1 CCCTAATCCCT
14157124 AACCATTAAC
Statistics
Matches: 123, Mismatches: 29, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
20 5 0.04
21 35 0.28
22 75 0.61
23 8 0.07
ACGTcount: A:0.34, C:0.41, G:0.01, T:0.23
Consensus pattern (22 bp):
CCCTAATCCCTTAACACCTAAC
Found at i:14157149 original size:21 final size:21
Alignment explanation
Indices: 14157087--14157136 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
14157077 CCTTAACGCC
14157087 TAACCCCT-ATCCCCTTAA-CACT
1 TAACCCCTAAT-CCC-TAACCA-T
14157109 TAACCCCTAATCCCTAACCAT
1 TAACCCCTAATCCCTAACCAT
14157130 TAACCCC
1 TAACCCC
14157137 AACCCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.42
22 13 0.50
23 2 0.08
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (21 bp):
TAACCCCTAATCCCTAACCAT
Found at i:14157614 original size:40 final size:40
Alignment explanation
Indices: 14157544--14157638 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
14157534 GGCGTTTTTT
* *
14157544 AAAAAACGCTGCTAAAGATCAAGCATTAGCGGCATTTTCC
1 AAAAAACGCCGCTAAAGATCAAGCATTAGCGGCATTTTCA
* ** * *
14157584 AAAAAACGCCGCTAAAGGTGTA-CATATAGCGGCGTTTTTA
1 AAAAAACGCCGCTAAAGATCAAGCAT-TAGCGGCATTTTCA
*
14157624 AAAAAATGCCGCTAA
1 AAAAAACGCCGCTAA
14157639 TACTCGATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.07
40 43 0.93
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAGATCAAGCATTAGCGGCATTTTCA
Found at i:14157767 original size:40 final size:40
Alignment explanation
Indices: 14157723--14157828 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
14157713 GTTAATTTTT
*
14157723 GTGGCGTTTTTTAAAAAACGCCGCTAAAGATCAAGCAT-TA
1 GTGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAA-CATATA
* * * **
14157763 GTGGCGTTTTCTATAAAGCGCCGCTAAAGGTGTACATATA
1 GTGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAACATATA
* *
14157803 GCGGCGTTTTTTAAAAAGTGCCGCTA
1 GTGGCGTTTTTTAAAAAGCGCCGCTA
14157829 GTACTCGATC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.05
40 52 0.95
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
GTGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAACATATA
Found at i:14158160 original size:21 final size:20
Alignment explanation
Indices: 14158132--14158179 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
14158122 TAATCACCCC
*
14158132 AATTTTATTTTATTTATTTT
1 AATTTTATATTATTTATTTT
14158152 AATTGTTATATTATTTATTTT
1 AATT-TTATATTATTTATTTT
*
14158173 TATTTTA
1 AATTTTA
14158180 CTAATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
AATTTTATATTATTTATTTT
Found at i:14158233 original size:17 final size:17
Alignment explanation
Indices: 14158213--14158265 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
14158203 TTCTTATACT
14158213 TATATTTTAATTTTTTA
1 TATATTTTAATTTTTTA
14158230 TATATTTTAA-TTTTTA
1 TATATTTTAATTTTTTA
*
14158246 TATACTTTTATTATTTTTA
1 TATA-TTTTAAT-TTTTTA
14158265 T
1 T
14158266 TTTGCTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.31
17 15 0.47
19 7 0.22
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
TATATTTTAATTTTTTA
Found at i:14158290 original size:22 final size:22
Alignment explanation
Indices: 14158254--14158308 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14158244 TATATACTTT
14158254 TATTATTTTTATTTTGCTATTTC-
1 TATT-TTTTTATTTT-CTATTTCG
* * *
14158277 TATTTTTTTCTTTTTTCTTTCG
1 TATTTTTTTATTTTCTATTTCG
14158299 TATTTTTTTA
1 TATTTTTTTA
14158309 CTATTATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 18 0.67
23 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.75
Consensus pattern (22 bp):
TATTTTTTTATTTTCTATTTCG
Found at i:14158363 original size:3 final size:3
Alignment explanation
Indices: 14158355--14158418 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
14158345 ATCATTGAGT
14158355 TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14158402 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
14158419 TATCTTTCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14160279 original size:30 final size:30
Alignment explanation
Indices: 14160243--14160303 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
14160233 AAGTTTTCAG
*
14160243 GATCCACACGGGTAGGCCACACGCCCATGT
1 GATCCACACGGGCAGGCCACACGCCCATGT
* *
14160273 GATCCACACTGGCAGGCCATACGCCCATGT
1 GATCCACACGGGCAGGCCACACGCCCATGT
14160303 G
1 G
14160304 CCAGCCTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (30 bp):
GATCCACACGGGCAGGCCACACGCCCATGT
Found at i:14163218 original size:3 final size:3
Alignment explanation
Indices: 14163210--14163252 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14163200 AAATAAATGA
14163210 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14163253 CTCTAATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14164653 original size:43 final size:43
Alignment explanation
Indices: 14164592--14164746 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
14164582 CCGGCATTAT
14164592 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
*
14164635 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-TCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACGAA
* * * *
14164678 TCCTGCTAGGCACGAAGGCTCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
*
14164721 GCCTGCTAGGCACTAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
14164747 TAATACCAGC
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 100 0.99
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:14164841 original size:38 final size:38
Alignment explanation
Indices: 14164739--14164846 Score: 139
Period size: 38 Copynumber: 2.8 Consensus size: 38
14164729 GGCACTAAGG
* * * *
14164739 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAA
*
14164777 CCCGGATAT-ATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATT-CCAGCACTAAGCCTGCGGGATTTAA
14164815 CCCGGATATAATTCCAGCA-TATAGCCTGCGGG
1 CCCGGATATAATTCCAGCACTA-AGCCTGCGGG
14164847 TAGGCCCGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.05
38 55 0.90
39 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAA
Found at i:14165917 original size:2 final size:2
Alignment explanation
Indices: 14165905--14165937 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14165895 CACTTTCAAA
14165905 AT AT A- 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 AT AT
14165938 TCGACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14172723 original size:19 final size:17
Alignment explanation
Indices: 14172699--14172734 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
14172689 TAAGGCTCAT
14172699 TTTCCTTTTTCCGTTCTTC
1 TTTCC-TTTTCC-TTCTTC
14172718 TTTCCTTTTCCTTCTTC
1 TTTCCTTTTCCTTCTTC
14172735 CGTTCTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTCCTTTTCCTTCTTC
Found at i:14179675 original size:16 final size:16
Alignment explanation
Indices: 14179649--14179700 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
14179639 AGTAGATCAG
14179649 CAAAA-GCCGAAAAGT
1 CAAAATGCCGAAAAGT
14179664 CAAAATGCCGAAAAGT
1 CAAAATGCCGAAAAGT
* *
14179680 CGAAATGCCGAAAAGC
1 CAAAATGCCGAAAAGT
14179696 CAAAA
1 CAAAA
14179701 GTTTGGCTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 5 0.15
16 28 0.85
ACGTcount: A:0.52, C:0.21, G:0.19, T:0.08
Consensus pattern (16 bp):
CAAAATGCCGAAAAGT
Found at i:14179993 original size:29 final size:29
Alignment explanation
Indices: 14179934--14180034 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
14179924 TTGGGTCGGT
* *
14179934 TGGGCCATATAAATGAG-ATTGGGCCTAA
1 TGGGCCATATAAATGTGAATTGGGCCTGA
*
14179962 TGGGCCATATGAATGTGAATTGGGCCTGA
1 TGGGCCATATAAATGTGAATTGGGCCTGA
* *
14179991 TGGGCCATATGAATGTGAATTGGGCCGGA
1 TGGGCCATATAAATGTGAATTGGGCCTGA
14180020 TGGGCCATATAAATG
1 TGGGCCATATAAATG
14180035 AGATGGGCCA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 15 0.22
29 52 0.78
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGGCCATATAAATGTGAATTGGGCCTGA
Found at i:14180726 original size:26 final size:26
Alignment explanation
Indices: 14180691--14180745 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
14180681 AATGCTTGTT
14180691 TTTCATCGAGGGTTGTACACACTGAG
1 TTTCATCGAGGGTTGTACACACTGAG
14180717 TTTCATCGAGGGTTGTACACACTGAG
1 TTTCATCGAGGGTTGTACACACTGAG
14180743 TTT
1 TTT
14180746 GCGAAAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (26 bp):
TTTCATCGAGGGTTGTACACACTGAG
Found at i:14183138 original size:14 final size:14
Alignment explanation
Indices: 14183121--14183152 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
14183111 AAGTAAATTG
14183121 TTTTCCAGAAATCA
1 TTTTCCAGAAATCA
14183135 TTTTCCAGAAATCA
1 TTTTCCAGAAATCA
14183149 TTTT
1 TTTT
14183153 ACTGGCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (14 bp):
TTTTCCAGAAATCA
Found at i:14191836 original size:42 final size:42
