Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 52 of 172
Found at i:16964560 original size:29 final size:29
Alignment explanation
Indices: 16964527--16964585 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16964517 ATGAAAAAGG
16964527 TATAAATATGTTACGAGATGGTACAAGTA
1 TATAAATATGTTACGAGATGGTACAAGTA
16964556 TATAAATATGTTACGAGATGGTACAAGTA
1 TATAAATATGTTACGAGATGGTACAAGTA
16964585 T
1 T
16964586 GTACAACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (29 bp):
TATAAATATGTTACGAGATGGTACAAGTA
Found at i:16977291 original size:43 final size:44
Alignment explanation
Indices: 16977242--16977356 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 44
16977232 CCAGCATTTC
* * *
16977242 GCCTGCTAGGCTTGAAGCCCGATATCATT-TT-ACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATTATTCACCAGC-TTAAA
*
16977285 GCCTGCTAGGCCCGAAGCCCGATAAT-ATTATTCACCAGCTTAAA
1 GCCTGCTAGGCTCGAAGCCCGAT-ATCATTATTCACCAGCTTAAA
* *
16977329 GCTTGCTAGGCTCAAAGCCCGAATATCA
1 GCCTGCTAGGCTCGAAGCCCG-ATATCA
16977357 CCATTATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
43 24 0.40
44 28 0.47
45 8 0.13
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAGCCCGATATCATTATTCACCAGCTTAAA
Found at i:16977506 original size:28 final size:28
Alignment explanation
Indices: 16977475--16977574 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
16977465 TTGATATTTT
*
16977475 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
16977503 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * * * * * **
16977531 GTACACTGAGTACCATATTTGATTGCCTC
1 GCACACTAAGTGCCAT-TCTCAATATCTC
16977560 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
16977575 CATTTTGTCG
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 39 0.68
29 18 0.32
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:17006360 original size:12 final size:12
Alignment explanation
Indices: 17006343--17006369 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17006333 ATTCCGAAGT
17006343 ATATATATATAC
1 ATATATATATAC
17006355 ATATATATATAC
1 ATATATATATAC
17006367 ATA
1 ATA
17006370 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:17006898 original size:27 final size:28
Alignment explanation
Indices: 17006814--17006909 Score: 122
Period size: 27 Copynumber: 3.4 Consensus size: 28
17006804 CATGAGATTG
* * * *
17006814 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
17006843 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
17006871 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
17006898 GCACTGAGTGTG
1 GCACTAAGTGTG
17006910 TGGACTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.37
28 21 0.35
29 17 0.28
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:17006924 original size:29 final size:27
Alignment explanation
Indices: 17006814--17006924 Score: 80
Period size: 27 Copynumber: 4.0 Consensus size: 27
17006804 CATGAGATTG
** * *
17006814 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
17006843 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
17006871 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
* *
17006898 GCACTGAGTGTGTGGACTTAA-TATATA
1 GCACTAAGTGTG-CGACTTAATTATATA
17006925 CTTTTGAATC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 28 0.41
28 26 0.38
29 15 0.22
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:17010187 original size:33 final size:33
Alignment explanation
Indices: 17010150--17010216 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
17010140 ACTTGTTAAC
*
17010150 CCCAAAATCGTTACTTTTAGTCATTCGCTTTTA
1 CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
17010183 CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
1 CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
17010216 C
1 C
17010217 ACATTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.40
Consensus pattern (33 bp):
CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
Found at i:17014329 original size:7 final size:7
Alignment explanation
Indices: 17014300--17014351 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
17014290 ACCTCATTTG
17014300 ATCCCTC
1 ATCCCTC
**
17014307 ATCAATC
1 ATCCCTC
**
17014314 ATCAATC
1 ATCCCTC
17014321 ATCCCTC
1 ATCCCTC
17014328 ATCCCTC
1 ATCCCTC
17014335 ATCCCTC
1 ATCCCTC
17014342 ATCCCTC
1 ATCCCTC
17014349 ATC
1 ATC
17014352 ATTCTCTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCCCTC
Found at i:17016349 original size:28 final size:28
Alignment explanation
Indices: 17016301--17016356 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
17016291 ACAAAGTGCA
*
17016301 AATAACGATAAGCACCGAAGTGCAAATT
1 AATAACGATAAGCACCAAAGTGCAAATT
* *
17016329 AATAACGATATGCATCAAAGTGCAAATT
1 AATAACGATAAGCACCAAAGTGCAAATT
17016357 TTTACAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (28 bp):
AATAACGATAAGCACCAAAGTGCAAATT
Found at i:17019076 original size:15 final size:16
Alignment explanation
Indices: 17019056--17019085 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17019046 TAACAACTAA
17019056 TATATAAT-TATATTT
1 TATATAATATATATTT
17019071 TATATAATATATATT
1 TATATAATATATATT
17019086 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:17020731 original size:3 final size:3
Alignment explanation
Indices: 17020723--17020748 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17020713 TAAGGATCCC
17020723 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
17020749 TCCTACAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17023444 original size:18 final size:21
Alignment explanation
Indices: 17023403--17023443 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17023393 CACACACATC
17023403 TCTTCATTTCTTTCTTCCATTT
1 TCTTCATTTCTTTC-TCCATTT
17023425 TCTTCATTT-TTTC-CCATTT
1 TCTTCATTTCTTTCTCCATTT
17023444 CCTTTGTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTTCATTTCTTTCTCCATTT
Found at i:17025268 original size:53 final size:53
Alignment explanation
Indices: 17025085--17025291 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
17025075 ATTAGGGTTT
* * * * * *
17025085 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
17025139 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
17025194 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
17025247 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
17025292 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 45 0.37
54 38 0.31
55 40 0.33
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:17028588 original size:23 final size:23
Alignment explanation
Indices: 17028555--17028602 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
17028545 AGGCCGTGTT
*
17028555 CCCTACCCGGCTGAGACACATGG
1 CCCTACACGGCTGAGACACATGG
17028578 CCCTACACGGCTGAGACACATGG
1 CCCTACACGGCTGAGACACATGG
17028601 CC
1 CC
17028603 GTGTCTCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.25, T:0.12
Consensus pattern (23 bp):
CCCTACACGGCTGAGACACATGG
Found at i:17030248 original size:48 final size:48
Alignment explanation
Indices: 17030196--17030381 Score: 203
Period size: 48 Copynumber: 3.9 Consensus size: 48
17030186 TACGAAGTCT
*
17030196 CATATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
1 CATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
*
17030244 CATATCA-TCGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAGT-GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* *** ** * * *
17030292 CATATTAACACTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCT
1 CATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* * * * *
17030340 CATCTCTGATGTCAATGTCATGTCCCTGACATGGTCTTACAC
1 CATATCAG-TGCCAATGCCATGTCCCAGACATGGTCTTACAC
17030382 GGGATCTCAT
Statistics
Matches: 112, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 86 0.77
49 25 0.22
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
Found at i:17036823 original size:48 final size:48
Alignment explanation
Indices: 17036771--17036956 Score: 248
Period size: 48 Copynumber: 3.9 Consensus size: 48
17036761 TACGAAGTCT
** * *
17036771 CATATCAGTGCCGATGCCATGTCTCAGACATGGTCTTACATTGGAACA
1 CATATCAACGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCACA
* * *
17036819 CATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAACGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCACA
* * * **
17036867 CATATCAACGCCTATGCTATGTCGCAGACATGGTCTTACACTACCACA
1 CATATCAACGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCACA
17036915 CATATCAACGCCGATGCCATGT-TCCAGACATGGTCTTACACT
1 CATATCAACGCCGATGCCATGTCT-CAGACATGGTCTTACACT
17036957 AGCTCTCATC
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
CATATCAACGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCACA
Found at i:17036957 original size:48 final size:48
Alignment explanation
Indices: 17036771--17037004 Score: 247
Period size: 48 Copynumber: 4.9 Consensus size: 48
17036761 TACGAAGTCT
** * * * *
17036771 CATATCAGTGCCGATGCCATGTCTCAGACATGGTCTTACATTGGAACA
1 CATATCAACGCCGATGCCATGTCGCAGACATGGTCTTACACTAGCACA
* * * *
17036819 CATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAACGCCGATGCCATGTCGCAGACATGGTCTTACACTAGCACA
* * *
17036867 CATATCAACGCCTATGCTATGTCGCAGACATGGTCTTACACTACCACA
1 CATATCAACGCCGATGCCATGTCGCAGACATGGTCTTACACTAGCACA
* *
17036915 CATATCAACGCCGATGCCATGTTC-CAGACATGGTCTTACACTAGCTCT
1 CATATCAACGCCGATGCCATG-TCGCAGACATGGTCTTACACTAGCACA
* * * * *
17036963 CATCTCGGATGCCTATGCCATGTC-CTAGACATGGTCCTACAC
1 CATATC-AACGCCGATGCCATGTCGC-AGACATGGTCTTACAC
17037005 GGGATCTCAT
Statistics
Matches: 162, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
48 133 0.82
49 29 0.18
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CATATCAACGCCGATGCCATGTCGCAGACATGGTCTTACACTAGCACA
Found at i:17038841 original size:20 final size:20
Alignment explanation
Indices: 17038805--17038842 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17038795 TCACTTTTTA
