Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 189 of 378
Found at i:55487819 original size:39 final size:39
Alignment explanation
Indices: 55487765--55487943 Score: 276
Period size: 39 Copynumber: 4.7 Consensus size: 39
55487755 GAATGTTCGA
55487765 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
55487804 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55487843 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGC---TT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55487879 ATGATATCCGGGCTAAG-CCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55487917 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
55487944 CTTTGTGCGG
Statistics
Matches: 130, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
35 16 0.12
36 19 0.15
38 17 0.13
39 70 0.54
40 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:55487855 original size:78 final size:74
Alignment explanation
Indices: 55487766--55487943 Score: 266
Period size: 74 Copynumber: 2.3 Consensus size: 74
55487756 AATGTTCGAG
*
55487766 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC---TTATGATATCCGGGCTAAG-CCGAAGGCA
* *
55487831 ATTGTGCGAGTTA
62 ATTGTGCAAATTA
55487844 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCTTATGATATCCGGGCTAAGCCGAAGGCAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCTTATGATATCCGGGCTAAGCCGAAGGCAATTG
*
55487909 TGCAAATTG
66 TGCAAATTA
*
55487918 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
55487944 CTTTGTGCGG
Statistics
Matches: 94, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
74 34 0.36
75 27 0.29
78 33 0.35
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (74 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCTTATGATATCCGGGCTAAGCCGAAGGCAATTG
TGCAAATTA
Found at i:55487968 original size:114 final size:115
Alignment explanation
Indices: 55487766--55487983 Score: 341
Period size: 114 Copynumber: 1.9 Consensus size: 115
55487756 AATGTTCGAG
55487766 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
** *
55487831 ATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCTTA
66 ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTTA
*
55487880 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
** * *
55487944 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
65 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGC
55487984 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
113 37 0.39
114 48 0.51
115 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (115 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTTA
Found at i:55492659 original size:39 final size:39
Alignment explanation
Indices: 55492593--55492737 Score: 172
Period size: 39 Copynumber: 3.7 Consensus size: 39
55492583 TAATAGCTCG
*
55492593 CACAAATGCCTTCGGGACTTAACCCGGATTTGGAACTCA
1 CACAAATGCCTTCGGGACTTAGCCCGGATTTGGAACTCA
* *
55492632 CACAAATGCCTTC-GGATCTTAGTCCGGATTTGGAACTCG
1 CACAAATGCCTTCGGGA-CTTAGCCCGGATTTGGAACTCA
* * *
55492671 CACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACT-A
1 CACAAATGCCTTCGGGA-CTTAGCCCGGATTTGG-AACTCA
55492710 GCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -CACAAATGCCTTCGGGACTTAGCCCGGA
55492738 CATCATTCGA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
38 3 0.03
39 80 0.84
40 12 0.13
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATTTGGAACTCA
Found at i:55492698 original size:78 final size:78
Alignment explanation
Indices: 55492556--55492737 Score: 196
Period size: 78 Copynumber: 2.3 Consensus size: 78
55492546 GCGACTCGCT
* *
55492556 CAAAGCCTTCGGGACATAGCCCGG-TTAT-AATAGCTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAAGCCTTCGGGACTTAGCCCGGATT-TGGA-A-CTCGCACAAATGCCTTCGGGACTTAACCCG
*
55492619 GATTTGG-AACTCA-CA
63 GATATGGTAACT-AGCA
* **
55492634 CAAATGCCTTC-GGATCTTAGTCCGGATTTGGAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATTTGGAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
55492697 GATATGGTCACTAGCA
63 GATATGGTAACTAGCA
55492713 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
55492738 CATCATTCGA
Statistics
Matches: 88, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
77 3 0.03
78 54 0.61
79 28 0.32
80 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTGGAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGGTAACTAGCA
Found at i:55498964 original size:40 final size:40
Alignment explanation
Indices: 55498916--55499180 Score: 417
Period size: 40 Copynumber: 6.6 Consensus size: 40
55498906 AGCTACTCGT
* *
55498916 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
55498956 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55498996 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
55499036 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
55499076 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55499116 CAAATGCCTTCGCGG-CTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCA
* *
55499156 CAAATGCCATCGGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
55499181 TTATCATCCG
Statistics
Matches: 213, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
39 3 0.01
40 208 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:55507093 original size:46 final size:46
Alignment explanation
Indices: 55507043--55507214 Score: 199
Period size: 45 Copynumber: 3.7 Consensus size: 46
55507033 TGGTTGAGCA
*
55507043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55507089 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55507136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55507182 -CCTAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55507215 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 33 0.31
46 30 0.28
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55507474 original size:19 final size:20
Alignment explanation
Indices: 55507437--55507474 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55507427 ATAAGGTGGT
55507437 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55507457 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55507475 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:55516482 original size:44 final size:44
Alignment explanation
Indices: 55516413--55516543 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 44
55516403 ATTACATGTG
*
55516413 TCGCATCTATAATGAACTTGGACCAACTCAACGAGCTCAGATGC
1 TCGCATCTATAATGAACTCGGACCAACTCAACGAGCTCAGATGC
* ** *
55516457 TCGCATCCATAATGAACTCAAACCAACTCAACGAGCT-TGAATGC
1 TCGCATCTATAATGAACTCGGACCAACTCAACGAGCTCAG-ATGC
* *
55516501 -CTCATACATATAATGAACCCGGACCAACTCAACGAGCTCAGAT
1 TCGCAT-C-TATAATGAACTCGGACCAACTCAACGAGCTCAGAT
55516544 TTTTTAATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.07
44 38 0.53
45 28 0.39
46 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (44 bp):
TCGCATCTATAATGAACTCGGACCAACTCAACGAGCTCAGATGC
Found at i:55526785 original size:29 final size:29
Alignment explanation
Indices: 55526752--55526852 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
55526742 GACGAGATCA
55526752 GCACTAAGTGTGCGTGCTGGAAATATATG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
55526781 GCACTAAGTGTGCGTGCTGGAAATATATG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
** * *
55526810 GCACTAAGTGTGCAAGCTGGAAAAATACG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
**
55526839 GCACTGGGTGTGCG
1 GCACTAAGTGTGCG
55526853 AGCTCGGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GCACTAAGTGTGCGTGCTGGAAATATATG
Found at i:55528996 original size:29 final size:29
Alignment explanation
Indices: 55528954--55529056 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
55528944 GTGACGAGAT
* * *
55528954 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
55528983 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
55529012 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
*
55529041 TGGCAGTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55529057 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 3 0.05
29 57 0.95
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:55530629 original size:12 final size:12
Alignment explanation
Indices: 55530612--55530641 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55530602 CCTCACACGC
55530612 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
55530624 CCGTGTGCTAGG
1 CCGTGTGCCAGG
55530636 CCGTGT
1 CCGTGT
55530642 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:55531917 original size:25 final size:24
Alignment explanation
Indices: 55531885--55531943 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 24
55531875 TCAGTATGCT
* **
55531885 CTCT-CGAGCTGAGAATGTGTAAG
1 CTCTACGAGCTGAAAATAAGTAAG
*
55531908 CTCATACGAGATGAAAATAAGTAAG
1 CTC-TACGAGCTGAAAATAAGTAAG
*
55531933 CTCTACAAGCT
1 CTCTACGAGCT
55531944 ATGGGGTAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 3 0.11
24 7 0.25
25 18 0.64
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (24 bp):
CTCTACGAGCTGAAAATAAGTAAG
Found at i:55541778 original size:43 final size:43
Alignment explanation
Indices: 55541731--55542057 Score: 424
Period size: 43 Copynumber: 7.6 Consensus size: 43
55541721 TGTGTGCGTA
** *
55541731 TAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACATG
1 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
*
55541774 TAAGACTACATCTGGGACGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
* * **
55541817 AAAGACCACATCTGGGATC-TTGGCATCAATATGTGATTAAATG
1 TAAGACCACATCTGGGA-CGTTGGCATCGATATGTGATTACGTG
* * * *
55541860 TAAGGCCACATCTGGAACATTGGCATCGATATGTTATTACGTG
1 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
* * * *
55541903 TAAGACCACCTCTGAGACGTTGGCATTGATGTGTGATTACGTG
1 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
** *
55541946 TAAGACCATGTCTGGGACGTTGGCATCGATATGCGATTACGTG