Alignment explanation
Indices: 14191753--14191837 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
14191743 GCTAATTATG
* **
14191753 TGCACTTAGTATGCAAAATTGAGATAGCTTCAGTTACATATT
1 TGCACTTAGTATACAAAATTGAGATAGCTTCAACTACATATT
* * *
14191795 TGCACTTAGTGTACAAGATTGAGATAGCTTCAACTATATATT
1 TGCACTTAGTATACAAAATTGAGATAGCTTCAACTACATATT
14191837 T
1 T
14191838 CTTGGCACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (42 bp):
TGCACTTAGTATACAAAATTGAGATAGCTTCAACTACATATT
Found at i:14191870 original size:46 final size:46
Alignment explanation
Indices: 14191796--14191883 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
14191786 TTACATATTT
* *
14191796 GCACTTAGTGTACAAGATTGAGATAGCTTCAACTATATATTTCTTG
1 GCACTTAGTGTACAAGATTAAGACAGCTTCAACTATATATTTCTTG
* * * * *
14191842 GCACTTAGTGTGCGAGATTAATACAGCTTCGACTATTTATTT
1 GCACTTAGTGTACAAGATTAAGACAGCTTCAACTATATATTT
14191884 GGCACTAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (46 bp):
GCACTTAGTGTACAAGATTAAGACAGCTTCAACTATATATTTCTTG
Found at i:14202434 original size:44 final size:44
Alignment explanation
Indices: 14202371--14202458 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
14202361 GGGGTTAGAA
* *
14202371 TTGTAAATCTACATCTAGTTCTGTTTCTATATATGATATATGTT
1 TTGTAAATCTACATCTAGTTCTGTTTATATAGATGATATATGTT
* *
14202415 TTGTAAATTTGCATCTAGTTCTGTTTATATAGATGATATATGTT
1 TTGTAAATCTACATCTAGTTCTGTTTATATAGATGATATATGTT
14202459 CGGTGCCTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (44 bp):
TTGTAAATCTACATCTAGTTCTGTTTATATAGATGATATATGTT
Found at i:14216830 original size:42 final size:42
Alignment explanation
Indices: 14216710--14216877 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 42
14216700 AGAATGTTCA
* *
14216710 TAAA-CAAGTACAATGCCGACGTCCCAGACGTGGTCTTACATG
1 TAAATCAA-TACAATGCCGATGTCCCAGACATGGTCTTACATG
* ** * *
14216752 TAATTCAATATCGAAT-CCTCTGTCCCAGAAAAGGTCTTACATG
1 TAAATCAATA-C-AATGCCGATGTCCCAGACATGGTCTTACATG
* *
14216795 -AAATCAGATACAATGCCGATGTCCCAGACATGGTCTTATACG
1 TAAATCA-ATACAATGCCGATGTCCCAGACATGGTCTTACATG
* * *
14216837 TAAATCTCAAT-CAAGGCTTG-TGTCCCAGACACGGTCTTACA
1 TAAA--TCAATACAATGC-CGATGTCCCAGACATGGTCTTACA
14216878 CGATGTCTCA
Statistics
Matches: 99, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
41 3 0.03
42 32 0.32
43 55 0.56
44 6 0.06
45 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
TAAATCAATACAATGCCGATGTCCCAGACATGGTCTTACATG
Found at i:14221514 original size:6 final size:6
Alignment explanation
Indices: 14221480--14221513 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
14221470 TAAGTCCGCA
*
14221480 TCTGAT TCTGAT TCTGAT TCTGAT TCTGTT TCTG
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTG
14221514 TATATGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (6 bp):
TCTGAT
Found at i:14226824 original size:25 final size:25
Alignment explanation
Indices: 14226738--14226868 Score: 203
Period size: 25 Copynumber: 5.2 Consensus size: 25
14226728 CATGAAATTC
14226738 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
14226764 TTATCATGAAACATTTACCTAA--CA
1 TTATCATG-AACATTTACCTAACCCA
*
14226788 TTATCATAAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
*
14226813 TTATCATGAACATTTACCTAACACA
1 TTATCATGAACATTTACCTAACCCA
*
14226838 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCCA
14226863 TTATCA
1 TTATCA
14226869 ATTTGTATCA
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.13
24 9 0.09
25 54 0.55
26 22 0.22
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:14227313 original size:41 final size:41
Alignment explanation
Indices: 14227245--14227462 Score: 264
Period size: 41 Copynumber: 5.3 Consensus size: 41
14227235 AGAGCAATAG
* *
14227245 AAACGCCGCTAAAAA-TAGAGCAATAGCGGCTTTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCTTTTTCGGTA
* **
14227285 AAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCTTTTTCGGTA
* * **
14227326 AAACGCTGCTAAAAACCAGAACATTAGCGGCCCTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCTTTTTCGGTA
* *
14227367 AAACGCCGCTAAATACCAGAGCATTGGCGG-TGCTTTT-GGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCT--TTTTCGGTA
* *
14227408 AAACGCCGCTAAAAACCAGAGCATTAGCGG-TGTTTTTGCTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCT-TTTTCGGTA
14227449 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
14227463 GTCATATAAC
Statistics
Matches: 155, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 18 0.12
41 134 0.86
42 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCTTTTTCGGTA
Found at i:14227746 original size:7 final size:7
Alignment explanation
Indices: 14227734--14227840 Score: 58
Period size: 7 Copynumber: 15.0 Consensus size: 7
14227724 TAGAGATTAT
14227734 GGTTTAG
1 GGTTTAG
14227741 GGTTTAG
1 GGTTTAG
14227748 GG-TT-G
1 GGTTTAG
*
14227753 GAGTTTAA
1 G-GTTTAG
*
14227761 GGTGTAAG
1 GGT-TTAG
*
14227769 GGTTTGG
1 GGTTTAG
*
14227776 GGTTAAG
1 GGTTTAG
14227783 GGTTTAG
1 GGTTTAG
* *
14227790 TGTTTAA
1 GGTTTAG
*
14227797 TGTTTAG
1 GGTTTAG
*
14227804 TGTTTATG
1 GGTTTA-G
*
14227812 GG-ATAGG
1 GGTTTA-G
*
14227819 GGTTAAG
1 GGTTTAG
14227826 AGGTTTAG
1 -GGTTTAG
14227834 GGTTTAG
1 GGTTTAG
14227841 ATTAATTAGT
Statistics
Matches: 76, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 56 0.74
8 15 0.20
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:14231243 original size:29 final size:29
Alignment explanation
Indices: 14231173--14231265 Score: 150
Period size: 29 Copynumber: 3.1 Consensus size: 29
14231163 GAGTCTGGAT
14231173 TTCAGCAATTTTTTAATGTAGTCAATGTTA
1 TTCAG-AATTTTTTAATGTAGTCAATGTTA
*
14231203 TTCAAAAAATTTTTTAATGTAGTCAATGTTA
1 TTC--AGAATTTTTTAATGTAGTCAATGTTA
14231234 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
14231263 TTC
1 TTC
14231266 CGGTATAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
29 28 0.47
30 3 0.05
31 27 0.46
32 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (29 bp):
TTCAGAATTTTTTAATGTAGTCAATGTTA
Found at i:14233819 original size:29 final size:29
Alignment explanation
Indices: 14233780--14233851 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
14233770 AGAAAATGAT
14233780 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
14233809 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
*
14233838 AACAAAAGTGACTA
1 AACATAAGTGACTA
14233852 TTTTTGTAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATTTCA
Found at i:14236763 original size:46 final size:45
Alignment explanation
Indices: 14236695--14236869 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
14236685 TGTAACCCGC
*
14236695 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
14236741 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* *** * * *
14236787 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
*
14236834 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
14236870 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.65
47 35 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:14236816 original size:93 final size:93
Alignment explanation
Indices: 14236703--14236873 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
14236693 GCCCATAAGT
* * *
14236703 GAACTCGGAATCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14236768 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
14236796 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
14236861 CGAGTTCGGATGC
66 CGAGCTCGGATGC
14236874 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:14236889 original size:46 final size:45
Alignment explanation
Indices: 14236746--14236889 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 45
14236736 CGTATCCATA
*
14236746 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
14236795 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
14236838 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
14236885 AGTGA
1 AGTGA
14236890 CATGTCACTT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 29 0.36
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:14240114 original size:75 final size:75
Alignment explanation
Indices: 14240029--14240177 Score: 237
Period size: 75 Copynumber: 2.0 Consensus size: 75
14240019 CAGTTGTCCC
* *
14240029 ATAATTTTTTGATGTCATGGGAAA-CAGGTTGACAACATATTTGCAACGTGTTTACTGCTTCTAT
1 ATAATTTTTTGATGTCATGGGAAACCA-GTTGACAACATATTCGCAACGTGTTAACTGCTTCTAT
14240093 TAGGATTTTGT
65 TAGGATTTTGT
* * *
14240104 ATAATTTTTTGATGTCATGTGAAACCAGTTGACAACATGTTCGCAACTTGTTAACTGCTTCTATT
1 ATAATTTTTTGATGTCATGGGAAACCAGTTGACAACATATTCGCAACGTGTTAACTGCTTCTATT
14240169 AGGATTTTG
66 AGGATTTTG
14240178 CATATAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
75 66 0.97
76 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (75 bp):
ATAATTTTTTGATGTCATGGGAAACCAGTTGACAACATATTCGCAACGTGTTAACTGCTTCTATT