*
17038805 AAAAAGAAAGAAGAAGAAGC
1 AAAAAGAAAGAAAAAGAAGC
17038825 AAAAAGAAA-ACAAAAGAA
1 AAAAAGAAAGA-AAAAGAA
17038843 AAAACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAGAAAAAGAAGC
Found at i:17038909 original size:17 final size:17
Alignment explanation
Indices: 17038877--17038925 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
17038867 AAAGAGGAAA
* *
17038877 AAATAAAATCAATAAAAT
1 AAATAAAA-AAATAAAAG
*
17038895 AAATAAACAAATAAAAG
1 AAATAAAAAAATAAAAG
*
17038912 ATATAAAAAAATAA
1 AAATAAAAAAATAA
17038926 TTATAATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAATAAAAG
Found at i:17042658 original size:13 final size:13
Alignment explanation
Indices: 17042642--17042667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17042632 ATGATTCAGG
17042642 TAGGAGATTAGCA
1 TAGGAGATTAGCA
17042655 TAGGAGATTAGCA
1 TAGGAGATTAGCA
17042668 AGAAAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
TAGGAGATTAGCA
Found at i:17048864 original size:30 final size:30
Alignment explanation
Indices: 17048828--17048902 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
17048818 ACGGCCTAAG
* *
17048828 ACACGGGCTTGTGTCTCAGCCGTGTCTGAC
1 ACACGGGCTTGTGTCTCAACCATGTCTGAC
** *
17048858 ACACGGGGGTGTGTCTCAACCATGTGTGAC
1 ACACGGGCTTGTGTCTCAACCATGTCTGAC
*
17048888 ACACGGCCTTGTGTC
1 ACACGGGCTTGTGTC
17048903 CCCTATAGGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (30 bp):
ACACGGGCTTGTGTCTCAACCATGTCTGAC
Found at i:17054620 original size:94 final size:95
Alignment explanation
Indices: 17054476--17054647 Score: 222
Period size: 94 Copynumber: 1.8 Consensus size: 95
17054466 AGAGCCAGTG
* *** *
17054476 TAAGACATGTCCGGGACATGCATCAGCCTCGAGATATTTAAGCCAATGTAAGACATGTTTAGGAC
1 TAAGACACGTCCGGGACATGCATCAGCCTCGAGATAGACAAGCCAATGTAAGACATGTCTAGGAC
*
17054541 AT-GCATCGGCTTTGAGACAAGAGCTAGCA
66 ATGGCATCAGCTTTGAGACAAGAGCTAGCA
* * * * *
17054570 TAAGACACGTCTGGGACATGCATCAGCCTCGCAG-TAGACAAGCTAGTGTAAGACTTGTCTGGGA
1 TAAGACACGTCCGGGACATGCATCAGCCTCG-AGATAGACAAGCCAATGTAAGACATGTCTAGGA
17054634 CATGGCATCAGCTT
65 CATGGCATCAGCTT
17054648 GTCGTGTGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
94 54 0.83
95 11 0.17
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (95 bp):
TAAGACACGTCCGGGACATGCATCAGCCTCGAGATAGACAAGCCAATGTAAGACATGTCTAGGAC
ATGGCATCAGCTTTGAGACAAGAGCTAGCA
Found at i:17054622 original size:48 final size:46
Alignment explanation
Indices: 17054423--17054645 Score: 207
Period size: 46 Copynumber: 4.7 Consensus size: 46
17054413 TGATATGTGT
* *
17054423 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTA-GAAA
* * **
17054469 GCCAGTGTAAGACATGTCCGGGACATGCATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG-TA-GAAA
* * * * * * * *
17054517 GCCAATGTAAGACATGTTTAGGACATGCATCGGCTTTGAG-ACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAGAA-A
** *
17054563 GCTAGCATAAGACACGTCTGGGACATGCATCAGCCTCGCAGTAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AGTAGA-AA
*
17054611 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGC
17054646 TTGTCGTGTG
Statistics
Matches: 140, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 64 0.46
47 4 0.03
48 62 0.44
49 9 0.06
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAGAAA
Found at i:17054722 original size:49 final size:48
Alignment explanation
Indices: 17054662--17054782 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 48
17054652 TGTGTTAGTG
* * *
17054662 TAAGACTTGTCTGGAACATGGCATCGACAC-CGATAGATGAAAGCCAGTA
1 TAAGACCTGTCTGG-ACATGGCATCGAC-CTCGATACATAAAAGCCAGTA
* * *
17054711 TAAGACCTGTCTGGGACATGGCATCGGCCTCGCTACATAAAAGCCAGTG
1 TAAGACCTGTCT-GGACATGGCATCGACCTCGATACATAAAAGCCAGTA
17054760 TAAGACCATGTCTAGGACATGGC
1 TAAGACC-TGTCT-GGACATGGC
17054783 GTTGGCATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 45 0.73
50 16 0.26
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (48 bp):
TAAGACCTGTCTGGACATGGCATCGACCTCGATACATAAAAGCCAGTA
Found at i:17060438 original size:27 final size:27
Alignment explanation
Indices: 17060408--17060486 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
17060398 CTCAACGAGT
17060408 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
* **
17060435 TCGGA---CTCA---AC-TC-AACGAGT
1 TCGGATGCCT-AGTTACATCTCACGAAC
17060455 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
17060482 TCGGA
1 TCGGA
17060487 CTCAACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 14 0.38
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:17060443 original size:47 final size:47
Alignment explanation
Indices: 17060384--17060555 Score: 244
Period size: 47 Copynumber: 3.7 Consensus size: 47
17060374 ATCCATAAAT
*
17060384 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17060431 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
17060478 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
17060524 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
17060556 TCAACCATCC
Statistics
Matches: 114, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 29 0.25
47 75 0.66
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17066448 original size:46 final size:47
Alignment explanation
Indices: 17066394--17066515 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
17066384 TGTGTGCTAG
* * **
17066394 TGTAAGACATGTCTGGGAAATGCATCAGCCA-CAATATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATCAAGACAAGAGCCAA
* * * * *
17066440 TGTAAGACATGTCTGGGACATCCATC-GCCATCGAGACAAGATCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCATCAAGACAAGAGCCAA
*
17066486 CGTAAGACATGTCTGGGACATGCATCAGCC
1 TGTAAGACATGTCTGGGACATGCATCAGCC
17066516 TCACGGTAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 4 0.06
46 56 0.89
47 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCATCAAGACAAGAGCCAA
Found at i:17066635 original size:49 final size:49
Alignment explanation
Indices: 17066576--17066698 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
17066566 GTCGTGTGCT
* *
17066576 AGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCAATACATGAAAGCC
* * * **
17066625 AGTGTAAGACCTATCTGAGACATGGCATCATCCTCGCTACATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCAATACATGAAAGCC
17066674 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACC-TGTCTGGGACATG
17066699 ACGTTGGCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.81
50 11 0.17
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCAATACATGAAAGCC
Found at i:17066647 original size:93 final size:96
Alignment explanation
Indices: 17066482--17066698 Score: 223
Period size: 93 Copynumber: 2.3 Consensus size: 96
17066472 GAGACAAGAT
* * * * * *
17066482 CTAGCGTAAGACATGTCTGGGACAT-GCATCAGCCTCACGGTAGATAAGCTAGTGTAAGACCTGT
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCAC-ATAGATAAGCCAGTGTAAGACCTAT
* * * * *
17066546 TTGGGACATGGCGTCAT-CTCG-T-CGTG-TG
65 CTGAGACATGGCATCATCCTCGCTACATGAAG
17066574 CTAGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CA-ATAGATGAGAGCCAGTGTAAGACCT
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCACATAGAT-A-AGCCAGTGTAAGACCT
17066637 ATCTGAGACATGGCATCATCCTCGCTACATGAAAG
63 ATCTGAGACATGGCATCATCCTCGCTACATG-AAG
*
17066672 CCAGTGTAAGACCATGTCTGGGACATG
1 CTAGTGTAAGACC-TGTCTGGGACATG
17066699 ACGTTGGCAT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
91 5 0.05
92 24 0.23
93 39 0.38
94 5 0.05
95 1 0.01
96 3 0.03
98 13 0.13
99 13 0.13
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (96 bp):
CTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCACATAGATAAGCCAGTGTAAGACCTATC
TGAGACATGGCATCATCCTCGCTACATGAAG
Found at i:17078081 original size:39 final size:40
Alignment explanation
Indices: 17077930--17078099 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
17077920 GGACTAAGAT
* * *
17077930 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
17077970 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
17078010 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
17078050 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
17078089 CCGAAGGCATT
1 CCGAAGGCATT
17078100 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:17079292 original size:52 final size:52
Alignment explanation
Indices: 17079207--17079310 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
17079197 CGTAATGGGA
*
17079207 AAAGGTCAGTGTAGTCGACCCCTGTAACATGGGAGACTTTGACTAATAAACT
1 AAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAACT
* *
17079259 AAAGGTCAGTGTAGTCGATCCCTGCAACTTGGGAGACTTTGACTAATAAACT
1 AAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAACT
17079311 GTACTAATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (52 bp):
AAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAACT
Found at i:17079651 original size:52 final size:52
Alignment explanation
Indices: 17079573--17079676 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
17079563 CGATTCTAGG
** *
17079573 ACTACCGTAATGTTTTGGGTCTAGCTATACATGCCATTTTATGTGATTACTT
1 ACTACCGTAATGCGTTGGGTCTAGCTATACATGCCATTTTATATGATTACTT
17079625 ACTACCGTAATGCGTTGGGTCTAGCTATACATGCCATTTTATATGATTACTT
1 ACTACCGTAATGCGTTGGGTCTAGCTATACATGCCATTTTATATGATTACTT
17079677 GATAGTGTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (52 bp):
ACTACCGTAATGCGTTGGGTCTAGCTATACATGCCATTTTATATGATTACTT
Found at i:17080195 original size:105 final size:105
Alignment explanation
Indices: 17080013--17080219 Score: 369
Period size: 105 Copynumber: 2.0 Consensus size: 105
17080003 ATCCGAAAAC
* *
17080013 ATGGGGCTACTGAATTTAAGGCTATGGATAGCGATGATGCCGAGCAAGCTGAATTTTGGCTGGAC
1 ATGGGGCTACTGAATTTAAGGCTACGGATAGCGACGATGCCGAGCAAGCTGAATTTTGGCTGGAC
*
17080078 AACACTATCCGGGTACTCGATGAGCTATCTTGTACACAAA
66 AACACTATCCGGGTACTCAATGAGCTATCTTGTACACAAA
* *
17080118 ATGGGGCTGCTGAATTTAAGGCTACGGATAGCGACGATGCCGAGCAAGCTGAATTTTGGTTGGAC
1 ATGGGGCTACTGAATTTAAGGCTACGGATAGCGACGATGCCGAGCAAGCTGAATTTTGGCTGGAC