1 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
*
55541989 TAAGACCA-AGTCTGGGACGTTGGCATCGATATGTGATTACATG
1 TAAGACCACA-TCTGGGACGTTGGCATCGATATGTGATTACGTG
* *
55542032 TAAGACCACATATGGGGCGTTGGCAT
1 TAAGACCACATCTGGGACGTTGGCAT
55542058 TGTACGATAT
Statistics
Matches: 245, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.00
43 242 0.99
44 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
Found at i:55554436 original size:13 final size:14
Alignment explanation
Indices: 55554418--55554448 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
55554408 TGTATGCTAA
55554418 TTACTTGGTAAGT-
1 TTACTTGGTAAGTC
55554431 TTACTTGGTAAGTC
1 TTACTTGGTAAGTC
55554445 TTAC
1 TTAC
55554449 AGTGCTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (14 bp):
TTACTTGGTAAGTC
Found at i:55556412 original size:26 final size:26
Alignment explanation
Indices: 55556383--55556490 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
55556373 TGATACAAAT
55556383 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
55556409 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
55556435 TGATAATGGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
55556461 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55556487 TGAT
1 TGAT
55556491 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:55557986 original size:26 final size:26
Alignment explanation
Indices: 55557956--55558008 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
55557946 TTTATAGTTT
55557956 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAGT-GATAAATTGACCGAAA
* *
55557982 TACCCCTAGTGTTAAATTGACCTAAA
1 TACCCCTAGTGATAAATTGACCGAAA
55558008 T
1 T
55558009 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (26 bp):
TACCCCTAGTGATAAATTGACCGAAA
Found at i:55561069 original size:48 final size:48
Alignment explanation
Indices: 55561013--55561203 Score: 287
Period size: 48 Copynumber: 4.0 Consensus size: 48
55561003 TGTCATTAGG
55561013 AGTTACATTGATTTGGCTTC-GAGCCATGATATTGGCACTTTGGGTGCA
1 AGTTACATTGATTTGGCTTCAG-GCCATGATATTGGCACTTTGGGTGCA
55561061 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTTGGGTGCA
1 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTTGGGTGCA
* **
55561109 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGTG
1 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTTGGGTGCA
* * * *
55561157 AGTTACACTGATTTGGCTTC-GAACCATGATAATGGCACTTAGGGTGC
1 AGTTACATTGATTTGGCTTCAG-GCCATGATATTGGCACTTTGGGTGC
55561204 GAGACTTCTA
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 131 0.98
49 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (48 bp):
AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTTGGGTGCA
Found at i:55563547 original size:28 final size:28
Alignment explanation
Indices: 55563515--55563632 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
55563505 TGGGAATTAG
* *
55563515 TTGGGCCTGATGGGCCATAAGAATGTGG
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
55563543 TTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
55563571 TTGGGCCTAATGGGCCATATGAATGTAA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
55563599 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
55563627 TTGGGC
1 TTGGGC
55563633 TTAAAGGGGC
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.21, C:0.15, G:0.37, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:55563584 original size:56 final size:56
Alignment explanation
Indices: 55563515--55563632 Score: 182
Period size: 56 Copynumber: 2.1 Consensus size: 56
55563505 TGGGAATTAG
* ** * *
55563515 TTGGGCCTGATGGGCCATAAGAATGTGGTTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTAATGGGCCATAAGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
*
55563571 TTGGGCCTAATGGGCCATATGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATAAGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
55563627 TTGGGC
1 TTGGGC
55563633 TTAAAGGGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.21, C:0.15, G:0.37, T:0.26
Consensus pattern (56 bp):
TTGGGCCTAATGGGCCATAAGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
Found at i:55564161 original size:27 final size:27
Alignment explanation
Indices: 55563962--55564150 Score: 183
Period size: 27 Copynumber: 7.0 Consensus size: 27
55563952 AATGACCCCC
* *
55563962 GATTTGTAGAATTA-CTGAAATACCCTC
1 GATTTGTAAAATTATC-GAAATACCCTT
*
55563989 GATTTGTAAAATTATCG-AATACCCCT
1 GATTTGTAAAATTATCGAAATACCCTT
* *
55564015 GATTCGTAAAATTATCGAAATACCCCT
1 GATTTGTAAAATTATCGAAATACCCTT
* * *
55564042 GATTTATAAAATTACCAAAATACCCTT
1 GATTTGTAAAATTATCGAAATACCCTT
* * *
55564069 G-TAGTGTAGAATTA-CTGAAATACCTTT
1 GAT-TTGTAAAATTATC-GAAATACCCTT
*
55564096 GATTTGTAAAATTA-CCAATATA-CCTT
1 GATTTGTAAAATTATCGAA-ATACCCTT
55564122 CGATTTGTAAAATTATCGAAATACCCTT
1 -GATTTGTAAAATTATCGAAATACCCTT
55564150 G
1 G
55564151 TAGTGTAAAA
Statistics
Matches: 134, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
26 30 0.22
27 95 0.71
28 9 0.07
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCTT
Found at i:55564172 original size:27 final size:28
Alignment explanation
Indices: 55564127--55564191 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
55564117 ACCTTCGATT
* * * *
55564127 TGTAAAATTATCGAAATACCCTTGT-AG
1 TGTAAAATGACCGAAATACCCCTATAAG
*
55564154 TGTAAAATGACCGACATACCCCTATAAG
1 TGTAAAATGACCGAAATACCCCTATAAG
55564182 -GTAAAATGAC
1 TGTAAAATGAC
55564192 TGTTTTGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (28 bp):
TGTAAAATGACCGAAATACCCCTATAAG
Found at i:55564173 original size:81 final size:78
Alignment explanation
Indices: 55563958--55564176 Score: 217
Period size: 81 Copynumber: 2.7 Consensus size: 78
55563948 GAGAAATGAC
* * * *
55563958 CCCCGATTTGTAGAATTACTGAAATACCCTCG-ATTTGTAAAATTATCGAATACCCCTGATTCGT
1 CCCCGATTTGTAAAATTAC-GAAATACCCTTGTA-GTGTAAAATTACCGAATACCCCTGATTCGT
*
55564022 AAAATTATCGAAATA
64 AAAATTATCCAAATA
* * * * ** *
55564037 CCCCTGATTTATAAAATTACCAAAATACCCTTGTAGTGTAGAATTACTGAAATACCTTTGATTTG
1 CCCC-GATTTGTAAAATTA-CGAAATACCCTTGTAGTGTAAAATTACCG-AATACCCCTGATTCG
55564102 TAAAATTA-CCAATATA
63 TAAAATTATCCAA-ATA
* *
55564118 CCTTCGATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATGACCGACATACCCCT
1 CC-CCGATTTGTAAAATTA-CGAAATACCCTTGTAGTGTAAAATTACCGA-ATACCCCT
55564177 ATAAGGTAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
79 4 0.04
80 36 0.32
81 71 0.63
82 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (78 bp):
CCCCGATTTGTAAAATTACGAAATACCCTTGTAGTGTAAAATTACCGAATACCCCTGATTCGTAA
AATTATCCAAATA
Found at i:55564758 original size:27 final size:26
Alignment explanation
Indices: 55564702--55564760 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
55564692 TATGCCTAAG
* *
55564702 ATGGGCTAGGCCCAATTGATTCTGTT
1 ATGGGCTAGGCCCAAATGATTCTGTA
*
55564728 ATGGGCTATGTCCCAAATGATAT-TGTA
1 ATGGGCTA-GGCCCAAATGAT-TCTGTA
55564755 ATGGGC
1 ATGGGC
55564761 GGTTTGGCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 19 0.68
28 1 0.04
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (26 bp):
ATGGGCTAGGCCCAAATGATTCTGTA
Found at i:55567917 original size:39 final size:39
Alignment explanation
Indices: 55567863--55568006 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
55567853 GAATGTTCGA
55567863 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
55567902 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55567941 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55567980 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
55568007 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:55567953 original size:78 final size:79
Alignment explanation
Indices: 55567864--55568046 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
55567854 AATGTTCGAG
55567864 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
55567928 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
55567942 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
55568007 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
55568021 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
55568047 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:55575983 original size:38 final size:39
Alignment explanation
Indices: 55575925--55576067 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
55575915 GAATGTTCGA
55575925 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
55575964 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55576002 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55576041 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
55576068 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:55576013 original size:77 final size:79
Alignment explanation
Indices: 55575926--55576106 Score: 267
Period size: 77 Copynumber: 2.3 Consensus size: 79
55575916 AATGTTCGAG
55575926 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCC-GGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
55575989 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
55576003 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
55576068 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
55576082 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
55576107 TGTTTGAACG
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
77 47 0.51
78 6 0.06
79 32 0.34
80 8 0.09
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:55578425 original size:28 final size:28
Alignment explanation
Indices: 55578386--55578475 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
55578376 TGGCAAGTAG
*
55578386 TTGGGCCTGATGGGCCATATGAATGTGG
1 TTGGGCCTGATGGGCCATATGAATGTGA
55578414 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
55578442 TTGGGTCTGATGGGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
55578470 TTGGGC
1 TTGGGC