AGGATTTTGT
Found at i:14240434 original size:35 final size:35
Alignment explanation
Indices: 14240376--14240825 Score: 266
Period size: 35 Copynumber: 12.5 Consensus size: 35
14240366 GACAAAGATC
** **
14240376 TATCCCAACCTTTTTAAATTTGCCTTAGATGGGTT
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
14240411 TA-CCCTAACCTTTTTAAGGTTGCCTTAGACAA-GTT
1 TATCCC-AACCTTTTTAAGGTTGCCTTAGA-AAGGTT
* * *
14240446 TATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTC
1 TATCCCAAC-CTTTTTAAGGTTGCCTTAG-AAAGGTT
* * *
14240482 TATCCCAACCTTTTTAAGGTTGCTTTA-AACGAGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAG-GTT
* * * * *
14240517 TATCCCAACATTTCTAAGGTTGTCTTAGACAGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
* * ** *
14240552 AATCCCAACTTTTTTTAAAATTTCCTTAGACAAGGTT
1 TATCCCAAC-CTTTTTAAGGTTGCCTTAGA-AAGGTT
* * * *
14240589 TATCCCAACCTTTTTAAGGTTACCTTA-AACGAATC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAG-GTT
* **
14240624 TATCCCAACTTTTTTAAGGTTGTTTTAGATAA-GTT
1 TATCCCAACCTTTTTAAGGTTGCCTTAGA-AAGGTT
* * * *
14240659 TATTCCAACCTTTTTCGAAAGTTGCCTTAGACAAGATC
1 TATCCCAACCTTTTT--AAGGTTGCCTTAGA-AAGGTT
* * *
14240697 TATCCTAACTTTTTTTAAAGGTTGCCTTAGACAAGGTC
1 TATCCCAAC-CTTTTT-AAGGTTGCCTTAGA-AAGGTT
** ** ** *
14240735 TATCCCAA-CTTTTTAAAAATATATCTTAGACTGGTC
1 TATCCCAACCTTTTT-AAGGT-TGCCTTAGAAAGGTT
* * * ** *
14240771 TATTCCAACCTTTTTAATGTTGCATTAGATGGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
14240806 TATCCCAACCTTTTTCAAGG
1 TATCCCAACCTTTTT-AAGG
14240826 GTTGGTCTTG
Statistics
Matches: 321, Mismatches: 73, Indels: 41
0.74 0.17 0.09
Matches are distributed among these distances:
34 8 0.02
35 149 0.46
36 86 0.27
37 39 0.12
38 34 0.11
39 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
Found at i:14240501 original size:71 final size:72
Alignment explanation
Indices: 14240421--14240748 Score: 290
Period size: 71 Copynumber: 4.5 Consensus size: 72
14240411 TACCCTAACC
* *
14240421 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTCTAT
1 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAGATCTAT
*
14240485 CCCAACC
66 CCCAACT
* * * * * * * * * *
14240492 TTTTTAAGGTTGCTTTAAACGAGTCTATCCCAAC-ATTTCTAAGGTTGTCTTAG-ACAGGTCAAT
1 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAGATCTAT
14240555 CCCAACTT
66 CCCAAC-T
** * * * *
14240563 TTTTTAAAATTTCCTTAGACAAGGTTTATCCCAAC-CTTTTTAAGGTTACCTT--AAACGAATCT
1 TTTTTAAGGTTGCCTTAGACAA-GTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAG-ATCT
14240625 ATCCCAACT
64 ATCCCAACT
** * * ** * *
14240634 TTTTTAAGGTTGTTTTAGATAAGTTTATTCCAACCTTTTTCGAAAGTTGCCTTAGACAAGATCTA
1 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAA-CTTTTTTTAAGGTTGCCTTAGAAAAGATCTA
*
14240699 TCCTAACTT
65 TCCCAAC-T
*
14240708 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTT
1 TTTTT-AAGGTTGCCTTAGACAA-GTTTATCCCAACTTTTT
14240749 AAAAATATAT
Statistics
Matches: 199, Mismatches: 46, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
70 30 0.15
71 74 0.37
72 46 0.23
73 11 0.06
74 9 0.05
75 20 0.10
76 9 0.05
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (72 bp):
TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAGATCTAT
CCCAACT
Found at i:14240617 original size:107 final size:107
Alignment explanation
Indices: 14240365--14240825 Score: 410
Period size: 107 Copynumber: 4.3 Consensus size: 107
14240355 ATTGGACATG
* ** * * * * *
14240365 AGACAAAGATCTATCCCAACCTTTTTAAATTTGCCTTAGATGGGTTTA-CCCTAACCTTTTTAAG
1 AGAC-AAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCC-AACATTTTTAAG
*
14240429 GTTGCCTTAGACAAGTTTATCCCAACTTTTTTT-AAGTTGCCTT
64 GTTGTCTTAGACAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
* * * *
14240472 GGAAAAGGTCTATCCCAACCTTTTTAAGGTTGCTTTAAACGAGTCTATCCCAACATTTCTAAGGT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCCAACATTTTTAAGGT
* ** * *
14240537 TGTCTTAGACAGGTCAATCCCAACTTTTTTTAAAATTTCCTT
66 TGTCTTAGACAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
* * * *
14240579 AGACAAGGTTTATCCCAACCTTTTTAAGGTTACCTTAAACGAATCTATCCCAACTTTTTTAAGGT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCCAACATTTTTAAGGT
* * * **
14240644 TGTTTTAGATAAGTTTATTCCAACCTTTTTCGAAAGTTGCCTT
66 TGTCTTAGACAAGTTTATCCCAA-CTTTTTTTAAAGTTGCCTT
* * * * *
14240687 AGACAAGATCTATCCTAACTTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC-TTTTTAA
1 AGACAAGGTCTATCCCAAC-CTTTTT-AAGGTTGCCTTAAACGA-GTCTATCCCAACATTTTT-A
** * ** * * * * *
14240751 AAATATATCTTAGACTGGTCTATTCCAAC-CTTTTTAATGTTGCATT
62 AGGT-TGTCTTAGACAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
**
14240797 AGA-TGGGTCTATCCCAACCTTTTTCAAGG
1 AGACAAGGTCTATCCCAACCTTTTT-AAGG
14240826 GTTGGTCTTG
Statistics
Matches: 283, Mismatches: 63, Indels: 15
0.78 0.17 0.04
Matches are distributed among these distances:
106 74 0.26
107 87 0.31
108 40 0.14
109 16 0.06
110 34 0.12
111 15 0.05
112 17 0.06
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (107 bp):
AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCCAACATTTTTAAGGT
TGTCTTAGACAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
Found at i:14242594 original size:11 final size:11
Alignment explanation
Indices: 14242564--14242618 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
14242554 TATGATAAGT
*
14242564 AATATATAAAA
1 AATATATATAA
14242575 AATATATATAA
1 AATATATATAA
*
14242586 AATGTATATAA
1 AATATATATAA
*
14242597 TATA-ATATAA
1 AATATATATAA
*
14242607 TATATA-ATAA
1 AATATATATAA
14242617 AA
1 AA
14242619 GGAAGATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
10 15 0.39
11 23 0.61
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AATATATATAA
Found at i:14242834 original size:31 final size:30
Alignment explanation
Indices: 14242798--14242856 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
14242788 AAAAGAAAAA
*
14242798 AATGTAAGAAATAATATATATATTAAAATAT
1 AATGTAAGAAATAATATATA-AATAAAATAT
* * *
14242829 AATGTATGATATAATTTATAAATAAAAT
1 AATGTAAGAAATAATATATAAATAAAAT
14242857 GTATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (30 bp):
AATGTAAGAAATAATATATAAATAAAATAT
Found at i:14244516 original size:44 final size:44
Alignment explanation
Indices: 14244453--14245357 Score: 449
Period size: 44 Copynumber: 20.5 Consensus size: 44
14244443 CTTAGGAATA
* * * ** *
14244453 CCAAATCTGTTAACTTCGATCTGCTCTCAGACACTACAAAAACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * *
14244497 CCAAATCTGCTATCTTCGATCTACTCTCTGATAAAACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * *
14244541 CCAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAAAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* ** * * *
14244585 CCAAATCTGGTATCTTTAATCTGCTCTCTGAAAAAATAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
** *** * *
14244629 CCAAATCTGCTATCTTCGATCTGCTC-CTTGTGAGCGCAAGGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TGACAAAACAAAGACG
* * ** *
14244673 CCAAA--T-C-ATCTTGGATTTGCT-T-TGATGCAAAAACATCTGAAGG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AAAACA-AAG-ACG
** * * * * *** *
14244716 TTAGATCTGCTATGTCTTCGATCTGCTTTCCGTCAAATATGGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAAA-ACAAAGACG
* * * * * * * * *
14244763 CCAAATCT-ATTTTTTCGATTTGTTCTCTAACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * *** * *
14244806 TCAAATCTACTATCTTCGATCTGCTC-CTTGTA-AGCGCAAGGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAAAACAAAGACG
* ** *
14244850 CCAAA--T-C-ATCTTGGATCTGCT-TC-GATGCAAAAACATCCGAAGG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AAAACA-AAG-ACG
** * * * *** *
14244893 TTAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AAAACAAAGACG
* * ** * * * *
14244940 CCAAATCTG-TTTCTTCGATTTATTTTCTGACAATACAGAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * * *
14244983 CCAAATCTGCTATTTTTGATCTGCTCTCTGACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * *
14245027 CCAAATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * *
14245071 CCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * *
14245115 CCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * *
14245159 CCAAATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * *
14245203 CCAAATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * *
14245247 CCAAATCTGCTATCTTTGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * * * *
14245291 CCAAATCTGCTATCTTTGATCTGTTCTCTAACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* *
14245335 CCAAATTTGCTATCTTTGATCTG
1 CCAAATCTGCTATCTTCGATCTG
14245358 TTCCTTGTAA
Statistics
Matches: 681, Mismatches: 145, Indels: 70
0.76 0.16 0.08
Matches are distributed among these distances:
37 1 0.00
38 3 0.00
40 26 0.04
41 8 0.01
42 4 0.01
43 41 0.06
44 535 0.79
45 3 0.00