17080183 AACACTATCCGGGTACTCAATGAGCTATCTTGTACAC
66 AACACTATCCGGGTACTCAATGAGCTATCTTGTACAC
17080220 CCGATGAATG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (105 bp):
ATGGGGCTACTGAATTTAAGGCTACGGATAGCGACGATGCCGAGCAAGCTGAATTTTGGCTGGAC
AACACTATCCGGGTACTCAATGAGCTATCTTGTACACAAA
Found at i:17086206 original size:39 final size:40
Alignment explanation
Indices: 17086055--17086224 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
17086045 GGACTAAGAT
* * *
17086055 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
17086095 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
17086135 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
17086175 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
17086214 CCGAAGGCATT
1 CCGAAGGCATT
17086225 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:17086244 original size:79 final size:80
Alignment explanation
Indices: 17086077--17086259 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
17086067 GTGCGAGATA
* * * *
17086077 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
17086142 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
17086157 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
17086221 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
17086236 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
17086260 TACGTGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:17086434 original size:97 final size:97
Alignment explanation
Indices: 17086268--17086460 Score: 368
Period size: 97 Copynumber: 2.0 Consensus size: 97
17086258 GGTACGTGAA
*
17086268 TTGGTAACGAATGAGCTTGCTGTAAAATTCCAGTGAATACTCGAAAAACATCCCAATATGGGGAT
1 TTGGTAACGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATGGGGAT
17086333 ATGTTACGTATGTGTTGAATTAAATCGAGCCT
66 ATGTTACGTATGTGTTGAATTAAATCGAGCCT
*
17086365 TTGGTAATGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATGGGGAT
1 TTGGTAACGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATGGGGAT
17086430 ATGTTACGTATGTGTTGAATTAAATCGAGCC
66 ATGTTACGTATGTGTTGAATTAAATCGAGCC
17086461 CTTACAAATA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (97 bp):
TTGGTAACGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATGGGGAT
ATGTTACGTATGTGTTGAATTAAATCGAGCCT
Found at i:17102590 original size:93 final size:93
Alignment explanation
Indices: 17102478--17102648 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
17102468 GCCCCTAAGT
* * *
17102478 GAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTCGA-ACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17102542 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
17102571 GAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCCGTAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17102636 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17102649 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17102642 original size:46 final size:46
Alignment explanation
Indices: 17102471--17102643 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
17102461 GTAACCCGCC
* * *
17102471 CCTAAGTGAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCAT
* *
17102516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC-A-TTCGCAT
* * *
17102566 -CTCA-CGAACTCGGACTCAACTCAACAAGTTCGA-ACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCAT
*
17102609 CCGTAAGTGAACTTGGACTCAACTCAACGAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCG
17102644 GATGCTCAAC
Statistics
Matches: 105, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.54
47 25 0.24
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCAT
Found at i:17102664 original size:46 final size:46
Alignment explanation
Indices: 17102471--17102664 Score: 150
Period size: 46 Copynumber: 4.2 Consensus size: 46
17102461 GTAACCCGCC
* * * *
17102471 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCAACAT
17102516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * * *** *
17102566 -CTCA-CGAACTCGGACTCAACTCAACAAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
*
17102609 CCGTAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
17102657 CCT-AGTGA
1 CCTAAGTGA
17102665 CATGTCACTT
Statistics
Matches: 115, Mismatches: 21, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 7 0.06
46 64 0.56
47 28 0.24
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:17110173 original size:93 final size:93
Alignment explanation
Indices: 17110065--17110235 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
17110055 GCCCCTAAGT
* ** *
17110065 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
17110130 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
17110158 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
17110223 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17110236 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17110223 original size:46 final size:45
Alignment explanation
Indices: 17110058--17110230 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
17110048 GTAACCCGCC
* * ** *
17110058 CCTAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
* *
17110103 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCACAT
* * *
17110153 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
17110196 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCG
17110231 GATGCTCAAC
Statistics
Matches: 105, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.54
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
Found at i:17112206 original size:42 final size:41
Alignment explanation
Indices: 17112125--17112207 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
17112115 TAGGTACAGA
* * *
17112125 CTTCACACGATTGGGACACACGCCCGTGCTTGAGGCCGTGTC
1 CTTCACACGACTGAGACACACGCCCGTGCTT-AGCCCGTGTC
*
17112167 CTTCACATGACTGAGACACACGCCCGTGTCTCT-GCCCGTGT
1 CTTCACACGACTGAGACACACGCCCGTG-CT-TAGCCCGTGT
17112208 GCTCAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 32 0.91
43 2 0.06
44 1 0.03
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.23
Consensus pattern (41 bp):
CTTCACACGACTGAGACACACGCCCGTGCTTAGCCCGTGTC
Found at i:17122481 original size:43 final size:43
Alignment explanation
Indices: 17122393--17122531 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
17122383 GTGATTACAG
* *
17122393 GTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTATAT
1 GTAAGACCATGTCTAGGACATTGGCATCGTAATGAGATTATAT
* *
17122436 GTATGACCATGTCTAGGACATTGGCATCGTTAAT-CGATT-TCAT
1 GTAAGACCATGTCTAGGACATTGGCATCG-TAATGAGATTAT-AT
* * * * * * *
17122479 GTAAGACCCTGTTTAGGACAATGGCTTCG-ATATGTGATAACAT
1 GTAAGACCATGTCTAGGACATTGGCATCGTA-ATGAGATTATAT
17122522 GTAAGACCAT
1 GTAAGACCAT
17122532 ATTTGAGATA
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 71 0.91
44 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACATTGGCATCGTAATGAGATTATAT
Found at i:17131506 original size:43 final size:42
Alignment explanation
Indices: 17131432--17131552 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
17131422 CAAAAATCTC
* * *
17131432 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
*
17131474 ATATTGATG-CAACAGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAA
* *
17131517 ATACGATGCCAACGTCCCAGATGTGGTCTTATACGA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGA
17131553 TAACACATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.45
43 35 0.52
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:17133335 original size:71 final size:71
Alignment explanation
Indices: 17133219--17133361 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
17133209 AGAATTCCTT
17133219 TGCTTTCTCTGTTTCTTTTATATGAAAATAGACTCATTAAGCTTTAATTT-ACCATCTCATTCAA
1 TGCTTTCTCTGTTTCTTTTATATGAAAATAGACTCATTAAGCTTTAATTTCA-CATCTCATTCAA
17133283 CCTCTAA
65 CCTCTAA
*
17133290 TGCTTTCTCTTTTTCTTTTATATGAAAATAGACTCATTAAGCTTTAATTTCACATCTCATTCAAC
1 TGCTTTCTCTGTTTCTTTTATATGAAAATAGACTCATTAAGCTTTAATTTCACATCTCATTCAAC
17133355 CTCTAA
66 CTCTAA
17133361 T
1 T
17133362 TAAATTCCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 69 0.99
72 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (71 bp):
TGCTTTCTCTGTTTCTTTTATATGAAAATAGACTCATTAAGCTTTAATTTCACATCTCATTCAAC
CTCTAA
Found at i:17140930 original size:39 final size:39
Alignment explanation
Indices: 17140834--17140959 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
17140824 GACTTAATGT
* *
17140834 CTAGCAGGCCTCGTGCCGATAATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* *
17140873 CTAGTAGGCCTCGTGCCGGTGATAAATTTAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* * * * *
17140912 CTAGCAGGCCTCGTGCCGGTGTTAAGTCCGGGTTTATAT
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
17140951 CTAGCAGGC
1 CTAGCAGGC
17140960 AAAATGCCGG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:17148485 original size:83 final size:83
Alignment explanation
Indices: 17148362--17149416 Score: 1964
Period size: 83 Copynumber: 12.8 Consensus size: 83
17148352 AACCCAAGTA
* * * * *
17148362 CCTTCGGGATTTAG-CCGGATATAGC-A--ACTCGCACACATGCCTTCGGGTCTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148423 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148441 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148506 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148524 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148589 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148607 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148672 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148690 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148755 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148773 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148838 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148856 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17148921 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17148939 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17149004 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17149022 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17149087 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17149105 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17149170 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17149188 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17149253 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