55578476 TTAAAGGGGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.19, C:0.13, G:0.39, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:55579019 original size:27 final size:26
Alignment explanation
Indices: 55578810--55579038 Score: 208
Period size: 27 Copynumber: 8.5 Consensus size: 26
55578800 CCCCCGACTG
* *
55578810 GTAAAATTATCGAAATACCCTCGATTT
1 GTAAAATTACCGAAATACCCT-TATTT
* *
55578837 GTAAAATTATCGAAATACCTCTGATTT
1 GTAAAATTACCGAAATACC-CTTATTT
* *
55578864 GTAAAATTACTGAAATACCTTTGATTT
1 GTAAAATTACCGAAATACCCTT-ATTT
* *
55578891 GTAAAATTACCGAAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCTTAT-TT
* * *
55578918 GTAGAATTACCGAAATGCCTTCTATTT
1 GTAAAATTACCGAAATACCCT-TATTT
55578945 GTAAAATTACCGAAATA-CCTTCGATTT
1 GTAAAATTACCGAAATACCCTT--ATTT
* *
55578972 GTAAAATTACTGAAATACCCTTATAGT
1 GTAAAATTACCGAAATACCCTTAT-TT
* * * *
55578999 GTAAAATTATCAAAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCTTAT-TT
*
55579026 GTAAAATGACCGA
1 GTAAAATTACCGA
55579039 CACACCCCTG
Statistics
Matches: 169, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 6 0.04
27 154 0.91
28 8 0.05
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (26 bp):
GTAAAATTACCGAAATACCCTTATTT
Found at i:55579029 original size:81 final size:81
Alignment explanation
Indices: 55578810--55579038 Score: 277
Period size: 81 Copynumber: 2.8 Consensus size: 81
55578800 CCCCCGACTG
* *
55578810 GTAAAATTA-TCGAAATACCCTCGAT-TTGTAAAATTATCGAAATACCTCTG-ATTTGTAAAATT
1 GTAAAATTACT-GAAATACCCT-TATAGTGTAAAATTATCGAAATACCT-TGTATTTGTAAAATT
* *
55578872 ACTGAAATACCTTTGATTT
63 ACCGAAATACCTTCGATTT
* * * * * *
55578891 GTAAAATTACCGAAATACCCTTGTAGTGTAGAATTACCGAAATGCCTTCTATTTGTAAAATTACC
1 GTAAAATTACTGAAATACCCTTATAGTGTAAAATTATCGAAATACCTTGTATTTGTAAAATTACC
55578956 GAAATACCTTCGATTT
66 GAAATACCTTCGATTT
* * *
55578972 GTAAAATTACTGAAATACCCTTATAGTGTAAAATTATCAAAATACCCTTGTA-GTGTAAAATGAC
1 GTAAAATTACTGAAATACCCTTATAGTGTAAAATTATCGAAATA-CCTTGTATTTGTAAAATTAC
55579036 CGA
65 CGA
55579039 CACACCCCTG
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
80 2 0.02
81 117 0.94
82 6 0.05
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (81 bp):
GTAAAATTACTGAAATACCCTTATAGTGTAAAATTATCGAAATACCTTGTATTTGTAAAATTACC
GAAATACCTTCGATTT
Found at i:55579045 original size:27 final size:27
Alignment explanation
Indices: 55578988--55579061 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
55578978 TTACTGAAAT
* * * *
55578988 ACCCTTATAGTGTAAAATTATCAAAAT
1 ACCCTTGTAGTGTAAAATGACCAAAAC
* *
55579015 ACCCTTGTAGTGTAAAATGACCGACAC
1 ACCCTTGTAGTGTAAAATGACCAAAAC
* *
55579042 ACCCCTGTAGGGTAAAATGA
1 ACCCTTGTAGTGTAAAATGA
55579062 TTGTTTTACC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
ACCCTTGTAGTGTAAAATGACCAAAAC
Found at i:55582191 original size:26 final size:26
Alignment explanation
Indices: 55582155--55582207 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
55582145 GTATCTGAAG
55582155 TTAGAAGTTTTCCAGGACTAGTTGCC
1 TTAGAAGTTTTCCAGGACTAGTTGCC
* *
55582181 TTAGAAGTTTTTCGGGACTAGTTGCC
1 TTAGAAGTTTTCCAGGACTAGTTGCC
55582207 T
1 T
55582208 ACTATTGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (26 bp):
TTAGAAGTTTTCCAGGACTAGTTGCC
Found at i:55584355 original size:55 final size:56
Alignment explanation
Indices: 55584233--55584423 Score: 296
Period size: 56 Copynumber: 3.4 Consensus size: 56
55584223 GACCATGGCA
*
55584233 TCGATATATGTGTGCGAGTAAGACCA-AGTTTAATACATTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACA-TTTAATACGTTGGCATCGATATGTGATT
*
55584289 TCGATATATGTGTGCGAGTAAGACCACATTTAATA-GGTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
* *
55584344 TCGATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
* * *
55584400 CCGATTTATGTGTGCAAGTAAGAC
1 TCGATATATGTGTGCGAGTAAGAC
55584424 TTTGTCTGGG
Statistics
Matches: 125, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
55 51 0.41
56 73 0.58
57 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
Found at i:55584442 original size:56 final size:55
Alignment explanation
Indices: 55584234--55584455 Score: 228
Period size: 56 Copynumber: 4.0 Consensus size: 55
55584224 ACCATGGCAT
* * * * * *
55584234 CGATATATGTGTGCGAGTAAGACCAAGTTTAATACATTGGCATCGATATGTGATTT
1 CGATATATGTGTGCAAGTAAGACCACGTATAAGAC-GTGGCATCGATATGTGATTC
* * * * * *
55584290 CGATATATGTGTGCGAGTAAGACCACATTTAATAGGTGGCATCGATATGTGATTT
1 CGATATATGTGTGCAAGTAAGACCACGTATAAGACGTGGCATCGATATGTGATTC
* *
55584345 CGATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCAAGTAAGACCACGTATAAGACG-TGGCATCGATATGTGATTC
* *** * **
55584401 CGATTTATGTGTGCAAGTAAGACTTTGTCTGGGACAGTGGCATCGATATGTGATT
1 CGATATATGTGTGCAAGTAAGACCACGTATAAGAC-GTGGCATCGATATGTGATT
55584456 AAATGTAAGA
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
55 52 0.35
56 94 0.64
57 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (55 bp):
CGATATATGTGTGCAAGTAAGACCACGTATAAGACGTGGCATCGATATGTGATTC
Found at i:55585541 original size:27 final size:26
Alignment explanation
Indices: 55585493--55585544 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55585483 GCGAGGCTGC
*
55585493 CAGATATTATGACGAAGTCACCAGAA
1 CAGATATTATGACGAAGCCACCAGAA
* *
55585519 CAGATATATATGGCGAGGCCACCAGA
1 CAGATAT-TATGACGAAGCCACCAGA
55585545 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTATGACGAAGCCACCAGAA
Found at i:55586390 original size:27 final size:27
Alignment explanation
Indices: 55586195--55586393 Score: 238
Period size: 27 Copynumber: 7.4 Consensus size: 27
55586185 GGGCAAAATG
* * * * *
55586195 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
55586222 GTAATTCCACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
55586248 GATATTTCTAACCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
55586276 GTAATTTTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
55586303 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
55586330 ATAATTCTACCCTACAGGGATATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
55586357 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
55586384 GTAATTCTAC
1 GTAATTCTAC
55586394 AACTTATCCA
Statistics
Matches: 146, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:55592316 original size:28 final size:29
Alignment explanation
Indices: 55592275--55592330 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
55592265 CTGGGGTTTT
* *
55592275 GGACACGGGTGTGT-CTAGGCCGTGTGAG
1 GGACACGGGCGTGTGCTAGGCCATGTGAG
*
55592303 GGACACGGGCGTGTGCTTGGCCATGTGA
1 GGACACGGGCGTGTGCTAGGCCATGTGA
55592331 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCATGTGAG
Found at i:55595379 original size:40 final size:40
Alignment explanation
Indices: 55595288--55595509 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
55595278 GAATCACGTA
* * ** * *
55595288 CCTTCGGGATTTA-ACCGGATATAACCACTCGCAT-AAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
*
55595326 CCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TCACTAGCATAAATG
* *
55595366 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
** * * *
55595406 CCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
* * * *
55595446 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAACACAAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCATAAATG
55595487 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
55595510 CATTCGAATA
Statistics
Matches: 150, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 92 0.61
41 26 0.17
42 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
Found at i:55595423 original size:80 final size:81
Alignment explanation
Indices: 55595325--55595509 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
55595315 CTCGCATAAG
*
55595325 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCATAAATGCCTTC-GGATCTTAGCCCGGATA
* * *
55595388 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAACACAAAA
* * * *
55595405 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
55595470 GTCACTTAACACAAAA
66 GTCACTTAACACAAAA
*
55595486 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
55595510 CATTCGAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.03
80 58 0.64
81 30 0.33
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
GTCACTTAACACAAAA
Found at i:55603523 original size:40 final size:40
Alignment explanation
Indices: 55603450--55603657 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
55603440 CGAGATTTAA
* *
55603450 CCGGATATAGCCACTCGCAC-AATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
55603489 CCGGATAT-GATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TCACTAGCACAAATGCCTTCGGGACTTAGC
* * *
55603529 CCGGATATAGTCGCTAGCACAAATGCCTTCGGG-TTTAGGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTA-GC
* * * *
55603569 CCGGATATAGTAACTCGCATAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAGC
* *
55603609 CCGGATATAGTCACTTAACACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAGC
55603650 CCGGATAT
1 CCGGATAT
55603658 CATTCGAATA
Statistics
Matches: 145, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 21 0.14
40 91 0.63
41 29 0.20
42 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:55609474 original size:15 final size:15
Alignment explanation
Indices: 55609456--55609484 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55609446 CCAAATTATT
55609456 AATGAAATATTTTAA
1 AATGAAATATTTTAA
55609471 AATGAAATATTTTA
1 AATGAAATATTTTA
55609485 TATTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
AATGAAATATTTTAA
Found at i:55619668 original size:151 final size:151
Alignment explanation
Indices: 55619387--55619782 Score: 569
Period size: 151 Copynumber: 2.6 Consensus size: 151
55619377 AAAGCTCTCT
* *
55619387 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGGCCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * * *
55619452 CTGTACTTAGTACTACACACATGACTTATCCATCTGATACACGTAGTAGCTTGCACTTAGGACTA