46 4 0.01
47 17 0.02
48 5 0.01
49 29 0.04
50 3 0.00
51 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
Found at i:14244647 original size:132 final size:132
Alignment explanation
Indices: 14244450--14245357 Score: 628
Period size: 132 Copynumber: 6.9 Consensus size: 132
14244440 AAACTTAGGA
* * * * * * * *
14244450 ATACCAAATCTGTTAACTTCGATCTGCTCTCAGACACTACAAAAACGCCAAATCTGCTATCTTCG
1 ATACCAAATCTGCTATCTTTGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * * *
14244515 ATCTACTCTCTGATAAAACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAA
66 ATCTGCTCTCTGATAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAG
14244580 AG
131 AG
* * * * *
14244582 ACACCAAATCTGGTATCTTTAATCTGCTCTCTGAAAAAATAGAGACGCCAAATCTGCTATCTTCG
1 ATACCAAATCTGCTATCTTTGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCG
*** * *
14244647 ATCTGCTC-CTTG-TGAGCGCA-AGGATGCCAAA--T-C-ATCTTGGATTTGCT-T-TGATGCAA
66 ATCTGCTCTC-TGAT-AATACAGA-GATGCCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-A
*
14244703 AAACATCTGAAG
125 ATACA---G-AG
* * * * * * * ** * * * *
14244715 GT--TAGATCTGCTATGTCTTCGATCTGCTTTCCGTCAAATATGGAGATGCCAAATCT-ATTTTT
1 ATACCAAATCTGCTA--TCTTTGATCTGCTCTCTG-AAAATACAGAGACGCCAAATCTGCTATCT
* * * * * * *
14244777 TCGATTTGTTCTCTAACAATACAGAGATGTCAAATCTACTATCTTCGATCTGCTC-CTTGTA-AG
63 TCGATCTGCTCTCTGATAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAA
**
14244840 CGCA-AGG
126 TACAGA-G
* * * ** *
14244847 ATGCCAAA--T-C-ATCTTGGATCTGCT-TCGATGCAAAA-ACATCCGA-AGGTTAGATCTGCTA
1 ATACCAAATCTGCTATCTTTGATCTGCTCTC--TG-AAAATACA---GAGACGCCAAATCTGCTA
** * * ** *
14244905 TGTCTTCGATCTGCTCTCTG-TCGAATATGGAGATGCCAAATCTG-TTTCTTCGATTTATTTTCT
60 --TCTTCGATCTGCTCTCTGAT--AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCT
14244968 GACAATACAGAG
121 GACAATACAGAG
* * ** * *
14244980 ACACCAAATCTGCTATTTTTGATCTGCTCTCTGACTATACAGAGATGCCAAATCTGCTATCTTTG
1 ATACCAAATCTGCTATCTTTGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCG
*
14245045 ATCTGCTCTCTGACT-ATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACA
66 ATCTGCTCTCTGA-TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
14245109 GAG
130 GAG
* * * * *
14245112 ATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGCTATCTTTG
1 ATACCAAATCTGCTATCTTTGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCG
* *
14245177 ATCTGCTCTCTGACT-ATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGACTATACA
66 ATCTGCTCTCTGA-TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
14245241 GAG
130 GAG
* * * *
14245244 ATGCCAAATCTGCTATCTTTGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGCTATCTTTG
1 ATACCAAATCTGCTATCTTTGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCG
* * * *
14245309 ATCTGTTCTCTAACT-ATACAGAGATGCCAAATTTGCTATCTTTGATCTG
66 ATCTGCTCTCTGA-TAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
14245358 TTCCTTGTAA
Statistics
Matches: 610, Mismatches: 116, Indels: 100
0.74 0.14 0.12
Matches are distributed among these distances:
126 3 0.00
127 3 0.00
128 26 0.04
129 9 0.01
130 9 0.01
131 34 0.06
132 351 0.58
133 79 0.13
134 53 0.09
135 4 0.01
136 10 0.02
137 24 0.04
138 2 0.00
139 2 0.00
140 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (132 bp):
ATACCAAATCTGCTATCTTTGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCG
ATCTGCTCTCTGATAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAG
AG
Found at i:14244742 original size:89 final size:87
Alignment explanation
Indices: 14244633--14244920 Score: 239
Period size: 87 Copynumber: 3.3 Consensus size: 87
14244623 GAGACGCCAA
*
14244633 ATCTGCTATCTTCGATCTGCTCCTTGTGAGCGCAAGGATGCCAAATCATCTTGGATTTGCTTTGA
1 ATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGGATTTGCTTTGA
*
14244698 TGCAAAAACATCTGAAGGTTAG
66 TGCAAAAACATCAGAAGGTTAG
* ** ** *
14244720 ATCTGCTATGTCTTCGATCTGCTTTCCGTCAAATATG-GA-GATGCCAAATCTAT-TT---TTTC
1 ATCTGCTA--TCTTCGATCTGC--TCCTTGTAA-GCGCAAGGATGCCAAATC-ATCTTGGATTT-
* * *** * * *
14244779 GATTTG-TTCTCTAACAATACAGAGATGTCAA
59 GCTTTGATGCAAAAAC-AT-CAGA-AGGTTAG
* * *
14244810 ATCTACTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGGATCTGCTTCGA
1 ATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGGATTTGCTTTGA
*
14244875 TGCAAAAACATCCGAAGGTTAG
66 TGCAAAAACATCAGAAGGTTAG
14244897 ATCTGCTATGTCTTCGATCTGCTC
1 ATCTGCTA--TCTTCGATCTGCTC
14244921 TCTGTCGAAT
Statistics
Matches: 147, Mismatches: 35, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
85 1 0.01
86 9 0.06
87 40 0.27
88 22 0.15
89 35 0.24
90 31 0.21
91 8 0.05
92 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGGATTTGCTTTGA
TGCAAAAACATCAGAAGGTTAG
Found at i:14244821 original size:177 final size:177
Alignment explanation
Indices: 14244622--14245008 Score: 603
Period size: 177 Copynumber: 2.2 Consensus size: 177
14244612 CTGAAAAAAT
* *
14244622 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCCTTGTGAGCGCAAGGATGCCAAATCATCTTGG
1 AGAGACACCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGG
* * * *
14244687 ATTTGCTTTGATGCAAAAACATCTGAAGGTTAGATCTGCTATGTCTTCGATCTGCTTTCCGTCAA
66 ATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAA
* *
14244752 ATATGGAGATGCCAAATCTATTTTTTCGATTTGTTCTCTAACAATAC
131 ATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTAACAATAC
*** *
14244799 AGAGATGTCAAATCTACTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGG
1 AGAGACACCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGG
* *
14244864 ATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGA
66 ATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAA
* * *
14244929 ATATGGAGATGCCAAATCTGTTTCTTCGATTTATTTTCTGACAATAC
131 ATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTAACAATAC
* *
14244976 AGAGACACCAAATCTGCTATTTTTGATCTGCTC
1 AGAGACACCAAATCTGCTATCTTCGATCTGCTC
14245009 TCTGACTATA
Statistics
Matches: 189, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 189 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (177 bp):
AGAGACACCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCCAAATCATCTTGG
ATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAA
ATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTAACAATAC
Found at i:14245360 original size:44 final size:44
Alignment explanation
Indices: 14244897--14245357 Score: 636
Period size: 44 Copynumber: 10.4 Consensus size: 44
14244887 CGAAGGTTAG
* * * **
14244897 ATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAA
1 ATCTGCTA--TCTTTGATCTGCTCTCTGAC-TATACAGAGATGCCAA
* * * ** * * **
14244944 ATCTG-TTTCTTCGATTTATTTTCTGACAATACAGAGACACCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
*
14244987 ATCTGCTATTTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
14245031 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
* * *
14245075 ATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
* * * *
14245119 ATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
14245163 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
14245207 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
* * *
14245251 ATCTGCTATCTTTGATCTGCTCCCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
* *
14245295 ATCTGCTATCTTTGATCTGTTCTCTAACTATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
*
14245339 ATTTGCTATCTTTGATCTG
1 ATCTGCTATCTTTGATCTG
14245358 TTCCTTGTAA
Statistics
Matches: 375, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
43 17 0.05
44 352 0.94
46 1 0.00
47 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (44 bp):
ATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATGCCAA
Found at i:14257685 original size:19 final size:21
Alignment explanation
Indices: 14257633--14257718 Score: 70
Period size: 19 Copynumber: 4.0 Consensus size: 21
14257623 TAAACAAAGT
*
14257633 ATATAATAATATAACCATATGATA
1 ATATAAT-ATATAA-AATAT-ATA
*
14257657 A-GTAATATATAAAATATAT-
1 ATATAATATATAAAATATATA
**
14257676 ATAT-ATATATAATGTATATA
1 ATATAATATATAAAATATATA
*
14257696 ATATAATATATAATAAAATATA
1 ATATAATATATAA-AATATATA
14257718 A
1 A
14257719 CGAAATATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
19 14 0.28
20 7 0.14
21 12 0.24
22 12 0.24
23 4 0.08
24 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.37
Consensus pattern (21 bp):
ATATAATATATAAAATATATA
Found at i:14261899 original size:33 final size:31
Alignment explanation
Indices: 14261857--14261958 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 31
14261847 ATTTAATAGT
14261857 TTTATTTAAATATTTAAAATATAATTTATATA
1 TTTA-TTAAATATTTAAAATATAATTTATATA
* *
14261889 TTCTAATTAAAT-TTTATAA-ATAATTAATATTTA
1 TT-T-ATTAAATATTTAAAATATAATT--TATATA
*
14261922 TTTATTAAAAATATTTAAAATTTATATTTCATATA
1 TTTATT--AAATATTTAAAATATA-ATTT-ATATA
14261957 TT
1 TT