17149271 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
17149336 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
* * * *
17149354 CCTTCGGGACTTAGCCCGGATATGGTC-ACTA---GCACAAATGCCTTCAGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGAT
17149415 AT
65 AT
17149417 CATCCGAATA
Statistics
Matches: 962, Mismatches: 9, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
79 13 0.01
80 40 0.04
81 1 0.00
83 907 0.94
84 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (83 bp):
CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
TAGTCACTAGCACAAATG
Found at i:17153184 original size:27 final size:27
Alignment explanation
Indices: 17153154--17153331 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
17153144 ATATTGAGCC
* *
17153154 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
17153181 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
17153208 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
17153236 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
17153263 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
17153290 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
17153317 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17153332 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17153293 original size:82 final size:81
Alignment explanation
Indices: 17153175--17153330 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17153165 TGCTATATAA
* * *
17153175 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
17153240 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17153257 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
17153321 CACTTAGTGC
65 CACTTAGTGC
17153331 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17155100 original size:84 final size:84
Alignment explanation
Indices: 17154959--17155114 Score: 303
Period size: 84 Copynumber: 1.9 Consensus size: 84
17154949 TTAAAACACG
*
17154959 AAAATAAATTTTTGGCTCGATAATGTGGTCTCGAAACCACATTCCGACCAGGGTCTAATTTGGGT
1 AAAATAAATTTTTGGCTCGATAATGTGGTCTCGAAACCACATTCCGACCAGGGTCTAATTTGGGC
17155024 TGTCACAACTCTCCCCCAC
66 TGTCACAACTCTCCCCCAC
17155043 AAAATAAATTTTTGGCTCGATAATGTGGTCTCGAAACCACATTCCGACCAGGGTCTAATTTGGGC
1 AAAATAAATTTTTGGCTCGATAATGTGGTCTCGAAACCACATTCCGACCAGGGTCTAATTTGGGC
17155108 TGTCACA
66 TGTCACA
17155115 CTTAGTATTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (84 bp):
AAAATAAATTTTTGGCTCGATAATGTGGTCTCGAAACCACATTCCGACCAGGGTCTAATTTGGGC
TGTCACAACTCTCCCCCAC
Found at i:17160592 original size:35 final size:35
Alignment explanation
Indices: 17160533--17160605 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
17160523 TGGTGAATGC
* *
17160533 TGGGGAAAAAGTAATAATCAAGCTTGTTATAGTTG
1 TGGGGAAAAAGTAATAATCAAGCTTGTTACAATTG
* *
17160568 TGGGGAAAGAGTAATAA-CTGAGCTTGTTACAATTG
1 TGGGGAAAAAGTAATAATC-AAGCTTGTTACAATTG
17160603 TGG
1 TGG
17160606 TTCACGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (35 bp):
TGGGGAAAAAGTAATAATCAAGCTTGTTACAATTG
Found at i:17165136 original size:220 final size:220
Alignment explanation
Indices: 17164754--17165195 Score: 875
Period size: 220 Copynumber: 2.0 Consensus size: 220
17164744 TACTAAGCCC
17164754 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
1 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
17164819 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
66 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
*
17164884 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAATAAATG
131 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
17164949 AAATCTGTAGACTTGTATGAGAGTT
196 AAATCTGTAGACTTGTATGAGAGTT
17164974 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
1 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
17165039 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
66 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
17165104 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
131 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
17165169 AAATCTGTAGACTTGTATGAGAGTT
196 AAATCTGTAGACTTGTATGAGAGTT
17165194 AT
1 AT
17165196 GAAAATTCAG
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 221 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (220 bp):
ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
AAATCTGTAGACTTGTATGAGAGTT
Found at i:17169360 original size:12 final size:12
Alignment explanation
Indices: 17169343--17169373 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17169333 TCCTAAAATT
17169343 AATTTCTATTGA
1 AATTTCTATTGA
17169355 AATTTCTATTGA
1 AATTTCTATTGA
17169367 AATTTCT
1 AATTTCT
17169374 TGATAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (12 bp):
AATTTCTATTGA
Found at i:17171256 original size:109 final size:109
Alignment explanation
Indices: 17171142--17171377 Score: 472
Period size: 109 Copynumber: 2.2 Consensus size: 109
17171132 TAGAATTTAA
17171142 TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
1 TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
17171207 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
66 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
17171251 TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
1 TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
17171316 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
66 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
17171360 TTTTTTTAAATTTTAAAA
1 TTTTTTTAAATTTTAAAA
17171378 TTTCACACCA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 127 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (109 bp):
TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
Found at i:17171260 original size:59 final size:59
Alignment explanation
Indices: 17171192--17171371 Score: 147
Period size: 59 Copynumber: 3.2 Consensus size: 59
17171182 GTTAAGATTA
*
17171192 TTTTATTAAATTCAGGTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
1 TTTTTTTAAATTCAGGTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
** * * *
17171251 TTTTTTTAAATT----TTA---A-AAATTAAGTATAATT-GTTA-ATACGGT-T-AA--GA-T
1 TTTTTTTAAATTCAGGTTATTTACAAA--AA-TATTTTTAATTATAT-TGTTATCAAGTGAGT
17171299 TATTTTATTAAATTCAGGTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
1 T-TTTT-TTAAATTCAGGTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
17171360 TTTTTTTAAATT
1 TTTTTTTAAATT
17171372 TTAAAATTTC
Statistics
Matches: 89, Mismatches: 11, Indels: 42
0.63 0.08 0.30
Matches are distributed among these distances:
48 2 0.02
49 6 0.07
50 7 0.08
51 5 0.06
52 4 0.04
53 7 0.08
54 8 0.09
55 8 0.09
56 7 0.08
57 4 0.04
58 5 0.06
59 18 0.20
60 6 0.07
61 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (59 bp):
TTTTTTTAAATTCAGGTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
Found at i:17171421 original size:109 final size:109
Alignment explanation
Indices: 17171142--17171421 Score: 307
Period size: 109 Copynumber: 2.6 Consensus size: 109
17171132 TAGAATTTAA
** * *** * * * *
17171142 TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
1 TTTTTTTAAATTTTAAAAATTAACAATAAATGTTAATACAAATAAAAATATATTATAAAATTCAG
17171207 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
66 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
** * *** * * * *
17171251 TTTTTTTAAATTTTAAAAATTAAGTATAATTGTTAATACGGTTAAGATTATTTTATTAAATTCAG
1 TTTTTTTAAATTTTAAAAATTAACAATAAATGTTAATACAAATAAAAATATATTATAAAATTCAG
17171316 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
66 GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
*
17171360 TTTTTTTAAATTTTAAAATTTCACACCAATAAAT-TTAA-A-AAATAAAAATAGTATTA-AAAAT
1 TTTTTTTAAATTTTAAAAATT-A-A-CAATAAATGTTAATACAAATAAAAATA-TATTATAAAAT
17171421 T
62 T
17171422 GAATATAAAT
Statistics
Matches: 156, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
109 140 0.90
110 6 0.04
111 5 0.03
112 5 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (109 bp):
TTTTTTTAAATTTTAAAAATTAACAATAAATGTTAATACAAATAAAAATATATTATAAAATTCAG
GTTATTTACAAAAATATTTTTAATTATATTGTTATCAAGTGAGT
Found at i:17176039 original size:28 final size:28
Alignment explanation
Indices: 17176008--17176103 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 28
17175998 ATTTATTTTA
17176008 TATATCTAACTAAAAATAATTTAAAAAC
1 TATATCTAACTAAAAATAATTTAAAAAC
* * * * *
17176036 TATAAAAATATTCAAAAATAATAATAATTCAAAAAA
1 --T----ATA-TC-TAACTAAAAATAATTTAAAAAC
*
17176072 TATATCTAACCAAAAATAATTTAAAAAC
1 TATATCTAACTAAAAATAATTTAAAAAC
17176100 TATA
1 TATA
17176104 AAAATATTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
28 20 0.41
29 2 0.04
30 4 0.08
34 4 0.08
35 2 0.04
36 17 0.35
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (28 bp):
TATATCTAACTAAAAATAATTTAAAAAC
Found at i:17176059 original size:19 final size:20
Alignment explanation
Indices: 17176018--17176075 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
17176008 TATATCTAAC
*
17176018 TAAAAATAATTTAAAAACTA
1 TAAAAATAATTCAAAAACTA
17176038 TAAAAAT-ATTC-AAAA--A
1 TAAAAATAATTCAAAAACTA
* *
17176054 TAATAATAATTCAAAAAATA
1 TAAAAATAATTCAAAAACTA
17176074 TA
1 TA
17176076 TCTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 7 0.22
17 4 0.12
18 8 0.25
19 3 0.09
20 10 0.31
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAATAATTCAAAAACTA
Found at i:17176061 original size:16 final size:17