66 CTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAATAGCCTACACTTAGGACTA
* * * *
55619517 CAGACATGGTCG-AAGTTTACG
131 CACACATGATCGAAACTAT-CG
* * * *
55619538 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAATCCGGTACACGTACTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
55619603 TTGCACTTAGTACTACACACATGACCTAACCATCTGATACATGTAATAGCCTACACTTAGTACTA
66 CTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAATAGCCTACACTTAGGACTA
55619668 CACACATGATCGAAACTATCG
131 CACACATGATCGAAACTATCG
* * *
55619689 GGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
55619754 CTGCACTTAGTACTACACACGTGACCTAA
66 CTGCACTTAGTACTACACACATGACCTAA
55619783 AAATGCCTTA
Statistics
Matches: 216, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 212 0.98
152 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAATAGCCTACACTTAGGACTA
CACACATGATCGAAACTATCG
Found at i:55619693 original size:101 final size:101
Alignment explanation
Indices: 55619387--55619773 Score: 258
Period size: 101 Copynumber: 3.8 Consensus size: 101
55619377 AAAGCTCTCT
* * * * * * *
55619387 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGGCCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGCAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAGC
** ** * * *
55619452 CTGTACTTAGTACTACACACATGA-CTTATCCATCT
66 CTACACTTAGTACTACACACATGATCGAAACTATCG
* * * * * * * ** * *** * * ** * *
55619487 GATACACGTAGTAGCTTGCACTTAGGACTACAGACATGGTCGAAGTTTACGGGTATGCATAGTAG
1 GGTACACATAGCAGCCTGCACTTAGTACTACACACACGACCTAACAAT-CTGATACACGTAATAG
* *** * * * *
55619552 CCTGCACTTAGTACTACACATGCGACCG-ATCAATCC
65 CCTACACTTAGTACTACACACATGATCGAAACTATCG
* * * * *
55619588 GGTACACGTA-CTAGCTTGCACTTAGTACTACACACATGACCTAACCATCTGATACATGTAATAG
1 GGTACACATAGC-AGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAG
55619652 CCTACACTTAGTACTACACACATGATCGAAACTATCG
65 CCTACACTTAGTACTACACACATGATCGAAACTATCG
* ** * * *
55619689 GGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGC
1 GGTACACATAGCAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAGC
*
55619754 CTGCACTTAGTACTACACAC
66 CTACACTTAGTACTACACAC
55619774 GTGACCTAAA
Statistics
Matches: 220, Mismatches: 62, Indels: 9
0.76 0.21 0.03
Matches are distributed among these distances:
100 66 0.30
101 152 0.69
102 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
GGTACACATAGCAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAGC
CTACACTTAGTACTACACACATGATCGAAACTATCG
Found at i:55619782 original size:50 final size:50
Alignment explanation
Indices: 55619384--55619782 Score: 339
Period size: 50 Copynumber: 7.9 Consensus size: 50
55619374 ACCAAAGCTC
* * * * * *
55619384 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGGCCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
* * * *
55619434 TCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACATGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
* * * * ** * ***
55619484 TCTGATACACGTAGTAGCTTGCACTTAGGACTACAGACATGGTCGAAGTT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
* ** * *** * *
55619534 TACGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAA
1 T-CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
* * * *
55619585 TCCGGTACACGTACTAGCTTGCACTTAGTACTACACACATGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
* * * * ** *
55619635 TCTGATACATGTAATAGCCTACACTTAGTACTACACACATGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGA-CCTAACAA
* * * * ***
55619686 TCGGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
* *
55619736 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAA
55619783 AAATGCCTTA
Statistics
Matches: 267, Mismatches: 80, Indels: 4
0.76 0.23 0.01
Matches are distributed among these distances:
50 198 0.74
51 69 0.26
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACAA
Found at i:55620198 original size:19 final size:19
Alignment explanation
Indices: 55620176--55620218 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
55620166 AAGAACATGT
55620176 CATATCATCAAAATAATCA
1 CATATCATCAAAATAATCA
* * *
55620195 CATATTATCAAATTATTCA
1 CATATCATCAAAATAATCA
55620214 CATAT
1 CATAT
55620219 ATATCCTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CATATCATCAAAATAATCA
Found at i:55620487 original size:30 final size:30
Alignment explanation
Indices: 55620443--55620501 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
55620433 CAAAAATCAT
* *
55620443 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
* *
55620473 ACTTTCACATATTTACACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
55620502 GGCTTGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:55626387 original size:50 final size:50
Alignment explanation
Indices: 55626289--55626675 Score: 350
Period size: 50 Copynumber: 7.7 Consensus size: 50
55626279 TTGGTACGCA
* *
55626289 TAGTAGCCTA-ATCTTAGTACTACACATGCGACCTATCAATCT-AGTACACG
1 TAGTAGCCTACA-CTTAGTACTACACACGTGACCTATCAATCTGA-TACACG
* * *
55626339 TAGTAGCCTACACTTAGTACTACATACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* ** * * * * * *
55626389 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT-TAGCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCTA-TCAATCTGATACACG
* * ** *
55626440 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAATACATG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* *
55626490 TAGTAGCCTACACTTAGTACTACACA-GATGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACG-TGACCTATCAATCTGATACACG
* * ** * * * * *
55626540 TAGTAGTCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCTATCAATCTGATACACG
* * * * * *
55626591 TAGTAGCCTACACTTAGTACTACACATGCGACCGAACAATCTGGTACACA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* *
55626641 TAGTAGCCTGCACTTAGTACTACACACATGACCTA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTA
55626676 AAACTGTCTT
Statistics
Matches: 274, Mismatches: 55, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.01
50 191 0.70
51 80 0.29
52 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGATACACG
Found at i:55626544 original size:151 final size:151
Alignment explanation
Indices: 55626281--55626718 Score: 619
Period size: 151 Copynumber: 2.9 Consensus size: 151
55626271 GAAGCTCTTT
55626281 GGTACGCATAGTAGCCTA-ATCTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAG
1 GGTACGCATAGTAGCCTACA-CTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAG
* * *
55626345 CCTACACTTAGTACTACATACG-TGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTAC
65 CCTACACTTAGTACTACACA-GATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
**
55626409 TACACACGTGATCGAAGTTAGCG
129 TACACACGTGATCGAAACTAGCG
* * *
55626432 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAATACATGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
*
55626497 CTACACTTAGTACTACACAGATGACCTAACCATCTGATACACGTAGTAGTCTGCACTTAGTACTA
66 CTACACTTAGTACTACACAGATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
55626562 CACACGTGATCGAAACTATCG
131 CACACGTGATCGAAACTAGCG
* * * * *
55626583 GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCGAACAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
* * ** * * * *
55626648 CTGCACTTAGTACTACACACATGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTAC
66 CTACACTTAGTACTACACAGATGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
55626713 TACACA
129 TACACA
55626719 TGTGTTCTCA
Statistics
Matches: 256, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
150 1 0.00
151 219 0.86
152 1 0.00
153 35 0.14
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
CTACACTTAGTACTACACAGATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAACTAGCG
Found at i:55626595 original size:101 final size:102
Alignment explanation
Indices: 55626287--55626720 Score: 337
Period size: 101 Copynumber: 4.3 Consensus size: 102
55626277 CTTTGGTACG
* * * *
55626287 CATAGTAGCCTA-ATCTTAGTACTACACATGCGACCTATCAATCT-AGTACACGTAGTAGCCTAC
1 CATAGTAGCCTACA-CTTAGTACTACACATGCGACCGAACAATCTGA-TACACATAGTAGCCTGC
* * * * * * *
55626350 ACTTAGTACTACATACGTGA-CT-TATCCATCTGATACA
64 ACTTAGTACTACACACATGACCTAAAACTATCGGAAACA
* * * * * ** * * * * *
55626387 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAGCGGGTACGCATAGTAGCCTACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCGAA-CAATCTGATACACATAGTAGCCTGCA
*** * * *
55626452 CTTAGTACTACACATGCGACCT--ATCAATC-CAATACA
65 CTTAGTACTACACACATGACCTAAAACTATCGGAA-ACA
** * * * * *
55626488 TGTAGTAGCCTACACTTAGTACTACACA-GATGACCTAACCATCTGATACACGTAGTAGTCTGCA
1 CATAGTAGCCTACACTTAGTACTACACATG-CGACCGAACAATCTGATACACATAGTAGCCTGCA
* * * **
55626552 CTTAGTACTACACACGTGATC-GAAACTATCGGGTACA
65 CTTAGTACTACACACATGACCTAAAACTATCGGAAACA
*
55626589 CATAGTAGCCTACACTTAGTACTACACATGCGACCGAACAATCTGGTACACATAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCGAACAATCTGATACACATAGTAGCCTGCAC
* **
55626654 TTAGTACTACACACATGACCTAAAACTGTCTTAAACA
66 TTAGTACTACACACATGACCTAAAACTATCGGAAACA
* *
55626691 CATAGTAGCCTGCACATAGTACTACACATG
1 CATAGTAGCCTACACTTAGTACTACACATG
55626721 TGTTCTCACA
Statistics
Matches: 264, Mismatches: 59, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
100 66 0.25
101 157 0.59
102 41 0.16
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTACACTTAGTACTACACATGCGACCGAACAATCTGATACACATAGTAGCCTGCAC
TTAGTACTACACACATGACCTAAAACTATCGGAAACA
Found at i:55626696 original size:52 final size:52
Alignment explanation
Indices: 55626333--55626718 Score: 254
Period size: 50 Copynumber: 7.6 Consensus size: 52
55626323 ATCAATCTAG
* * * * * * * *
55626333 TACACGTAGTAGCCTACACTTAGTACTACATACGTGA-CT-TATCCATCTGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
* * * * ** * *
55626383 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAGTTAGCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