14261959 AAAATATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
31 9 0.16
32 9 0.16
33 18 0.33
34 8 0.15
35 8 0.15
36 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTATTAAATATTTAAAATATAATTTATATA
Found at i:14261950 original size:30 final size:30
Alignment explanation
Indices: 14261910--14261966 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14261900 TTTTATAAAT
*
14261910 AATTAATATTT-ATTTATTAAAAATATTTAA
1 AATTAATATTTCATATATT-AAAATATTTAA
*
14261940 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
14261967 AACAACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:14262197 original size:13 final size:13
Alignment explanation
Indices: 14262151--14262192 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
14262141 AAACTTCTCA
*
14262151 AAAACACTTTTCC
1 AAAACACTTTTTC
*
14262164 AAAACACTTTTTT
1 AAAACACTTTTTC
14262177 AAAACA-TTTTTC
1 AAAACACTTTTTC
14262189 AAAA
1 AAAA
14262193 GCATTACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAACACTTTTTC
Found at i:14263691 original size:48 final size:48
Alignment explanation
Indices: 14263618--14263763 Score: 197
Period size: 48 Copynumber: 3.0 Consensus size: 48
14263608 GTCATTAAGG
*
14263618 GATTCATTGATTTGGCTTTGGGCCATGATATTGGCACTTCAGGTGCGA
1 GATTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
* * *
14263666 GCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCAA
1 GATTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
* * *
14263714 GATAT-GTTGAGTTGGCTTCGGGTCATGATATTGGCACTT-AGTGTGCGA
1 GAT-TCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAG-GTGCGA
14263762 GA
1 GA
14263764 CTCCTGAGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.02
48 83 0.97
49 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.34
Consensus pattern (48 bp):
GATTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
Found at i:14280294 original size:6 final size:6
Alignment explanation
Indices: 14280283--14280315 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14280273 TTCTCTTATC
*
14280283 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
14280316 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:14280321 original size:18 final size:18
Alignment explanation
Indices: 14280283--14280322 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14280273 TTCTCTTATC
* **
14280283 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
14280301 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
14280319 TTTT
1 TTTT
14280323 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:14281890 original size:46 final size:45
Alignment explanation
Indices: 14281823--14281992 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
14281813 AACCCGCCCC
*
14281823 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* * * * *
14281869 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG--GGCTTCGCATCCA
*** *
14281915 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
14281962 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
14281993 AGATGCTCAA
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 64 0.63
47 34 0.34
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCA
Found at i:14282014 original size:46 final size:46
Alignment explanation
Indices: 14281825--14282014 Score: 119
Period size: 46 Copynumber: 4.1 Consensus size: 46
14281815 CCCGCCCCTA
* * ** * *
14281825 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCC-T
14281870 AAGTGAACTCGGACTCAACTCAACGAGTTC-GAATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAG-ATGCTC-A---ACCATC-CT
* * * * * *
14281920 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCTCAACCATCCT
14281964 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
14282010 AGTGA
1 AGTGA
14282015 CATGTCACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
44 10 0.09
45 2 0.02
46 60 0.54
47 29 0.26
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
Found at i:14297646 original size:18 final size:18
Alignment explanation
Indices: 14297623--14297669 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
14297613 TCATCTTTTA
*
14297623 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTAAC
* *
14297641 TTTATTTATCTTTTTAAC
1 TTTATTTTTATTTTTAAC
14297659 -TTACTTTTTAT
1 TTTA-TTTTTAT
14297670 CCTATTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTTAAC
Found at i:14313665 original size:23 final size:24
Alignment explanation
Indices: 14313603--14313690 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 24
14313593 AGACTCATGA
14313603 CAGCTC-ATAAAAGCTTACCGTTT
1 CAGCTCAATAAAAGCTTACCGTTT
** **
14313626 CAGCTCTTTGGAA-CTTACCGTTT
1 CAGCTCAATAAAAGCTTACCGTTT
* **
14313649 TAGCTCAAT-AAAGCTTAATG-TT
1 CAGCTCAATAAAAGCTTACCGTTT
*
14313671 CAGCTCAA-AAGAGCTTACCG
1 CAGCTCAATAAAAGCTTACCG
14313691 ACCATGACTC
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
22 19 0.39
23 27 0.55
24 3 0.06
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (24 bp):
CAGCTCAATAAAAGCTTACCGTTT
Found at i:14320656 original size:23 final size:23
Alignment explanation
Indices: 14320628--14320719 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
14320618 TTTTTAGCTC
* *
14320628 CCGTTTCAGCTTATTGGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
*
14320651 CCGTTTTAGCTCATTAGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
* *
14320674 CCATTTCAGCTCAATAGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
** **
14320697 ATG-TTCAGCTCAAAAGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
14320719 C
1 C
14320720 TGACCATGAC
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
22 18 0.31
23 40 0.69
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (23 bp):
CCGTTTCAGCTCATTAGAGCTTA
Found at i:14322734 original size:56 final size:54
Alignment explanation
Indices: 14322639--14322794 Score: 186
Period size: 56 Copynumber: 2.8 Consensus size: 54
14322629 TTGAAAACAT
* * * *
14322639 GATACATGCTAGGTCCGGGAGCTTCTGTAGCCCCGTTGAGAGGCATGTAATTATGT
1 GATACATGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGCATG--ATTATGA
* * * *
14322695 GGTACACGCTAGGTCTGGGAGCTTATGTAGCCCTATTGAGAGGCATGGTTATGA
1 GATACATGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGCATGATTATGA
* *
14322749 GATGCATGCTAGGTCTGGGTGCTCTTATGTAGCCCTGTTGAGAGGC
1 GATACATGCTAGGTCTGGGAG--CTTATGTAGCCCTGTTGAGAGGC
14322795 GTGCTATGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 22 0.26
56 63 0.74
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.29
Consensus pattern (54 bp):
GATACATGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGCATGATTATGA
Found at i:14327686 original size:42 final size:43
Alignment explanation
Indices: 14327586--14327742 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
14327576 AGCTCGTACA
* * *
14327586 ATGCCAACGTCCCAGA-TGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACATGAAATCAAATA-CG
*
14327629 ATGCCATTGTCCCAGACAG-GGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGACAGTGGTCTTACATGAAATCAAATACG
*
14327671 ATGCCAAAGTCCCAGACA-TGGTCTTACACAT-AAATCATAAGT-CG
1 ATGCCAATGTCCCAGACAGTGGTCTT--ACATGAAATCA-AA-TACG
*
14327715 ATGCCAATGTCCCAAAC-GTGGTCTTACA
1 ATGCCAATGTCCCAGACAGTGGTCTTACA
14327743 CGATAACACA
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
42 27 0.27
43 40 0.40
44 31 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGTGGTCTTACATGAAATCAAATACG
Found at i:14327737 original size:44 final size:42
Alignment explanation
Indices: 14327586--14327748 Score: 154
Period size: 44 Copynumber: 3.8 Consensus size: 42
14327576 AGCTCGTACA
* * **
14327586 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAAATC-AA-ATCG
*
14327629 ATGCCATTGTCCCAGACAG-GGTCTT--ACATGAAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACAT-AAATCAAAT-CG
* *
14327671 ATGCCAAAGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAAATCA-AA-TCG
*
14327715 ATGCCAATGTCCCAAACGTGGTCTTACACGATAA
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-ATAA
14327749 CACATATCGG
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.04
42 25 0.25
43 30 0.30
44 35 0.35
45 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACATAAATCAAATCG
Found at i:14327738 original size:86 final size:85
Alignment explanation
Indices: 14327586--14327742 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
14327576 AGCTCGTACA
* ** ** * *
14327586 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAGACAGGGT
1 ATGCCAAAGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCAATGTCCCAAACAGGGT
14327651 CTTACATGAAATCAAATACG
66 CTTACATGAAATCAAATACG
*
14327671 ATGCCAAAGTCCCAGACATGGTCTTACACATAAATCATAA-GTCGATGCCAATGTCCCAAAC-GT
1 ATGCCAAAGTCCCAGACATGGTCTTACACAT-AATCA-AATATCGATGCCAATGTCCCAAACAG-
14327734 GGTCTTACA
63 GGTCTTACA