Alignment explanation
Indices: 17176018--17176070 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
17176008 TATATCTAAC
*
17176018 TAAAAATAATTTAAAAA
1 TAAAAATAATTCAAAAA
17176035 CTATAAAA-ATATTCAAAAA
1 -TA-AAAATA-ATTCAAAAA
*
17176054 TAATAATAATTCAAAAA
1 TAAAAATAATTCAAAAA
17176071 ATATATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.40
18 6 0.20
19 12 0.40
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAATAATTCAAAAA
Found at i:17176969 original size:43 final size:43
Alignment explanation
Indices: 17176912--17177001 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
17176902 ATGGGATCCA
* * *
17176912 TCCCGATCTTTTATGATCGACCAAAGCAGCTGGTCGATCTCTT
1 TCCCAATCCTTTATGATCGACCAAAGCAGCTAGTCGATCTCTT
*
17176955 TCCCAATCCTTTATGATCGACCAAAGTAGCTAGTCGATCTCTT
1 TCCCAATCCTTTATGATCGACCAAAGCAGCTAGTCGATCTCTT
17176998 TCCC
1 TCCC
17177002 TAGTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (43 bp):
TCCCAATCCTTTATGATCGACCAAAGCAGCTAGTCGATCTCTT
Found at i:17189568 original size:35 final size:35
Alignment explanation
Indices: 17189522--17189591 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
17189512 AATTTTCAGT
17189522 TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
1 TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
*
17189557 TTTCCCATTTTTCCAATAAAGGCCACCAATTTGCG
1 TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
17189592 ATATCTTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
Found at i:17190771 original size:27 final size:27
Alignment explanation
Indices: 17190738--17190854 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
17190728 TACTAAAATG
**
17190738 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17190765 CCTTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17190792 CCCTCGATTTACAAAATTACCATTGTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17190819 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
17190846 CCCTCGATT
1 CCCTCGATT
17190855 GTGAAATTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:17190800 original size:54 final size:54
Alignment explanation
Indices: 17190738--17190854 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 54
17190728 TACTAAAATG
** * * * *
17190738 CCCTCGATTTGTAGAATTACCATTTTACCTTC-GATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTGTACCCTCAG-TTTACAAAATTACCGTTTTA
17190792 CCCTCGATTTACAAAATTACCATTGTACCCTCAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTGTACCCTCAGTTTACAAAATTACCGTTTTA
17190846 CCCTCGATT
1 CCCTCGATT
17190855 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTGTACCCTCAGTTTACAAAATTACCGTTTTA
Found at i:17190924 original size:53 final size:53
Alignment explanation
Indices: 17190858--17190980 Score: 140
Period size: 53 Copynumber: 2.3 Consensus size: 53
17190848 CTCGATTGTG
* * * *
17190858 AAATTACTGAAATACCCTTGTAGGATAGAATTACCAAAATACCCCTAGTCTGTA
1 AAATTACAGAAATACCCTAGTAGG-TAAAATTACCAAAATACCCCTAATCTGTA
* ** * *
17190912 AAATTAC-CAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAATTTGTA
1 AAATTACAGAAATA-CCCTAGTAGGTAAAATTACCAAAATACCCCTAATCTGTA
17190965 AAATTACAGAAATACC
1 AAATTACAGAAATACC
17190981 ATTGGTTTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 39 0.67
54 19 0.33
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (53 bp):
AAATTACAGAAATACCCTAGTAGGTAAAATTACCAAAATACCCCTAATCTGTA
Found at i:17190929 original size:26 final size:27
Alignment explanation
Indices: 17190886--17191037 Score: 177
Period size: 27 Copynumber: 5.7 Consensus size: 27
17190876 TGTAGGATAG
*
17190886 AATTACCAAAATACCCCTAGTCTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
17190913 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
17190939 AATTATCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
17190966 AATTA-CAGAAATACCATTGGTTTGTGA
1 AATTACCA-AAATACCCCTAGTTTGTAA
* *
17190993 AATTACCGAAATA-CCCTCAATTTG-AA
1 AATTACCAAAATACCCCT-AGTTTGTAA
17191019 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
17191038 ATTTACAAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
26 42 0.40
27 62 0.59
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:17190970 original size:80 final size:80
Alignment explanation
Indices: 17190886--17191041 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
17190876 TGTAGGATAG
* * *
17190886 AATTACCA-AAATACCCCTAGTCTGTAAAATTACC-AAATACCC-CTAGTTTGTAAAATTATCAA
1 AATTA-CAGAAATACCACTAGTCTGTAAAATTACCGAAATACCCTC-AATTTG-AAAATTACCAA
17190948 AATACCCCTAATTTGTAA
63 AATACCCCTAATTTGTAA
* * * *
17190966 AATTACAGAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGAAAATTACCAAAAT
1 AATTACAGAAATACCACTAGTCTGTAAAATTACCGAAATACCCTCAATTTGAAAATTACCAAAAT
17191031 ACCCCTAATTT
66 ACCCCTAATTT
17191042 ACAAAACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
79 2 0.03
80 50 0.76
81 13 0.20
82 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AATTACAGAAATACCACTAGTCTGTAAAATTACCGAAATACCCTCAATTTGAAAATTACCAAAAT
ACCCCTAATTTGTAA
Found at i:17191058 original size:80 final size:80
Alignment explanation
Indices: 17190912--17191060 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
17190902 CTAGTCTGTA
* * ** * *
17190912 AAATTACCAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTACAGAAA
1 AAATTACCAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAAAAA
17190977 TACCATTGGTTTGTG
66 TACCATTGGTTTGTG
*
17190992 AAATTACCGAAATA-CCCTCAATTTG-AAAATTACCAAAATACCCCTAATTTACAAAACTATAAA
1 AAATTACC-AAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAAA
17191055 AATACC
64 AATACC
17191061 CTTAACTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 50 0.83
81 10 0.17
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (80 bp):
AAATTACCAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAAAAA
TACCATTGGTTTGTG
Found at i:17191112 original size:27 final size:26
Alignment explanation
Indices: 17191069--17191124 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
17191059 CCCTTAACTT
*
17191069 TTTAAAAATTATAGAAATATCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
17191095 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
17191122 TTT
1 TTT
17191125 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:17191242 original size:27 final size:27
Alignment explanation
Indices: 17191165--17191242 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
17191155 AAATGACTAA
* *
17191165 AATACCCTT-AATAGGTAAAAAGACCGT
1 AATACCCTTGTAT-GGTAAAATGACCGT
* * *
17191192 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCTTGTATGGTAAAATGACCGT
17191219 AATACCCTTGTATGGTAAAATGAC
1 AATACCCTTGTATGGTAAAATGAC
17191243 GAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCTTGTATGGTAAAATGACCGT
Found at i:17192090 original size:25 final size:25
Alignment explanation
Indices: 17192050--17192121 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
17192040 GGAGGAAGTG
*
17192050 CAAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* *
17192075 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
17192100 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
17192122 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:17192134 original size:24 final size:25
Alignment explanation
Indices: 17192052--17192134 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
17192042 AGGAAGTGCA
* *
17192052 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
17192076 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
17192101 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
17192125 AAAAGAGGCT
1 AAAAGAGGCT
17192135 AGTCCTCCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
24 16 0.31
25 36 0.69
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:17192448 original size:33 final size:29
Alignment explanation
Indices: 17192373--17192450 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
17192363 TGATTTATGA
* * *
17192373 AAAGGCTCTGGCCCAATAACTGTTAAACG
1 AAAGGCTTTGGCCCAGTAAATGTTAAACG
*
17192402 AAAGGCTTCGGCCCAGTAAATGTATAAACTG
1 AAAGGCTTTGGCCCAGTAAATGT-TAAAC-G
17192433 AATAGGGCTTTGGCCCAG
1 AA-A-GGCTTTGGCCCAG
17192451 ATTGTACTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 19 0.47
30 5 0.12
31 3 0.08
32 1 0.03
33 12 0.30
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (29 bp):
AAAGGCTTTGGCCCAGTAAATGTTAAACG
Found at i:17194696 original size:27 final size:27
Alignment explanation
Indices: 17194666--17194748 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
17194656 ATCGAGACTA
*
17194666 TAAACACGGGGTAGTTTACCGGGACAG
1 TAAACACGGGGTAGTCTACCGGGACAG
* * * * *
17194693 TAAATATGGGGTAATCTACTGGAACAG
1 TAAACACGGGGTAGTCTACCGGGACAG
** *
17194720 TAAACACGATGTAGTCTACCAGGACAG
1 TAAACACGGGGTAGTCTACCGGGACAG
17194747 TA
1 TA
17194749 TAAATGGGGA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (27 bp):
TAAACACGGGGTAGTCTACCGGGACAG
Found at i:17198554 original size:270 final size:270
Alignment explanation
Indices: 17198073--17198638 Score: 810
Period size: 270 Copynumber: 2.1 Consensus size: 270
17198063 GTGCAGACTT
* * * * * * * * *
17198073 CACACGGCCTAAACACAAGCCCCTGTCCTTTCACACGGCCTTAACAAGCCTGTGGCGCAACCCGT
1 CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACAAGCCCGTGGCACAACCCAT
*
17198138 GTGCAAAAACCTAAGTATTCTATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
66 GTGCAAAAACCTAAGTATTATATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
* * ** *
17198203 CTAGGCCGTGCCCTTCACACGGCTGAGACACACAACTGTGTCTCTACCCGTGTGATCCTTACCAT
131 CTAGGACGTGCCCTCCACACAACTAAGACACACAACTGTGTCTCTACCCGTGTGATCCTTACCAT
*
17198268 GCATTTTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTGA
196 GCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTGA
*
17198333 TCGTGTGTCA
261 CCGTGTGTCA
*
17198343 CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACACGCCCGTGGCACAACCCAT
1 CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACAAGCCCGTGGCACAACCCAT
** * * * **
17198408 GTGCAAAAACCTGGGTATTATGTTTCTAACGTCAGCATCACACGTCCATGGTACATGCTTGTGTA
66 GTGCAAAAACCTAAGTATTATATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
* ** **
17198473 CTAGGACGTGCCCTCCACACAACTAAGACATAC-GGTCGTGTCTCTACTTGTGTGATCCTTACCA
131 CTAGGACGTGCCCTCCACACAACTAAGACACACAACT-GTGTCTCTACCCGTGTGATCCTTACCA
* * *
17198537 TGCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGGCCTTCTCACACGCTCATGGGGCTG
195 TGCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTG
17198602 ACCGTGTGTCA
260 ACCGTGTGTCA
*
17198613 TACACGGCTTAGACACACGCCCGTGT
1 CACACGGCTTAGACACACGCCCGTGT
17198639 GTCTACCCGT
Statistics
Matches: 261, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
269 1 0.00
270 260 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (270 bp):
CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACAAGCCCGTGGCACAACCCAT
GTGCAAAAACCTAAGTATTATATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
CTAGGACGTGCCCTCCACACAACTAAGACACACAACTGTGTCTCTACCCGTGTGATCCTTACCAT
GCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTGA
CCGTGTGTCA
Found at i:17199379 original size:49 final size:46
Alignment explanation
Indices: 17199302--17199619 Score: 256
Period size: 47 Copynumber: 6.8 Consensus size: 46
17199292 AGGATAAGTT
*
17199302 GCCGATGCCATGTCCCAGACATGATCTTACACTGGCTATTATCATCGAG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGC-ATCATCATCGAG
* * * *
17199351 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTAT-ATACG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCAT-CGAG
* * * *
17199401 GCTGATGCATGTCCCAGACATGTCTTACACTAGCA-CAAC-TCTTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCATC-GAG
* * * * *
17199445 GCCGATGCATGTCCCAAACACGTCTTACATTGGCTACCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCATCGAG
* * *
17199492 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATC-TCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAG
* * *
17199538 GCCGATGCCATGTCCCAGACATGGTCTTATAC-GGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCATCGAG
*
17199585 GCTGATGCATGTCCCAGACATGTCTTACACTGGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
17199620 CTTATCTCTA
Statistics
Matches: 221, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 9 0.04
46 34 0.15
47 64 0.29
48 21 0.10
49 48 0.22
50 9 0.04
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCGAG
Found at i:17199612 original size:93 final size:91
Alignment explanation
Indices: 17199305--17199639 Score: 320
Period size: 93 Copynumber: 3.5 Consensus size: 91
17199295 ATAAGTTGCC
* * *
17199305 GATGCCATGTCCCAGACATGATCTTACACTGGCTATTATCATCGAGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACATG-TCTTACACTAGC-ATCATC-TCTA-GCCGATGCCATGTCCCAGA
* * *
17199370 CATGGTCTTATACTAGCTCTCGTATATACGT-GCT
61 CATGGTCTTATAC-GGCACTC--ATA-ATGTGGCT
* * *
17199404 GATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGCCGATG-CATGTCCCAAACA-C
1 GATGCATGTCCCAGACATGTCTTACACTAGCATCATCTC-TAGCCGATGCCATGTCCCAGACATG
* * ** * *
17199466 GTCTTACATTGGCTAC-CATCGTCGAGGCC
65 GTCTTATA-CGGC-ACTCATAAT-GTGGCT
17199495 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTA-GCCGATGCCATGTCCCAGACAT
17199560 GGTCTTATACGGCACTCATAATGTGGCT
64 GGTCTTATACGGCACTCATAATGTGGCT
* * *
17199588 GATGCATGTCCCAGACATGTCTTACACTGGCACTTATCTCTATGTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTA-GCCGATGCC
17199640 TTACACTGGC
Statistics
Matches: 197, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
90 3 0.02
91 34 0.17
92 12 0.06
93 79 0.40
94 28 0.14
95 10 0.05
96 1 0.01
97 11 0.06
98 15 0.08
99 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCTAGCCGATGCCATGTCCCAGACATGG
TCTTATACGGCACTCATAATGTGGCT
Found at i:17199712 original size:47 final size:46
Alignment explanation
Indices: 17199639--17199838 Score: 203
Period size: 47 Copynumber: 4.3 Consensus size: 46
17199629 ATGTCGATGC
*
17199639 CTTACACTGGCACTCATAAT-GTGGCCGATGCATGTCCCAGACATGT
1 CTTACACTGGCACTCAT-CTCGTGGCCGATGCATGTCCCAGACATGT
* * * *
17199685 CTTACACGGGCTA-TCATCGTCGTGGCCGATACATGTCCCAGAGACGT
1 CTTACACTGGC-ACTCATC-TCGTGGCCGATGCATGTCCCAGACATGT
* *
17199732 CTTACACTAGCACTCATCTC-TACGCCGATGCCATGTCCCAGACATTGT
1 CTTACACTGGCACTCATCTCGT-GGCCGATG-CATGTCCCAGACA-TGT
* * *
17199780 CTTACACTGGCACTCATAAT-GTGG-CAATTGCATGTCCCAAACATGT
1 CTTACACTGGCACTCAT-CTCGTGGCCGA-TGCATGTCCCAGACATGT
17199826 CTTACACTGGCAC
1 CTTACACTGGCAC
17199839 ATAAGTAATC
Statistics
Matches: 128, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 40 0.31
47 64 0.50
48 21 0.16
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
CTTACACTGGCACTCATCTCGTGGCCGATGCATGTCCCAGACATGT
Found at i:17199735 original size:124 final size:124
Alignment explanation
Indices: 17199538--17199763 Score: 305
Period size: 124 Copynumber: 1.8 Consensus size: 124
17199528 TCATCTCTAC
* * *
17199538 GCCGATGCCATGTCCCAGACATGGTCTTATACGGCACTCATAATGTGGCTGATGCATGTCCCAGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACGGCACTCATAATGTGGCCGATACATGTCCCAGA
* * * * *
17199603 CATGTCTTACACTGGCACTTATCTCTATGTCGATGCCTTACACTGGCACTCATAATGTG
66 CACGTCTTACACTAGCACTCATCTCTACGCCGATGCCTTACACTGGCACTCATAATGTG
**
17199662 GCCGATG-CATGTCCCAGACAT-GTCTTACACGGGCTA-TCATCGTCGTGGCCGATACATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC-GGC-ACTCATAAT-GTGGCCGATACATGTCCC
*
17199724 AGAGACGTCTTACACTAGCACTCATCTCTACGCCGATGCC
63 AGACACGTCTTACACTAGCACTCATCTCTACGCCGATGCC
17199764 ATGTCCCAGA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
122 8 0.09
123 22 0.25
124 58 0.66
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (124 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACGGCACTCATAATGTGGCCGATACATGTCCCAGA
CACGTCTTACACTAGCACTCATCTCTACGCCGATGCCTTACACTGGCACTCATAATGTG
Found at i:17202321 original size:11 final size:10
Alignment explanation
Indices: 17202303--17202329 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
17202293 TCCAAAATCC
17202303 TCTTTTTTTT
1 TCTTTTTTTT
17202313 TCTTTTTTTT
1 TCTTTTTTTT
17202323 TCTTTTT
1 TCTTTTT
17202330 CCTCCTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:17209749 original size:23 final size:23
Alignment explanation
Indices: 17209718--17209771 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
17209708 TCGAACTCGA
* *
17209718 AACTCGAATTACT-TATTCAAGTT
1 AACTCGAATAACTCAATTCAA-TT
*
17209741 GACTCGAATAACTCAATTCAATT
1 AACTCGAATAACTCAATTCAATT
17209764 AACTCGAA
1 AACTCGAA
17209772 ATTAGAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
AACTCGAATAACTCAATTCAATT
Found at i:17214424 original size:16 final size:15
Alignment explanation
Indices: 17214390--17214425 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
17214380 AAATTTAAAG
17214390 AAAAATGAGTATTGT
1 AAAAATGAGTATTGT
17214405 AAAAATG-GATATTGT
1 AAAAATGAG-TATTGT
17214420 AAAAAT
1 AAAAAT
17214426 ATTAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 1 0.05
15 19 0.95
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
AAAAATGAGTATTGT
Found at i:17216120 original size:21 final size:20
Alignment explanation
Indices: 17216092--17216130 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17216082 GCATGTATTT
17216092 TGAAGCTTCTTGATAGATTA
1 TGAAGCTTCTTGATAGATTA
*
17216112 TGAATGCTTGTTGATAGAT
1 TGAA-GCTTCTTGATAGAT
17216131 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (20 bp):
TGAAGCTTCTTGATAGATTA
Found at i:17216197 original size:28 final size:29
Alignment explanation
Indices: 17216164--17216219 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
17216154 TTAATGAAAA
17216164 TGTAAA-TTAGGGG-CTAAATTGTGAAATG
1 TGTAAATTTAGGGGTCTAAA-TGTGAAATG
*
17216192 TGTAAATTTAGGGGTTTAAATGTGAAAT
1 TGTAAATTTAGGGGTCTAAATGTGAAAT
17216220 AAATGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 15 0.60
30 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
TGTAAATTTAGGGGTCTAAATGTGAAATG
Found at i:17220850 original size:7 final size:7
Alignment explanation
Indices: 17220838--17220877 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
17220828 CTTTTACTAC
17220838 CTAAATA
1 CTAAATA
17220845 CTAAATA
1 CTAAATA
*
17220852 CTAAAAA
1 CTAAATA
*
17220859 CAAAATA
1 CTAAATA
*
17220866 TTAAATA
1 CTAAATA
17220873 CTAAA
1 CTAAA
17220878 ATTTCTAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
CTAAATA
Found at i:17221289 original size:47 final size:46
Alignment explanation
Indices: 17221238--17221333 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 46
17221228 TAAGGCTCGA
17221238 TTTTTACTTATTTTATATGTTAAAGTTATATTAAAATAATATATATGT
1 TTTTTACTT-TTTTATATGTTAAAGTTAT-TTAAAATAATATATATGT
17221286 TTTTTACTTTTTTATATGTTAAAGTTATTTAAAATAATATATATGT
1 TTTTTACTTTTTTATATGTTAAAGTTATTTAAAATAATATATATGT
17221332 TT
1 TT
17221334 ATTAAACATT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 20 0.42
47 19 0.40
48 9 0.19
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (46 bp):
TTTTTACTTTTTTATATGTTAAAGTTATTTAAAATAATATATATGT
Found at i:17226197 original size:30 final size:30
Alignment explanation
Indices: 17226163--17226219 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17226153 TAAACCTCTT
17226163 CACTTT-CCTCCCAAAACTTTTACTCCCTCC
1 CACTTTACC-CCCAAAACTTTTACTCCCTCC
* *
17226193 CACTTTACCCCCATAACTTTTGCTCCC
1 CACTTTACCCCCAAAACTTTTACTCCC
17226220 CTCCTATCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.46, G:0.02, T:0.33
Consensus pattern (30 bp):
CACTTTACCCCCAAAACTTTTACTCCCTCC
Found at i:17226445 original size:36 final size:35
Alignment explanation
Indices: 17226403--17226499 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 35
17226393 ACCTAAATAA
*
17226403 TAATTTTATTTATATTCACTATTTATATTATTAAAT
1 TAATTTTA-TCATATTCACTATTTATATTATTAAAT
* *
17226439 TAATTTTCA-CATATTCTACTATCTATATTATTGAAT
1 TAATTTT-ATCATATTC-ACTATTTATATTATTAAAT
* *