* * *** * * **
55626434 TACGCATAGTAGCCTACACTTAGTACTACACATGCGACCT--ATCAATCCAA
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
** * * * *
55626484 TACATGTAGTAGCCTACACTTAGTACTACACAGATGACCT--AACCATCTGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
* * * * * *
55626534 TACACGTAGTAGTCTGCACTTAGTACTACACACGTGATC-GAAACTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
* *** * *
55626585 TACACATAGTAGCCTACACTTAGTACTACACATGCGACC--GAACAATCTGG-
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATC-GGA
* **
55626635 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTGTCTTA
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
* *
55626687 AACACATAGTAGCCTGCACATAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
55626719 TGTGTTCTCA
Statistics
Matches: 267, Mismatches: 60, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
50 152 0.57
51 80 0.30
52 35 0.13
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (52 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTATCGGA
Found at i:55629926 original size:14 final size:14
Alignment explanation
Indices: 55629907--55629937 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
55629897 TCAAGCATTC
55629907 ATATTGAGCACTTT
1 ATATTGAGCACTTT
55629921 ATATTGAGCACTTT
1 ATATTGAGCACTTT
55629935 ATA
1 ATA
55629938 CCAAGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (14 bp):
ATATTGAGCACTTT
Found at i:55630867 original size:18 final size:18
Alignment explanation
Indices: 55630844--55630879 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
55630834 TCCACCCCCG
*
55630844 GTTAATCCTTCTCAAACA
1 GTTAATACTTCTCAAACA
55630862 GTTAATACTTCTCAAACA
1 GTTAATACTTCTCAAACA
55630880 TTTGATATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (18 bp):
GTTAATACTTCTCAAACA
Found at i:55640917 original size:43 final size:42
Alignment explanation
Indices: 55640869--55641025 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
55640859 AGCTCGTACA
55640869 ATGCCAATGTTCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTTCCAGACGTGGTCTTACATGTAATCAAA-ATCG
* *
55640912 ATGCC-AT-TATCCTAGACAG-GGTCTTACATGAAATCAAACA-CA
1 ATGCCAATGT-TCC-AGAC-GTGGTCTTACATGTAATCAAA-ATCG
** * *
55640954 ATGTTAATGTTTCAGACATGGTCTTACATGTAAATCACAAATCG
1 ATGCCAATGTTCCAGACGTGGTCTTACATGT-AATCA-AAATCG
*
55640998 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTTCCAGACGTGGTCTTACA
55641026 CAATATCACA
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 38 0.42
44 28 0.31
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTTCCAGACGTGGTCTTACATGTAATCAAAATCG
Found at i:55642476 original size:42 final size:42
Alignment explanation
Indices: 55642426--55642581 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
55642416 TAAGACTACG
* *
55642426 TGTAAGACCATATCTAAGATATGACATTGATATGAGACTTCA
1 TGTAAGACCATATCTGAGATATGGCATTGATATGAGACTTCA
* * * *
55642468 TGTTAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGAGATATGGCATTGATATGAGACTTCA
* * * *
55642510 TGTAAGACCATAGCTGCGCTATTGGCATTGATACGAGA-TTACA
1 TGTAAGACCATATCTGAGATA-TGGCATTGATATGAGACTT-CA
* *
55642553 TGTAAGACCATATCCGGGATATGGCATTG
1 TGTAAGACCATATCTGAGATATGGCATTG
55642582 GTACGGTATT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 63 0.66
43 32 0.34
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGAGATATGGCATTGATATGAGACTTCA
Found at i:55642562 original size:85 final size:84
Alignment explanation
Indices: 55642418--55642579 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 84
55642408 AGGGTTACTA
* * * *
55642418 AGACTACGTGTAAGACCATATCTAAGATATGACATTGATATGAGACTTCATGTTAGACCATATCT
1 AGACTACGTGTAAGACCATAGCTAAGATATGACATTGATACGAGACTTCATGTAAGACCATATCC
55642483 GGGATATGGCATCGATATG
66 GGGATATGGCATCGATATG
* ** * *
55642502 AGACTTCGTGTAAGACCATAGCTGCGCTATTGGCATTGATACGAGA-TTACATGTAAGACCATAT
1 AGACTACGTGTAAGACCATAGCTAAGATA-TGACATTGATACGAGACTT-CATGTAAGACCATAT
55642566 CCGGGATATGGCAT
64 CCGGGATATGGCAT
55642580 TGGTACGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 26 0.39
85 41 0.61
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (84 bp):
AGACTACGTGTAAGACCATAGCTAAGATATGACATTGATACGAGACTTCATGTAAGACCATATCC
GGGATATGGCATCGATATG
Found at i:55650960 original size:40 final size:40
Alignment explanation
Indices: 55650905--55651112 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
55650895 TGAATGATAC
* * *
55650905 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
55650945 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55650985 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
55651025 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
55651065 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55651105 CC-GGCTAA
1 CCGGGCTAA
55651113 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:55658047 original size:41 final size:41
Alignment explanation
Indices: 55658002--55658119 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55657992 TGAAAGATAA
55658002 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55658043 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55658073 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55658114 ATGTAG
1 ATGTAG
55658120 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55658057 original size:71 final size:71
Alignment explanation
Indices: 55657970--55658133 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55657960 GAGATGTATC
55657970 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55658035 AGGACA
66 AGGACA
55658041 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55658106 AGGACA
66 AGGACA
55658112 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55658134 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55665617 original size:41 final size:41
Alignment explanation
Indices: 55665572--55665689 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55665562 TGAAAGATAA
55665572 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55665613 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55665643 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55665684 ATGTAG
1 ATGTAG
55665690 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55665628 original size:71 final size:71
Alignment explanation
Indices: 55665540--55665703 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55665530 GAGATGTATC
55665540 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55665605 AGGACA
66 AGGACA
55665611 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55665676 AGGACA
66 AGGACA
55665682 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55665704 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55673651 original size:40 final size:38
Alignment explanation
Indices: 55673607--55673774 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 38
55673597 CGGGACTTTA
*
55673607 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATAT-AC-ACTTGCACAAATGCCTTCGGGTCTTAG
* *
55673647 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATAT-AC-ACTTGCACAAATGCCTTCGGGTCTTAG
* * *
55673687 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATA-C-ACTTGCACAAATGCCTTCGGGTCTTAG
* * *
55673727 CCCGGATATA-ATTTCCAGCATAATTGTCTTCGGG-CTTAG
1 CCCGGATATACACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
55673766 CCCGGATAT
1 CCCGGATAT
55673775 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.14
40 86 0.80
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (38 bp):
CCCGGATATACACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:55681782 original size:40 final size:40
Alignment explanation
Indices: 55681674--55681883 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
55681664 CGGGATTTAA
* * * * *
55681674 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
55681714 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55681754 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55681794 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55681834 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55681874 CCGGATATAT
1 CCGGATATAT
55681884 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:55683706 original size:47 final size:47
Alignment explanation
Indices: 55683580--55683794 Score: 340
Period size: 47 Copynumber: 4.5 Consensus size: 47
55683570 GGGCTGTCAC
55683580 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
***
55683627 ATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
*
55683678 ACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
55683725 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
* *
55683772 GCGCATGTTCACATCCATCACAT
1 ACGCATGTTCACATTCATCACAT
55683795 AAAATCCTAA
Statistics
Matches: 154, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
47 110 0.71
51 44 0.29
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (47 bp):
ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
Found at i:55688649 original size:46 final size:45
Alignment explanation
Indices: 55688593--55688765 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
55688583 TGGTTGAGCA
*
55688593 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
55688639 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
55688684 CATCCGAACTCGTTGA---GAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
55688729 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55688766 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 11, Indels: 26
0.74 0.08 0.19
Matches are distributed among these distances:
42 4 0.04
43 15 0.15
44 12 0.12
45 6 0.06
46 46 0.45
47 18 0.17
48 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:55688746 original size:90 final size:91
Alignment explanation
Indices: 55688590--55688758 Score: 261
Period size: 90 Copynumber: 1.8 Consensus size: 91
55688580 GGATGGTTGA
* *