14327743 CGATAACACA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 27 0.44
86 32 0.52
87 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAAAGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCAATGTCCCAAACAGGGT
CTTACATGAAATCAAATACG
Found at i:14343991 original size:18 final size:18
Alignment explanation
Indices: 14343967--14344068 Score: 102
Period size: 18 Copynumber: 5.8 Consensus size: 18
14343957 CCGTTTACGG
14343967 TACTATTCACGTATATGA
1 TACTATTCACGTATATGA
* * **
14343985 CACTATTCACATATACAA
1 TACTATTCACGTATATGA
14344003 TACTATTCACG--TAT-A
1 TACTATTCACGTATATGA
* * * *
14344018 CACTATTCATGTATACGG
1 TACTATTCACGTATATGA
*
14344036 TACTATTCACGTATATGG
1 TACTATTCACGTATATGA
14344054 TACTATTCACGTATA
1 TACTATTCACGTATA
14344069 CAGTAGTTGG
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
15 10 0.15
16 2 0.03
17 2 0.03
18 53 0.79
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (18 bp):
TACTATTCACGTATATGA
Found at i:14344026 original size:33 final size:33
Alignment explanation
Indices: 14343967--14344050 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
14343957 CCGTTTACGG
14343967 TACTATTCACGTATATGACACTATTCACATATACAA
1 TACTATTCACG--TAT-ACACTATTCACATATACAA
** **
14344003 TACTATTCACGTATACACTATTCATGTATACGG
1 TACTATTCACGTATACACTATTCACATATACAA
14344036 TACTATTCACGTATA
1 TACTATTCACGTATA
14344051 TGGTACTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.68
34 3 0.07
36 11 0.25
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (33 bp):
TACTATTCACGTATACACTATTCACATATACAA
Found at i:14344032 original size:51 final size:51
Alignment explanation
Indices: 14343968--14344070 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
14343958 CGTTTACGGT
*
14343968 ACTATTCACGTATATGACACTATTCACATATACAATACTATTCACGTATAC
1 ACTATTCACGTATACGACACTATTCACATATACAATACTATTCACGTATAC
* ** * ***
14344019 ACTATTCATGTATACGGTACTATTCACGTATATGGTACTATTCACGTATAC
1 ACTATTCACGTATACGACACTATTCACATATACAATACTATTCACGTATAC
14344070 A
1 A
14344071 GTAGTTGGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (51 bp):
ACTATTCACGTATACGACACTATTCACATATACAATACTATTCACGTATAC
Found at i:14350832 original size:2 final size:2
Alignment explanation
Indices: 14350825--14350854 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14350815 GATCACCGTA
14350825 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
14350855 TTAAAGCACA
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:14351280 original size:50 final size:50
Alignment explanation
Indices: 14351226--14351340 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 50
14351216 CTCTCTTACC
*
14351226 AAAATTTTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAA
1 AAAATATTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAA
* * * * *
14351276 AAAATATTTTTTTATATTGGTGCTGCTCATCTCTCTCTCTCCACCCGTAAA
1 AAAATATTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCAT-AA
*
14351327 AAAATATTTATTTA
1 AAAATATTTTTTTA
14351341 AAAACACATC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 42 0.74
51 15 0.26
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.40
Consensus pattern (50 bp):
AAAATATTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAA
Found at i:14355427 original size:25 final size:26
Alignment explanation
Indices: 14355373--14355444 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
14355363 TTACCGATTC
* * *
14355373 CAGCTCTTATGAGCTTAACGATACTT
1 CAGCTCGTATGAGCTTACCGTTACTT
*
14355399 -AGCTCGTATGAGTTTACCGTTA-TT
1 CAGCTCGTATGAGCTTACCGTTACTT
* *
14355423 CAGCTCGGAAGAGCTTACCGTT
1 CAGCTCGTATGAGCTTACCGTT
14355445 TATCTCTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (26 bp):
CAGCTCGTATGAGCTTACCGTTACTT
Found at i:14355460 original size:24 final size:25
Alignment explanation
Indices: 14355373--14355460 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
14355363 TTACCGATTC
* * *
14355373 CAGCTCTTATGAGCTTAACGATACTT
1 CAGCTCGTATGAGCTTACCGTTA-TT
*
14355399 -AGCTCGTATGAGTTTACCGTTATT
1 CAGCTCGTATGAGCTTACCGTTATT
* *
14355423 CAGCTCGGAAGAGCTTACCGTT-TAT
1 CAGCTCGTATGAGCTTACCGTTAT-T
*
14355448 C-TCTCGTATGAGC
1 CAGCTCGTATGAGC
14355461 ATACATGTAC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 12 0.24
25 38 0.76
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTTATT
Found at i:14366126 original size:22 final size:22
Alignment explanation
Indices: 14366093--14366143 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
14366083 TTACATGGAA
*
14366093 ATGGTTATATATGATATACGTATAC
1 ATGG-TATATATG--ATACATATAC
*
14366118 ATGGTATATATGATACATGTAC
1 ATGGTATATATGATACATATAC
14366140 ATGG
1 ATGG
14366144 GATTCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
24 8 0.33
25 4 0.17
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (22 bp):
ATGGTATATATGATACATATAC
Found at i:14374767 original size:50 final size:50
Alignment explanation
Indices: 14374690--14375081 Score: 331
Period size: 50 Copynumber: 7.8 Consensus size: 50
14374680 TCCGTTGTGT
* * *
14374690 GTCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATTCATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
* * ** * *
14374740 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTGACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--CTTAG
* * * * ** *
14374791 ATCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
* * ** **
14374841 TTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
** * * * * * * *
14374891 GTTGCATGTGTAGTAATAAGTACAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--CTTAG
* * * ** *
14374942 ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
* **
14374992 GTCACGTGTGTAGTACTAAGTGCAGG-TACTACGTGTACCAAATTAATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
* * * *
14375041 GTCACATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
14375082 AAGAGCTTCA
Statistics
Matches: 264, Mismatches: 71, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
49 45 0.17
50 146 0.55
51 70 0.27
52 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
Found at i:14374868 original size:101 final size:101
Alignment explanation
Indices: 14374691--14375080 Score: 263
Period size: 101 Copynumber: 3.9 Consensus size: 101
14374681 CCGTTGTGTG
* * * * * *
14374691 TCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATTCATAGGTCACATGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTAC
14374756 TAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
66 TAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
* ** * *
14374792 TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAATTCACGTGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTAC
* * ** ** ** *
14374857 TAAGTGTAGGCTACTACGTGTACTGGATTGA-TAGGT
66 TAAGTGCAGGCTACTATGCATACCCG-TTGACTTCGA
* * * * * * * ** ** *
14374893 TGCA--TGTGTAGTAATAAGTACAGGCTACTATGCGTACC-CATTAACTTCGATCACGTGTGTAG
1 T-CACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCA-TAAG-TCACATGTGTAG
** * * * * *
14374955 TACTAAGTGCAGGCTACTATGTGTATCAGATG-GTT-AA
63 TACTAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
* * * ** *
14374992 GTCACGTGTGTAGTACTAAGTGCAGG-TACTACGTGTACCAAATTAATAGGTCACATGTGTAGTA
1 -TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTA
* *
14375056 CTAAGTGCAGCCTACTATGCGTACC
65 CTAAGTGCAGGCTACTATGCATACC
14375081 AAAGAGCTTC
Statistics
Matches: 226, Mismatches: 54, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
99 39 0.17
100 45 0.20
101 136 0.60
102 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
Found at i:14374965 original size:151 final size:151
Alignment explanation
Indices: 14374690--14375080 Score: 604
Period size: 151 Copynumber: 2.6 Consensus size: 151
14374680 TCCGTTGTGT
* *
14374690 GTCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATTCATAGGTCACATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTAATAGGTCACATGTGTAGTA
* * *
14374755 CTAAGTGCAGGCTACTATGCATACCCGTTGACTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
14374820 CCACGTGTATCAGATGGTTAA
131 CCACGTGTATCAGATGGTTAA
* ** * **
14374841 TTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTGATAGGTTGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTAATAGGTCACATGTGTAGTA
* * *
14374906 ATAAGTACAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
* *
14374971 CTATGTGTATCAGATGGTTAA
131 CCACGTGTATCAGATGGTTAA
* *
14374992 GTCACGTGTGTAGTACTAAGTGCAGG-TACTACGTGTACCAAATTAATAGGTCACATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTAATAGGTCACATGTGTAGTA
*
14375056 CTAAGTGCAGCCTACTATGCGTACC
66 CTAAGTGCAGGCTACTATGCGTACC
14375081 AAAGAGCTTC
Statistics
Matches: 214, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
150 54 0.25
151 160 0.75