17226475 T-ATTTTATCATATTGAATATTTATA
1 TAATTTTATCATATTCACTATTTATA
17226500 AATTTATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
34 9 0.17
35 17 0.33
36 25 0.48
37 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (35 bp):
TAATTTTATCATATTCACTATTTATATTATTAAAT
Found at i:17226777 original size:19 final size:19
Alignment explanation
Indices: 17226740--17226777 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17226730 AAAGTTAATA
*
17226740 ACAAATTTGATTAATGTGG
1 ACAAATTTGATTAAGGTGG
*
17226759 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTAAGGTGG
17226778 GTGATAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTAAGGTGG
Found at i:17228983 original size:18 final size:19
Alignment explanation
Indices: 17228932--17228983 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
17228922 CTATTAATGA
**
17228932 ATAATTA-ACTGTTACCGG
1 ATAATTAGACTGTTACTAG
17228950 ATAATT-GACTGTTACTAG
1 ATAATTAGACTGTTACTAG
17228968 AT-ATTAGACTGTTACT
1 ATAATTAGACTGTTACT
17228984 GAATAACTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
ATAATTAGACTGTTACTAG
Found at i:17229000 original size:18 final size:18
Alignment explanation
Indices: 17228977--17229110 Score: 112
Period size: 18 Copynumber: 7.4 Consensus size: 18
17228967 GATATTAGAC
17228977 TGTTACTGAATAACTGAA
1 TGTTACTGAATAACTGAA
* *
17228995 TATTACTGAATAATTG-A
1 TGTTACTGAATAACTGAA
* *
17229012 TCATTACTGAATAACTGAT
1 T-GTTACTGAATAACTGAA
* *
17229031 TGTCACTGAATGAA-TGAC
1 TGTTACTGAAT-AACTGAA
*
17229049 TGTTACTGAATAACTTAA
1 TGTTACTGAATAACTGAA
*
17229067 TTGTTACTGAATACCTG-A
1 -TGTTACTGAATAACTGAA
* * * *
17229085 TTTTACTAAATAATTGAC
1 TGTTACTGAATAACTGAA
17229103 TGTTACTG
1 TGTTACTG
17229111 GACAACCGAT
Statistics
Matches: 91, Mismatches: 19, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
17 16 0.18
18 58 0.64
19 17 0.19
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (18 bp):
TGTTACTGAATAACTGAA
Found at i:17229103 original size:54 final size:53
Alignment explanation
Indices: 17228977--17229110 Score: 153
Period size: 54 Copynumber: 2.5 Consensus size: 53
17228967 GATATTAGAC
* * *
17228977 TGTTACTGAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGAT
1 TGTTACTGAATAA-TGACTGTTACTGAATAATTAATCATTACTGAATAACTGAT
* ** *
17229031 TGTCACTGAATGAATGACTGTTACTGAATAACTTAATTGTTACTGAATACCTGAT
1 TGTTACTGAAT-AATGACTGTTACTGAATAA-TTAATCATTACTGAATAACTGAT
*
17229086 T-TTACTAAATAATTGACTGTTACTG
1 TGTTACTGAATAA-TGACTGTTACTG
17229111 GACAACCGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.03
54 44 0.65
55 22 0.32
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (53 bp):
TGTTACTGAATAATGACTGTTACTGAATAATTAATCATTACTGAATAACTGAT
Found at i:17229193 original size:36 final size:36
Alignment explanation
Indices: 17228913--17229208 Score: 179
Period size: 36 Copynumber: 8.0 Consensus size: 36
17228903 AAAGGTATAA
* * * * *
17228913 AATAACTGACTATTAATGAATAATTAACTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * *
17228949 GATAATTGACTGTTACT-AGAT-ATTAGACTGTTACTG
1 AATAACTGACTGTTACTGA-ATAATT-GATTGTTACTG
* * **
17228985 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * *
17229021 AATAACTGATTGTCACTGAATGAA-TGACTGTTACTG
1 AATAACTGACTGTTACTGAAT-AATTGATTGTTACTG
* * ** *
17229057 AATAACTTAATTGTTACTGAATACCTGATT-TTACTA
1 AATAAC-TGACTGTTACTGAATAATTGATTGTTACTG
* * *
17229093 AATAATTGACTGTTACTGGACAACCGATCAATTGATCGATACTG
1 AATAACTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
** * * *
17229137 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* *
17229173 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
17229208 A
1 A
17229209 TTGTTAATGA
Statistics
Matches: 197, Mismatches: 47, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
35 16 0.08
36 130 0.66
37 25 0.13
39 1 0.01
40 1 0.01
42 2 0.01
43 6 0.03
44 16 0.08
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:17229204 original size:18 final size:18
Alignment explanation
Indices: 17228977--17229208 Score: 108
Period size: 18 Copynumber: 12.5 Consensus size: 18
17228967 GATATTAGAC
* *
17228977 TGTTACTGAATAACTGAA
1 TGTTACTGAATAAATGAT
* *
17228995 TATTACTGAATAATTGAT
1 TGTTACTGAATAAATGAT
** *
17229013 CATTACTGAATAACTGAT
1 TGTTACTGAATAAATGAT
* * *
17229031 TGTCACTGAATGAATGAC
1 TGTTACTGAATAAATGAT
* *
17229049 TGTTACTGAATAACTTAAT
1 TGTTACTGAATAA-ATGAT
**
17229068 TGTTACTGAATACCTGAT
1 TGTTACTGAATAAATGAT
* * *
17229086 T-TTACTAAATAATTGAC
1 TGTTACTGAATAAATGAT
*
17229103 TGTTACTGGACAACCGATCAATTGAT
1 TGTTACT-G---A---AT-AAATGAT
* * * *
17229129 CGATACTGAATAACTGGT
1 TGTTACTGAATAAATGAT
* * *
17229147 TATTATTGAATAATTGAT
1 TGTTACTGAATAAATGAT
* * *
17229165 TGTTACCGAATAACTGAC
1 TGTTACTGAATAAATGAT
*
17229183 TGTTACTGAATAAATAAT
1 TGTTACTGAATAAATGAT
17229201 TGTT-CTGA
1 TGTTACTGA
17229209 TTGTTAATGA
Statistics
Matches: 160, Mismatches: 44, Indels: 21
0.71 0.20 0.09
Matches are distributed among these distances:
17 17 0.11
18 111 0.69
19 16 0.10
22 2 0.01
25 3 0.02
26 11 0.07
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (18 bp):
TGTTACTGAATAAATGAT
Found at i:17230165 original size:47 final size:46
Alignment explanation
Indices: 17230053--17230182 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 46
17230043 TCACTTGTGT
* *
17230053 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGA
* * ***
17230099 GAGCCAGTGTAAGACCATGTTTGGGACATGTCATCGGCGTTGA-GACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CACATGACGA
*
17230147 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
17230183 ATCGAAACAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 20 0.28
47 28 0.39
48 22 0.31
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGA
Found at i:17230203 original size:46 final size:45
Alignment explanation
Indices: 17230058--17230225 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
17230048 TGTGTGAGCT
* * *
17230058 AGTGTAAGACATGTCTGGGACATGCATCGACCA-C-ATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCATCGA-AAC-AGAGTC
* * * *
17230104 AGTGTAAGACCATGTTTGGGACATGTCATCGGCGTTGAGAC-GAGTGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCGAAACAGAGT-C
*
17230151 TAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAAACATAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAAACA-GAGTC
* *
17230198 AGTGTAAGACTTGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
17230226 AGCTACAAGA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
46 50 0.50
47 31 0.31
48 19 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAAACAGAGTC
Found at i:17236917 original size:18 final size:18
Alignment explanation
Indices: 17236896--17236942 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
17236886 TGTTGTTATT
17236896 ATTAGGCTTGTATAGGGA
1 ATTAGGCTTGTATAGGGA
*
17236914 ATTAGGCATGTATAGGGA
1 ATTAGGCTTGTATAGGGA
17236932 ATTAGGCTTGT
1 ATTAGGCTTGT
17236943 GGTTTGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.06, G:0.32, T:0.34
Consensus pattern (18 bp):
ATTAGGCTTGTATAGGGA
Found at i:17247040 original size:53 final size:54
Alignment explanation
Indices: 17246959--17247165 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
17246949 TTCCTTTTTA
* * * *
17246959 AACTTACCATTGTCATGTCTTGATATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
17247012 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
17247066 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
17247121 AACTTACCAATGCCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
17247166 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 39 0.32
55 40 0.33
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:17247098 original size:55 final size:53
Alignment explanation
Indices: 17246972--17247165 Score: 181
Period size: 55 Copynumber: 3.6 Consensus size: 53
17246962 TTACCATTGT
* * * *
17246972 CATGTCTTGATATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
* * * ** * *
17247025 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G-AACTCACCAATGC
*** * * *
17247080 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-GAACTCACCAATGC
* * *
17247134 CATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGGATCCTT
17247166 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 27, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 33 0.29
54 39 0.35
55 40 0.36
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
Found at i:17253765 original size:17 final size:18
Alignment explanation
Indices: 17253731--17253765 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17253721 TTCCCCGATG
*
17253731 ATAATCTATTACTAACTC
1 ATAATCTATTAATAACTC
17253749 ATAATCT-TTAATAACTC
1 ATAATCTATTAATAACTC
17253766 GAGCTATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATCTATTAATAACTC
Found at i:17261135 original size:17 final size:18
Alignment explanation
Indices: 17261101--17261135 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17261091 TTCCCCGATG
*
17261101 ATAATCTATTACTAACTC
1 ATAATCTATTAATAACTC
17261119 ATAATCT-TTAATAACTC
1 ATAATCTATTAATAACTC
17261136 GAGCTATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATCTATTAATAACTC
Found at i:17268869 original size:40 final size:40
Alignment explanation
Indices: 17268786--17269088 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
17268776 TTGAATGCTG
* * * * * *
17268786 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
17268826 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
17268866 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17268906 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17268946 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17268986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17269026 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17269065 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17269089 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:17279121 original size:17 final size:17