55688590 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGA--TGAGTCCGAGTTCACTTATGGATGCGAATGCTCGAACTCGTTGAGT
55688655 TGAGTCCGAGTTCGTGAGATGTAACTAG
64 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
55688683 GCATCCGAACTCGTTGA-GAGTCCGAGTTCACTTATGGATGTGAATGC-CTGAGCTCGTTGAGTT
1 GCATCCGAACTCGTTGATGAGTCCGAGTTCACTTATGGATGCGAATGCTC-GAACTCGTTGAGTT
55688746 GAGTCCGAGTTCG
65 GAGTCCGAGTTCG
55688759 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
89 1 0.01
90 54 0.76
93 16 0.23
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (91 bp):
GCATCCGAACTCGTTGATGAGTCCGAGTTCACTTATGGATGCGAATGCTCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55690983 original size:29 final size:31
Alignment explanation
Indices: 55690951--55691008 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
55690941 TGTGCATTAT
*
55690951 ATATATATGATGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
55690980 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
55691009 TATGAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:55692180 original size:25 final size:25
Alignment explanation
Indices: 55692149--55692200 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
55692139 GCATAGTTTT
* *
55692149 GGTGCTTGTAGGTTTGACCTAATTG
1 GGTGCTTGTAGGTTTAACCCAATTG
55692174 GGTGCTTGTAGGTTTAACCCAATTG
1 GGTGCTTGTAGGTTTAACCCAATTG
55692199 GG
1 GG
55692201 GTGGCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (25 bp):
GGTGCTTGTAGGTTTAACCCAATTG
Found at i:55693361 original size:48 final size:48
Alignment explanation
Indices: 55693307--55693430 Score: 212
Period size: 48 Copynumber: 2.6 Consensus size: 48
55693297 TGAGATCCTA
* *
55693307 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGTGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACGTGTGAGCTAG
* *
55693355 TGTAAGACCATGTCTAGGACATAGCATCGGCCTCAACGTGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACGTGTGAGCTAG
55693403 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
55693431 ATTATGAGAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACGTGTGAGCTAG
Found at i:55694021 original size:21 final size:22
Alignment explanation
Indices: 55693991--55694034 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
55693981 ATGAGCTCAG
55693991 TTTTAGAAGAA-ATATCAGATTA
1 TTTTAGAAGAATATA-CAGATTA
*
55694013 TTTTA-AAGATTATACAGATTA
1 TTTTAGAAGAATATACAGATTA
55694034 T
1 T
55694035 GTAATGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTTAGAAGAATATACAGATTA
Found at i:55700894 original size:2 final size:2
Alignment explanation
Indices: 55700887--55700913 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55700877 ACATTTAAAC
55700887 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
55700914 ACCTATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55703191 original size:30 final size:30
Alignment explanation
Indices: 55703145--55703217 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
55703135 GAGGTGACAT
* * *
55703145 GAAAACCAAGACAAAGAAGCCCAAGACAAG
1 GAAATCCAAGATAAAGAAACCCAAGACAAG
* * * *
55703175 GAAATCCTAGATAAAGAAATCCAAGATACG
1 GAAATCCAAGATAAAGAAACCCAAGACAAG
55703205 GAAATCCAAGATA
1 GAAATCCAAGATA
55703218 CAATATTATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.53, C:0.19, G:0.18, T:0.10
Consensus pattern (30 bp):
GAAATCCAAGATAAAGAAACCCAAGACAAG
Found at i:55703195 original size:15 final size:15
Alignment explanation
Indices: 55703145--55703217 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 15
55703135 GAGGTGACAT
* *
55703145 GAAAACCAAGACAAA
1 GAAATCCAAGATAAA
** * *
55703160 GAAGCCCAAGACAAG
1 GAAATCCAAGATAAA
*
55703175 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
**
55703190 GAAATCCAAGATACG
1 GAAATCCAAGATAAA
55703205 GAAATCCAAGATA
1 GAAATCCAAGATA
55703218 CAATATTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.53, C:0.19, G:0.18, T:0.10
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:55710379 original size:22 final size:22
Alignment explanation
Indices: 55710354--55710405 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
55710344 CATTAGGAAC
55710354 TATGTGATCTGAGCTCATAAGA
1 TATGTGATCTGAGCTCATAAGA
* *
55710376 TATGTGGTCTGAGCTCATGAGA
1 TATGTGATCTGAGCTCATAAGA
55710398 TATGTGAT
1 TATGTGAT
55710406 ATATGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TATGTGATCTGAGCTCATAAGA
Found at i:55724087 original size:28 final size:29
Alignment explanation
Indices: 55724020--55724120 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
55724010 ATAGTGAATC
*
55724020 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
55724049 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
55724077 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
55724107 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55724121 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:55731824 original size:28 final size:29
Alignment explanation
Indices: 55731757--55731857 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
55731747 ATAGTGAATC
*
55731757 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
55731786 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
55731814 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
55731844 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55731858 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:55734499 original size:22 final size:21
Alignment explanation
Indices: 55734460--55734500 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
55734450 ATCAAATAGT
**
55734460 TCAATTCACATCCCATCATTC
1 TCAATTCACATCAAATCATTC
55734481 TCAATTCAACATCAAATCAT
1 TCAATTC-ACATCAAATCAT
55734501 CATTTCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (21 bp):
TCAATTCACATCAAATCATTC
Found at i:55738891 original size:13 final size:13
Alignment explanation
Indices: 55738872--55738902 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55738862 ATGGTTCACG
55738872 CATTGAGCTTGCA
1 CATTGAGCTTGCA
*
55738885 TATTGAGCTTGCA
1 CATTGAGCTTGCA
55738898 CATTG
1 CATTG
55738903 GGCTCGCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (13 bp):
CATTGAGCTTGCA
Found at i:55741942 original size:73 final size:73
Alignment explanation
Indices: 55741823--55741971 Score: 246
Period size: 73 Copynumber: 2.0 Consensus size: 73
55741813 ATGACACTCA
* ** *
55741823 AGAATTTTGAAAATAATTATTCCCTAGGTTGTTCAGAACCTACAAGGAAAAAACTACTTGGTCAA
1 AGAATTTCGAAAATAATTACACCCTAAGTTGTTCAGAACCTACAAGGAAAAAACTACTTGGTCAA
55741888 TATTATTG
66 TATTATTG
55741896 AGAATTTCGAAAATAATTACACCCTAAGTTGTTTC-GAACCTACAAGGAAAAAACTACTTGGTCA
1 AGAATTTCGAAAATAATTACACCCTAAGTTG-TTCAGAACCTACAAGGAAAAAACTACTTGGTCA
55741960 ATATTATTG
65 ATATTATTG
55741969 AGA
1 AGA
55741972 TGGCGTTGAA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 68 0.96
74 3 0.04
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (73 bp):
AGAATTTCGAAAATAATTACACCCTAAGTTGTTCAGAACCTACAAGGAAAAAACTACTTGGTCAA
TATTATTG
Found at i:55743092 original size:22 final size:22
Alignment explanation
Indices: 55743066--55743130 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
55743056 TTAGGGTTTT
55743066 TTAAGGTTTAATTA-ATTTAGGG
1 TTAAGGTTT-ATTAGATTTAGGG
*
55743088 TTAAGGTTTTTTAGGATTTAGGG
1 TTAAGGTTTATTA-GATTTAGGG
* *
55743111 TTAGGGTTTTTTAGGATTTA
1 TTAAGGTTTATTA-GATTTA
55743131 TAATTTAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 3 0.08
22 9 0.23
23 27 0.69
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (22 bp):
TTAAGGTTTATTAGATTTAGGG
Found at i:55743110 original size:23 final size:23
Alignment explanation
Indices: 55743080--55743130 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
55743070 GGTTTAATTA
55743080 ATTTAGGGTTAAGGTTTTTTAGG
1 ATTTAGGGTTAAGGTTTTTTAGG
*
55743103 ATTTAGGGTTAGGGTTTTTTAGG
1 ATTTAGGGTTAAGGTTTTTTAGG
55743126 ATTTA
1 ATTTA
55743131 TAATTTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (23 bp):
ATTTAGGGTTAAGGTTTTTTAGG
Found at i:55743249 original size:19 final size:19
Alignment explanation
Indices: 55743222--55743275 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
55743212 AGTTTAGGGT
55743222 ATTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
55743241 ATTAGGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
55743260 TTTACA-GTTAATTGAT
1 ATTA-AGGTTAATTGAT
55743276 ACATAATCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (19 bp):
ATTAAGGTTAATTGATTAA
Found at i:55744013 original size:125 final size:126
Alignment explanation
Indices: 55743806--55744059 Score: 375
Period size: 125 Copynumber: 2.0 Consensus size: 126
55743796 TTTTTGCAAG
* * * * *
55743806 AATAATTTTGAGTAGACGTTTCTGAACAAATAATGTCGAAAACACTTCAGGCAGGATTCACTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCGAAAACACTTCAAGCAAGATACACTGTC
* * *
55743871 AGCAAAATTTCTAAAAAAAGCTCCCACGTTAACGTTCTTTTGCTTCAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAAAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
55743932 AATAATTCTGAGTAGATGTTTCTGAACAAATAGTGTC-AAAACGCTTCAAGCAAGATACACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCGAAAACACTTCAAGCAAGATACACTGTC
* * *
55743996 AGCAAAATTTCTGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAAAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
55744057 AAT
1 AAT
55744060 GAGGCTATAA
Statistics
Matches: 114, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 80 0.70
126 34 0.30
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCGAAAACACTTCAAGCAAGATACACTGTC
AGCAAAATTTCTAAAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:55747503 original size:18 final size:18
Alignment explanation
Indices: 55747477--55747519 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
55747467 GACTAGGAAA
* *
55747477 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
55747495 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