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTAATAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
CCACGTGTATCAGATGGTTAA
Found at i:14375304 original size:16 final size:16
Alignment explanation
Indices: 14375283--14375314 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14375273 AGAATGGAGT
14375283 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
14375299 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
14375315 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:14377555 original size:26 final size:26
Alignment explanation
Indices: 14377526--14377635 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
14377516 TGGTACAAAT
14377526 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
14377552 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
14377578 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
14377604 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
14377630 TGATAA
1 TGATAA
14377636 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:14379295 original size:27 final size:27
Alignment explanation
Indices: 14379254--14379366 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
14379244 GAGGAAGCGT
*
14379254 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
14379281 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
14379308 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
14379336 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
14379362 TCTGG
1 TCTGG
14379367 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:14379359 original size:54 final size:54
Alignment explanation
Indices: 14379252--14379366 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
14379242 TGGAGGAAGC
*
14379252 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
14379306 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
14379360 GTTCTGG
1 GTTCTGG
14379367 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:14383484 original size:2 final size:2
Alignment explanation
Indices: 14383477--14383531 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
14383467 GAGTTGTAAG
14383477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14383519 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
14383532 GAATAATTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14383999 original size:50 final size:50
Alignment explanation
Indices: 14383918--14384461 Score: 457
Period size: 50 Copynumber: 10.8 Consensus size: 50
14383908 TCCGTTGTGA
* * *
14383918 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * ** * * *
14383968 GTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * *
14384019 ATCACATGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* ** * *
14384069 TTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * * *
14384119 GTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* ** * * * * * * *
14384170 ATCATGTGTGTGGTACTAAGTGCAGGCTACTACGTATATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * *
14384220 GTCACGTGTGTAGTACTAAGTGCTGGCTACTATGTGTACCAGATTGGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * * * *
14384270 GTCGCATGTGTAGTAATAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* *** * * * * *
14384321 ATCTTGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
14384371 GTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATTAATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
*
14384421 GT-ATCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCA-CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
14384462 AAGAGCTTCG
Statistics
Matches: 377, Mismatches: 107, Indels: 20
0.75 0.21 0.04
Matches are distributed among these distances:
49 8 0.02
50 264 0.70
51 102 0.27
52 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:14384099 original size:101 final size:100
Alignment explanation
Indices: 14383919--14384461 Score: 432
Period size: 101 Copynumber: 5.4 Consensus size: 100
14383909 CCGTTGTGAG
* * * * * *
14383919 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
*
14383984 TAAGTGCAGGCTACTATGCATACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCATACCAGTT-ACTTCGA
* * * * **
14384020 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAATTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
* ** ** * *
14384085 TAAGTGCAGGCTACTACGTGTACCAGATT-GGTAGG
66 TAAGTGCAGGCTACTATGCATACCAG-TTACTTCGA
* * * * * * * ** * ** *
14384120 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTT-CGATCATGTGTGTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAAG-TCACATGTGTAGT
* * * * ** *
14384184 ACTAAGTGCAGGCTACTACGTATATCAGATGGTT-AA
64 ACTAAGTGCAGGCTACTATGCATACCAGTTACTTCGA
* * * *
14384220 GTCACGTGTGTAGTACTAAGTGCTGGCTACTATGTGTACCAGATTGG-TAGGTCGCATGTGTAGT
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTTAAGTCACATGTGTAGT
* * * *
14384284 AATAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGA
64 ACTAAGTGCAGGCTACTATGCATACCAGTT-ACTTCGA
** *
14384322 TCTTGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
*** * **
14384387 TAAGTGCAGGCTACTATATGTACCAGATTAATAGGTA
66 TAAGTGCAGGCTACTATGCATACCAG-TTACTTCG-A
* *
14384424 TCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
14384462 AAGAGCTTCG
Statistics
Matches: 347, Mismatches: 83, Indels: 25
0.76 0.18 0.05
Matches are distributed among these distances:
100 105 0.30
101 233 0.67
102 9 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCAGTTACTTCGA
Found at i:14384471 original size:151 final size:151
Alignment explanation
Indices: 14383917--14384460 Score: 872
Period size: 151 Copynumber: 3.6 Consensus size: 151
14383907 ATCCGTTGTG
*
14383917 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * ** *
14383982 ATTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTAAGTACAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
14384047 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
14384068 ATTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGGTAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
14384133 ACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTGGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
*
14384198 ACTACGTATATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
14384219 AGTCACGTGTGTAGTACTAAGTGCTGGCTACTATGTGTACCAGATTGGTAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
14384284 AATAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCTTGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
14384349 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* ** * **
14384370 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATTAATAGGTATCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
14384435 ACTAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
14384461 AAAGAGCTTC
Statistics
Matches: 362, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 362 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
ACTACGTGTATCAGATGGTTA
Found at i:14384684 original size:16 final size:16
Alignment explanation
Indices: 14384663--14384694 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14384653 AGAATGGAGT
14384663 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
14384679 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
14384695 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:14396192 original size:18 final size:18
Alignment explanation
Indices: 14396169--14396207 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14396159 CATCCTCAGA
*
14396169 CATAGTCATATGCGCATT
1 CATAGTCATATACGCATT
14396187 CATAGTCATATACGCATT
1 CATAGTCATATACGCATT
14396205 CAT
1 CAT
14396208 TGCATGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (18 bp):
CATAGTCATATACGCATT
Found at i:14400178 original size:2 final size:2
Alignment explanation
Indices: 14400171--14400202 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14400161 TGACATTCTC
14400171 AT 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 AT
14400203 CCCATACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14411675 original size:6 final size:6
Alignment explanation
Indices: 14411666--14411692 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14411656 TTACAGTTAC
14411666 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
14411693 TAAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:14412857 original size:2 final size:2
Alignment explanation
Indices: 14412850--14412875 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14412840 AATGTACTAA
14412850 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
14412876 TAAAATAATT
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:14415627 original size:28 final size:28
Alignment explanation
Indices: 14415574--14415657 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