Alignment explanation
Indices: 17279075--17279124 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
17279065 TTTTTATCAT
*
17279075 TTATCATTTGTCGGGCA
1 TTATCATTTATCGGGCA
* *
17279092 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
17279109 CTT-TCATTTATCGGGC
1 -TTATCATTTATCGGGC
17279125 TTTAACGAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:17296177 original size:37 final size:37
Alignment explanation
Indices: 17296136--17296209 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
17296126 TTTTAAGTAA
17296136 GTATGATAGTTGTGTTTATCTATATTGTCTTGATGAT
1 GTATGATAGTTGTGTTTATCTATATTGTCTTGATGAT
*
17296173 GTATGATAGTTGTGTTTATTTATATTGTCTTGATGAT
1 GTATGATAGTTGTGTTTATCTATATTGTCTTGATGAT
17296210 AATTATTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.53
Consensus pattern (37 bp):
GTATGATAGTTGTGTTTATCTATATTGTCTTGATGAT
Found at i:17304422 original size:18 final size:18
Alignment explanation
Indices: 17304399--17304435 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17304389 AATTAAAGTA
17304399 TATAAATACACAATTTAG
1 TATAAATACACAATTTAG
17304417 TATAAATACACAATTTAG
1 TATAAATACACAATTTAG
17304435 T
1 T
17304436 TTTACGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (18 bp):
TATAAATACACAATTTAG
Found at i:17310322 original size:38 final size:37
Alignment explanation
Indices: 17310261--17310337 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 37
17310251 ATAAACTTAT
* *
17310261 GCAATGTTTTTCTTCGTGCAATGTGAGAAAGAAGAAG
1 GCAATGTTTTTCTTCATGCAATGTGAGAAAGAAAAAG
*
17310298 GCAATGTTTTTTCTTCATGTAATGTGAGAAAGAAAAAG
1 GCAATG-TTTTTCTTCATGCAATGTGAGAAAGAAAAAG
17310336 GC
1 GC
17310338 TACTATATGC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (37 bp):
GCAATGTTTTTCTTCATGCAATGTGAGAAAGAAAAAG
Found at i:17315822 original size:21 final size:21
Alignment explanation
Indices: 17315783--17315823 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17315773 CATATAAATA
* *
17315783 AAAATTTATAATTATTTTTTT
1 AAAATTTATAATGAATTTTTT
*
17315804 AAAATTTATTATGAATTTTT
1 AAAATTTATAATGAATTTTT
17315824 AAAGTCAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AAAATTTATAATGAATTTTTT
Found at i:17316807 original size:93 final size:93
Alignment explanation
Indices: 17316696--17316866 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
17316686 GCCCCTAAGT
* *** *
17316696 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
17316761 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
17316789 GAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
17316854 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17316867 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17316863 original size:46 final size:46
Alignment explanation
Indices: 17316691--17316863 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
17316681 AACCCGCCCC
* * ***
17316691 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
17316737 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
17316785 TCA-CGAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
17316830 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17316864 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:17318377 original size:85 final size:85
Alignment explanation
Indices: 17318234--17318412 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
17318224 GGCCGGCCAT
17318234 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
17318299 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
17318319 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
17318384 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
17318404 GAGCATGGG
1 GAGCATGGG
17318413 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:17329516 original size:26 final size:26
Alignment explanation
Indices: 17329485--17329592 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
17329475 TGAAATGCCC
*
17329485 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
17329511 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
17329537 ATCATGGAATATTTGCCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
17329563 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17329589 ATCA
1 ATCA
17329593 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17330257 original size:13 final size:13
Alignment explanation
Indices: 17330236--17330293 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
17330226 CTNTTTTTCC
*
17330236 AAAGCACTTCTTA
1 AAAGCACTTCTCA
*
17330249 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
17330262 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* *
17330275 ACAGCACTTTTCA
1 AAAGCACTTCTCA
17330288 AAAGCA
1 AAAGCA
17330294 ATGAAGAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:17330740 original size:49 final size:50
Alignment explanation
Indices: 17330660--17330877 Score: 260
Period size: 49 Copynumber: 4.4 Consensus size: 50
17330650 ATCTATTGTG
*
17330660 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
17330710 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
17330760 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* ** *
17330810 AGGTCACGTGTGTAGTACTAAGCACAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
17330860 -GGTCACATGTGTAGTACT
1 AGGTCACATGTGTAGTACT
17330878 GGATAATTGG
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 58 0.41
50 45 0.32
51 38 0.27
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17330881 original size:26 final size:26
Alignment explanation
Indices: 17330847--17330903 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
17330837 GCTACTACGT
*
17330847 GTACCGGATAATTGGTCACATGTGTA
1 GTACTGGATAATTGGTCACATGTGTA
*
17330873 GTACTGGATAATTGGTCGCATGTGTA
1 GTACTGGATAATTGGTCACATGTGTA
17330899 GTACT
1 GTACT
17330904 AAGTGCAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (26 bp):
GTACTGGATAATTGGTCACATGTGTA
Found at i:17333717 original size:18 final size:18
Alignment explanation
Indices: 17333694--17333728 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17333684 TAAAAGAAAA
17333694 CATACTATCACAATTAAG
1 CATACTATCACAATTAAG
17333712 CATACTATCACAATTAA
1 CATACTATCACAATTAA
17333729 TCATGGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.29
Consensus pattern (18 bp):
CATACTATCACAATTAAG
Found at i:17334248 original size:6 final size:6
Alignment explanation
Indices: 17334237--17334370 Score: 102
Period size: 6 Copynumber: 22.7 Consensus size: 6
17334227 ATAATAAAAT
* * * *
17334237 AAAACA AAAACA AAAACA AAAACA AAAAAA AAATAAA AAAATA AAAAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAA-ACA AAAACA AAAACA
**
17334286 TAAAACA AAAA-A AAGAA-A AAGAA-A AAAA-A GAAATGA AAAAC- AAAAC-
1 -AAAACA AAAACA AA-AACA AA-AACA AAAACA -AAAACA AAAACA AAAACA
* *
17334332 AAAACA AAAACA AAAACA AAAGCA AAAGC- AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
17334371 ATAAAAATAA
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
5 20 0.18
6 80 0.71
7 12 0.11
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:17334252 original size:1 final size:1
Alignment explanation
Indices: 17334232--17334352 Score: 71
Period size: 1 Copynumber: 121.0 Consensus size: 1
17334222 AATGCATAAT
* * * * * * * * *
17334232 AAAATAAAACAAAAACAAAAACAAAAACAAAAAAAAAATAAAAAAATAAAAAAATAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** * * * * *
17334297 AAAGAAAAAGAAAAAAAAGAAATGAAAAACAAAACAAAACAAAAACAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17334353 GCAAAAGCAA
Statistics
Matches: 83, Mismatches: 37, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.04
Consensus pattern (1 bp):
A
Found at i:17336406 original size:30 final size:30
Alignment explanation
Indices: 17336372--17336438 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
17336362 CAAATTGAAC
*
17336372 CACACGGCAGGGCCACATGCCCATGTCCCT
1 CACACGGCAGGGCCACACGCCCATGTCCCT
* * *
17336402 CACACGACCGGGCCACACGCCCGTGTCCCT
1 CACACGGCAGGGCCACACGCCCATGTCCCT
17336432 CACACGG
1 CACACGG
17336439 TTGAGACACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.46, G:0.24, T:0.10
Consensus pattern (30 bp):
CACACGGCAGGGCCACACGCCCATGTCCCT
Found at i:17351372 original size:19 final size:19
Alignment explanation
Indices: 17351350--17351436 Score: 151
Period size: 19 Copynumber: 4.7 Consensus size: 19
17351340 TCATATATTC
17351350 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
17351369 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
*
17351388 AACATTG--TATCATATCT
1 AAGATTGCATATCATATCT
17351405 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
17351424 AAGATTGCATATC
1 AAGATTGCATATC
17351437 CTTAAAGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.25
19 48 0.75
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:17351406 original size:36 final size:36
Alignment explanation
Indices: 17351359--17351430 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
17351349 CAAGATTGCA
17351359 TATCATATCTAAGATTGCATATCATATCTAACATTG
1 TATCATATCTAAGATTGCATATCATATCTAACATTG
*
17351395 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAACATTG
17351431 CATATCCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAACATTG
Found at i:17351445 original size:36 final size:35
Alignment explanation
Indices: 17351350--17351446 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 35
17351340 TCATATATTC
*
17351350 AAGATTGCATATCATATCTAAGATTGCATATCATATCT
1 AAGATTGCATATC--CT-TAAGATTGCATATCATATCT
*
17351388 AACATTGTATCATAT-C-TAAGATTGCATATCATATCT
1 AAGATTG---CATATCCTTAAGATTGCATATCATATCT
17351424 AAGATTGCATATCCTTAAAGATT
1 AAGATTGCATATCCTT-AAGATT
17351447 ATATTTCCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 32 0.64
38 6 0.12
41 5 0.10
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
AAGATTGCATATCCTTAAGATTGCATATCATATCT
Done.