55747513 AGGATAC
1 AGGATAC
55747520 GCACCTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:55749184 original size:48 final size:48
Alignment explanation
Indices: 55749130--55749264 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 48
55749120 ATGCAAACAT
*
55749130 CATAAATGAAAAAAAAATCAAGCAATATTG-AAATTTTAATTATAA-TTG
1 CATAAATGAAAAAAAAATCAAACAATATTGCAAA-TTTAATTA-AATTTG
* * * *
55749178 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAAAATCAAACAATATTGCAAATTTAATTAAATTTG
* * * * *
55749226 CATAAATTAAAAAAATATCGAATAGTATTGCAAATTTAA
1 CATAAATGAAAAAAAAATCAAACAATATTGCAAATTTAA
55749265 AATTATCACT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.03
48 72 0.94
49 3 0.04
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.33
Consensus pattern (48 bp):
CATAAATGAAAAAAAAATCAAACAATATTGCAAATTTAATTAAATTTG
Found at i:55749398 original size:15 final size:16
Alignment explanation
Indices: 55749366--55749398 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
55749356 TTTTTACTTT
55749366 AAAAAAATTAAATTCAA
1 AAAAAAATTAAA-TCAA
55749383 AAAAAAATTAAA-CAA
1 AAAAAAATTAAATCAA
55749398 A
1 A
55749399 GAATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAATTAAATCAA
Found at i:55760809 original size:50 final size:50
Alignment explanation
Indices: 55760755--55760857 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
55760745 AGTCTGAATC
*
55760755 AACAACTTGTTTGCATCCAATAACCTGCATTAGAGACATATTTTGAATTA
1 AACAACTTGTTTGCATCCAATAACCTACATTAGAGACATATTTTGAATTA
* *
55760805 AACAACTTGTTTGCATCCAGTACCCTACATTAGAGACATATTTTGAATTA
1 AACAACTTGTTTGCATCCAATAACCTACATTAGAGACATATTTTGAATTA
55760855 AAC
1 AAC
55760858 TTAGGCTAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (50 bp):
AACAACTTGTTTGCATCCAATAACCTACATTAGAGACATATTTTGAATTA
Found at i:55762543 original size:129 final size:129
Alignment explanation
Indices: 55762312--55762579 Score: 403
Period size: 129 Copynumber: 2.1 Consensus size: 129
55762302 TTGATTAATT
* * * *
55762312 AAATTCCATTAATGCAATTTAAACCATTGTAGCTGATTCATTGACTTTTTGTTGTTGATTGTTCA
1 AAATTCCATTAATGCAATTAAAACCATTGCAGCTGATTCATTGACTTCTTGTTATTGATTGTTCA
*
55762377 CTATTCTTTTACCAATACTAAACCTAGAAACGGTGGTTCTTTTATTTGAGATTTTTTATCAATAA
66 CTATTCTTTTACCAATACTAAACCTAGAAACGGTGGTT-TTTTATTTCAGATTTTTTATCAATAA
* *
55762442 AAATTCCATTAATGCTATTAAAACCATTGCAGGTGATTCATTGACTTCTT-TTATTGATTGTTCA
1 AAATTCCATTAATGCAATTAAAACCATTGCAGCTGATTCATTGACTTCTTGTTATTGATTGTTCA
* * * * *
55762506 TTTTTCTTTTATCAATACTAAAGCTAGAAATGGTGGTTTTTTATTTCAGATTTTTTATCAATAA
66 CTATTCTTTTACCAATACTAAACCTAGAAACGGTGGTTTTTTATTTCAGATTTTTTATCAATAA
*
55762570 AAATTTCATT
1 AAATTCCATT
55762580 CCAGTCATTT
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
128 34 0.27
129 46 0.37
130 45 0.36
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (129 bp):
AAATTCCATTAATGCAATTAAAACCATTGCAGCTGATTCATTGACTTCTTGTTATTGATTGTTCA
CTATTCTTTTACCAATACTAAACCTAGAAACGGTGGTTTTTTATTTCAGATTTTTTATCAATAA
Found at i:55765851 original size:40 final size:40
Alignment explanation
Indices: 55765789--55766006 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
55765779 AAGCCAAGTA
* * *
55765789 CCTTCGGGAATTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
55765828 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
55765868 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
55765908 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * *
55765948 CCTTCGGGACTTAGCTCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
55765988 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55766007 TTATCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 152 0.92
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:55773962 original size:40 final size:40
Alignment explanation
Indices: 55773900--55774117 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
55773890 AAGCCAAGTA
* * *
55773900 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
55773939 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
55773979 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
55774019 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
55774059 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
55774099 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55774118 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:55780397 original size:40 final size:39
Alignment explanation
Indices: 55780271--55780415 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
55780261 TGCTGGAAAT
* * * * *
55780271 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
55780310 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
55780351 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
55780390 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
55780416 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:55780440 original size:80 final size:81
Alignment explanation
Indices: 55780272--55780460 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55780262 GCTGGAAATT
* * * *
55780272 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55780337 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55780353 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55780416 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55780432 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55780461 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55788521 original size:40 final size:39
Alignment explanation
Indices: 55788356--55788539 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55788346 AAATTGAATG
* * *
55788356 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55788396 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55788436 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55788476 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55788515 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55788540 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55788564 original size:80 final size:81
Alignment explanation
Indices: 55788396--55788584 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55788386 GCTGGAAATT
* * * *
55788396 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55788461 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55788477 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55788540 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55788556 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55788585 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55792394 original size:47 final size:47
Alignment explanation
Indices: 55792320--55792413 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
55792310 TTTGTATTCT
* * *
55792320 GATATTTAGAATGCAAGACCTTTTCTGATCAATATTTGAGAACATAA
1 GATATCTAGAACGCAAGACCTTCTCTGATCAATATTTGAGAACATAA
** *
55792367 GATATCTAGAACGCAAGACCTTCTCTGATTGATATTTGAGCACATAA
1 GATATCTAGAACGCAAGACCTTCTCTGATCAATATTTGAGAACATAA
55792414 CATTACCATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (47 bp):
GATATCTAGAACGCAAGACCTTCTCTGATCAATATTTGAGAACATAA
Found at i:55797443 original size:29 final size:29
Alignment explanation
Indices: 55797375--55797446 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
55797365 ATCCACCACT
* * *
55797375 AATACATAGTACCTGATAACTGTAACATC
1 AATACAAAGTACCTGATAAATGTAACACC
* * *
55797404 AGTACAGAGTACCTGATAAATGTAATACC
1 AATACAAAGTACCTGATAAATGTAACACC
*
55797433 AATTCAAAGTACCT
1 AATACAAAGTACCT
55797447 AAACTGTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (29 bp):
AATACAAAGTACCTGATAAATGTAACACC
Found at i:55799146 original size:45 final size:45
Alignment explanation
Indices: 55799090--55799180 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
55799080 GAATTATGTG
* * *
55799090 ATCTGTACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGCGATCTGAGTTCATGATATATGTGAC
* *
55799135 ATCTGAACTCATTGAGTTGCGATCTGAGTTCTTGATGTATGTGAC
1 ATCTGAACTCATTGAGTTGCGATCTGAGTTCATGATATATGTGAC
55799180 A
1 A
55799181 CATGTTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGCGATCTGAGTTCATGATATATGTGAC
Found at i:55802378 original size:79 final size:81
Alignment explanation
Indices: 55802236--55802418 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
55802226 TACTCGTTCA
* * * *
55802236 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGAGTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
55802300 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
55802316 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCGCAAATGCCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
55802378 ATATAGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
55802395 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55802419 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:55802418 original size:40 final size:40
Alignment explanation
Indices: 55802215--55802418 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
55802205 CGGAATTTAA
** *
55802215 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
55802255 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGAGTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55802295 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55802334 CCGGA-ATTAGTAACTCGCGCAAATGCCTT-TGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
55802374 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55802414 CCGGA
1 CCGGA
55802419 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 30 0.22
40 93 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55807369 original size:40 final size:40
Alignment explanation
Indices: 55807302--55807653 Score: 571
Period size: 40 Copynumber: 8.8 Consensus size: 40
55807292 CCAGCATGAT
* * *
55807302 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