14415564 CACTTTGTGC
14415574 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
14415603 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
14415631 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
14415658 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:14415669 original size:23 final size:24
Alignment explanation
Indices: 14415578--14415671 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
14415568 TTGTGCTATT
14415578 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
14415605 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
14415635 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
14415658 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
14415672 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:14415940 original size:20 final size:21
Alignment explanation
Indices: 14415862--14415944 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 21
14415852 GCTTTACTGA
*
14415862 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCG--TT
* **
14415885 TCAGGCACCTTGTGTGT-GCA
1 TCAGGCACCTTATGTGTCGTT
* **
14415905 GCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTTATGTGTCGTT
14415926 TCAGGCA-CTTATGTGTCGT
1 TCAGGCACCTTATGTGTCGT
14415945 ATTCTGATCA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 25 0.52
21 7 0.15
22 1 0.02
23 15 0.31
ACGTcount: A:0.14, C:0.23, G:0.28, T:0.35
Consensus pattern (21 bp):
TCAGGCACCTTATGTGTCGTT
Found at i:14418404 original size:11 final size:11
Alignment explanation
Indices: 14418388--14418412 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14418378 GGAGTGTTAA
14418388 TAAGTTAGTAT
1 TAAGTTAGTAT
14418399 TAAGTTAGTAT
1 TAAGTTAGTAT
14418410 TAA
1 TAA
14418413 AGTTTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (11 bp):
TAAGTTAGTAT
Found at i:14427785 original size:14 final size:15
Alignment explanation
Indices: 14427761--14427789 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14427751 TATTTACCAA
14427761 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
14427776 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
14427790 AGTCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:14434880 original size:55 final size:55
Alignment explanation
Indices: 14434758--14434881 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 55
14434748 TGCGACATAG
* * *
14434758 CCGTGGTCGAACCTGTCAAAACAACACGGGCGTGTGACACGCCCGTATGGAAGAA
1 CCGTGGTCGAACCTGTCAAAACAACACGGGCATGCGACACGCCCGTATGCAAGAA
* * * * * *
14434813 CCGTGTGT-GAACCTGTTAAAACAGCACGGGCATGCGACACGCTCGTGT-CTAGCA
1 CCGTG-GTCGAACCTGTCAAAACAACACGGGCATGCGACACGCCCGTATGCAAGAA
14434867 CTCGTGGTCGAACCT
1 C-CGTGGTCGAACCT
14434882 TTTAGATTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
54 6 0.11
55 49 0.86
56 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTCAAAACAACACGGGCATGCGACACGCCCGTATGCAAGAA
Found at i:14437402 original size:14 final size:13
Alignment explanation
Indices: 14437383--14437413 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
14437373 ATATTTAACC
14437383 TGTTCTTAATTAT
1 TGTTCTTAATTAT
14437396 GTGTTCTTAATTAT
1 -TGTTCTTAATTAT
14437410 TGTT
1 TGTT
14437414 TTGATATCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (13 bp):
TGTTCTTAATTAT
Found at i:14444575 original size:15 final size:15
Alignment explanation
Indices: 14444546--14444585 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14444536 AGAGAATGGG
*
14444546 AAAGAA-AAAATAAT
1 AAAGAATAAAAGAAT
14444560 AAAGAATAAAAGAAT
1 AAAGAATAAAAGAAT
14444575 AAAGAAATAAA
1 AAAG-AATAAA
14444586 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 11 0.48
16 6 0.26
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (15 bp):
AAAGAATAAAAGAAT
Found at i:14448393 original size:23 final size:24
Alignment explanation
Indices: 14448362--14448407 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14448352 AATTAATAAT
* * *
14448362 AATACAAAATATATATTATATTAA
1 AATACAAAAAATAGATCATATTAA
14448386 AATA-AAAAAATAGATCATATTA
1 AATACAAAAAATAGATCATATTA
14448408 TGAGTATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
AATACAAAAAATAGATCATATTAA
Found at i:14450497 original size:23 final size:22
Alignment explanation
Indices: 14450466--14450536 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
14450456 TCTTGGTTTC
14450466 AAGTGAAATTGTTTAAAAATAATT
1 AAGT-AAA-TGTTTAAAAATAATT
**
14450490 AAGTAAATACTTAAAATATAA--
1 AAGTAAATGTTTAAAA-ATAATT
*
14450511 AA-TAAA-GTTTAAAAAAAATT
1 AAGTAAATGTTTAAAAATAATT
14450531 AAGTAA
1 AAGTAA
14450537 TTAGTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
18 3 0.08
19 6 0.16
20 6 0.16
21 5 0.13
22 7 0.18
23 7 0.18
24 4 0.11
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.31
Consensus pattern (22 bp):
AAGTAAATGTTTAAAAATAATT
Found at i:14450889 original size:77 final size:77
Alignment explanation
Indices: 14450583--14450934 Score: 297
Period size: 77 Copynumber: 4.5 Consensus size: 77
14450573 TGTTTCTAAA
* * * * * **
14450583 AATTACTTAAATTAAGGAATAATTACTTAATACATGAAATGTTGCTTAAAACATGAAAAGATTTT
1 AATT-CTTAAATTATGAAAGAATTACTTAATACATAAAATGTTACTTAAAACATG--AAGAGGTT
* *
14450648 TTTAA-AAGTTAAGT
63 TCTAAGAAATTAAGT
* * * * * *
14450662 AATTCGTAAATTAT-AAACGAATCACTTAATACATGAAATGTTTC-T--AACATAAAAAAGGTTT
1 AATTCTTAAATTATGAAA-GAATTACTTAATACATAAAATGTTACTTAAAACAT-GAAGAGGTTT
*
14450723 CTAAGAAATTAAAT
64 CTAAGAAATTAAGT
* * * * *
14450737 AATTCTTAAATCATGTAA-AATTACTTAAAACATAAACGAATATTACGTAAAACATGAAGTA-GT
1 AATTCTTAAATTATGAAAGAATTACTTAATACAT-AA--AATGTTACTTAAAACATGAAG-AGGT
14450800 TTCTAAGAAATTAAGT
62 TTCTAAGAAATTAAGT
* * * *
14450816 TATTCTTAAATTATCAAAGAATTACTTAATACACAAAATGTTACTTAAAACATGAAGAGGTTTCC
1 AATTCTTAAATTATGAAAGAATTACTTAATACATAAAATGTTACTTAAAACATGAAGAGGTTTCT
14450881 AAGAAATTAAGT
66 AAGAAATTAAGT
* * * *
14450893 AATTCATAAAATTA-GAAAGTATTACTTAATATATAAACTGTT
1 AATTC-TTAAATTATGAAAGAATTACTTAATACATAAAATGTT
14450935 GGTTTTTAAA
Statistics
Matches: 219, Mismatches: 40, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
74 22 0.10
75 25 0.11
76 3 0.01
77 72 0.33
78 39 0.18
79 39 0.18
80 19 0.09
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (77 bp):
AATTCTTAAATTATGAAAGAATTACTTAATACATAAAATGTTACTTAAAACATGAAGAGGTTTCT
AAGAAATTAAGT
Found at i:14451069 original size:19 final size:19
Alignment explanation
Indices: 14451032--14451069 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14451022 TCATGGGATA
*
14451032 ATTACTTAATACATTAAAT
1 ATTACTTAATACATGAAAT
14451051 ATTACTTGAAT-CATGAAAT
1 ATTACTT-AATACATGAAAT
14451070 CGTGTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTACTTAATACATGAAAT
Found at i:14451101 original size:77 final size:78
Alignment explanation
Indices: 14451002--14451170 Score: 232
Period size: 77 Copynumber: 2.2 Consensus size: 78
14450992 ATTTTTCTAT
* * * * *
14451002 GAAATTAAGTAATTCCGAAATCATGGGATAATTACTTAATACATTAAATATTACTTGAATCATGA
1 GAAATTAAGTAATTCAGAAATCATGGAAGAATTACTTAATACATGAAACATTACTTGAATCATGA
14451067 AATCGTGTCTAAA
66 AATCGTGTCTAAA
* *
14451080 G-AATTAAGTAATTCATAAATCATGGAAGAATTACTTAATACATGAAACATTACTTGCATCATGA
1 GAAATTAAGTAATTCAGAAATCATGGAAGAATTACTTAATACATGAAACATTACTTGAATCATGA
* * *
14451144 AATGGTTTCTTAA
66 AATCGTGTCTAAA
*
14451157 GAAATTAAATAATT
1 GAAATTAAGTAATT
14451171 TCTAAACAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 67 0.85
78 12 0.15
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (78 bp):
GAAATTAAGTAATTCAGAAATCATGGAAGAATTACTTAATACATGAAACATTACTTGAATCATGA
AATCGTGTCTAAA
Found at i:14451192 original size:77 final size:77
Alignment explanation
Indices: 14451031--14451203 Score: 208
Period size: 77 Copynumber: 2.2 Consensus size: 77
14451021 ATCATGGGAT
* * *
14451031 AATTACTTAATACATTAAATATTACTTGAATCATGAAATCGTGTCTAAAGAATTAAGTAATTCAT
1 AATTACTTAATACATGAAACATTACTTGAATCATGAAATCGTGTCTAAAGAATTAAATAATTCAT
***
14451096 AAATCATGGAAG
66 AAATCACAAAAG
* * * *
14451108 AATTACTTAATACATGAAACATTACTTGCATCATGAAATGGTTTCTTAAGAAATTAAATAATTTC
1 AATTACTTAATACATGAAACATTACTTGAATCATGAAATCGTGTCTAAAG-AATTAAATAA-TTC
14451173 -TAAA-CAACAAAAG
64 ATAAATC-ACAAAAG
14451186 AA-TACTTAATACATGAAA
1 AATTACTTAATACATGAAA
14451204 TACTACTGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
77 61 0.73
78 19 0.23
79 3 0.04
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (77 bp):
AATTACTTAATACATGAAACATTACTTGAATCATGAAATCGTGTCTAAAGAATTAAATAATTCAT
AAATCACAAAAG
Found at i:14460915 original size:9 final size:9
Alignment explanation
Indices: 14460901--14460927 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
14460891 CATACTATAT
14460901 CCATTTCAA
1 CCATTTCAA
14460910 CCATTTCAA
1 CCATTTCAA
14460919 CCATTTCAA
1 CCATTTCAA
14460928 TACTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (9 bp):
CCATTTCAA
Done.