55807342 TGCTCTT-TGAGACTTAGTCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
* *
55807382 TGCTCTTCGGGACTTAGTCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
55807422 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
55807462 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
55807502 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
55807542 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
55807582 TGCTCTTCGGGATTTAGTCCGGTTACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
55807622 TGCTCTTCGGAACTTAGTCCGGATACACCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
55807654 CTCAATTCTC
Statistics
Matches: 291, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 289 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:55808958 original size:37 final size:37
Alignment explanation
Indices: 55808891--55808999 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
55808881 AGCTCAGACG
* * * *
55808891 AAATCTCCACACGAAGTTATCAGGTGTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55808928 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55808965 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55809000 ATACATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55809102 original size:48 final size:48
Alignment explanation
Indices: 55809044--55809525 Score: 847
Period size: 48 Copynumber: 10.0 Consensus size: 48
55809034 TGTTACAACA
55809044 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
55809092 TGCACATTAGCCATTCGGCTTTACCACATATACATCTCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
55809140 TTCACATCAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
55809188 TTCATATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
55809236 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
55809284 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
55809332 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
55809380 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
55809428 TTCACATTAGCCATTCGGCTTTACCACATATACATATGACATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
55809476 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
55809524 TT
1 TT
55809526 ATCTTGTACA
Statistics
Matches: 416, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 416 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:55819292 original size:79 final size:80
Alignment explanation
Indices: 55819183--55819364 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
55819173 TACTCGTTCA
* * *
55819183 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTT--GGATCTTAACCCGG
* *
55819246 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
55819263 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTGGATCTTAACCCGGAT
*
55819326 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
55819341 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55819365 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 3 0.03
78 28 0.31
79 45 0.51
80 13 0.15
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:55819364 original size:40 final size:40
Alignment explanation
Indices: 55819162--55819364 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55819152 CGGAATTTAA
** *
55819162 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55819202 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55819242 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55819281 CCGGA-ATTAGTAACTCGCACAAATGCCTT--GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
55819320 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55819360 CCGGA
1 CCGGA
55819365 CATCATTCGA
Statistics
Matches: 140, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.01
39 53 0.38
40 82 0.59
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55825896 original size:45 final size:45
Alignment explanation
Indices: 55825827--55825917 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
55825817 GAATTATGTG
*
55825827 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATACGTGAC
1 ATCTAAACTCATTAAGTTGTGGTCTGAGTTCATGATATACGTGAC
* * *
55825872 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATCTAAACTCATTAAGTTGTGGTCTGAGTTCATGATATACGTGAC
55825917 A
1 A
55825918 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (45 bp):
ATCTAAACTCATTAAGTTGTGGTCTGAGTTCATGATATACGTGAC
Found at i:55836727 original size:47 final size:47
Alignment explanation
Indices: 55836668--55837046 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
55836658 TTAGGATTTT
* ** * *
55836668 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55836715 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55836762 ATGTGATCAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55836809 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55836856 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55836903 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55836950 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
55836997 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
55837044 ATG
1 ATG
55837047 CGAAATGTGT
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 311 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55837003 original size:22 final size:22
Alignment explanation
Indices: 55836928--55837003 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
55836918 ACATGCATAT
*
55836928 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
55836950 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
55836974 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
55836997 ATGTGAT
1 ATGTGAT
55837004 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:55837076 original size:46 final size:46
Alignment explanation
Indices: 55837020--55837202 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
55837010 GGAAGTGTAT
*
55837020 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
55837066 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
55837112 ATATGAGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
55837158 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
55837203 TGTATATATA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:55846062 original size:30 final size:30
Alignment explanation
Indices: 55846026--55846215 Score: 282
Period size: 30 Copynumber: 6.5 Consensus size: 30
55846016 GACAAGATTG
* * * * *
55846026 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
55846056 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
55846084 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55846113 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55846143 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55846173 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55846202 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55846216 GATTCACTAT
Statistics
Matches: 150, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.01
28 22 0.15
29 49 0.33
30 75 0.50
31 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55846153 original size:59 final size:60
Alignment explanation
Indices: 55846026--55846215 Score: 282
Period size: 59 Copynumber: 3.2 Consensus size: 60
55846016 GACAAGATTG
* * * * * *
55846026 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
55846084 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
55846143 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
55846202 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55846216 GATTCACTAT
Statistics
Matches: 122, Mismatches: 6, Indels: 7
0.90 0.04 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.16
58 20 0.16
59 51 0.42
60 29 0.24
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55846206 original size:89 final size:87
Alignment explanation
Indices: 55846026--55846215 Score: 292
Period size: 89 Copynumber: 2.2 Consensus size: 87
55846016 GACAAGATTG
* * * * *
55846026 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAA
55846091 GTGTGCGAGCTGAAAATATATA
66 GTGTGCGAGCTGAAAATATATA
*
55846113 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATTATATAGCAC
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG---ATTATATAGCAC
55846177 TAAGTGTGCGAGCTGAAAATATATA
63 TAAGTGTGCGAGCTGAAAATATATA
55846202 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55846216 GATTCACTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
86 2 0.02
87 41 0.44
89 51 0.54
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (87 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAA
GTGTGCGAGCTGAAAATATATA
Found at i:55853893 original size:30 final size:30
Alignment explanation
Indices: 55853857--55854016 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
55853847 GACAAGATTG
* * * * *
55853857 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
55853887 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
55853915 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55853944 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55853974 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55854003 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55854017 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55853984 original size:59 final size:57
Alignment explanation
Indices: 55853857--55854016 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
55853847 GACAAGATTG
* * * * * *
55853857 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
55853915 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
55853974 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
55854017 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:55862673 original size:40 final size:40
Alignment explanation
Indices: 55862618--55862694 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
55862608 ACATGGTATG
55862618 AAGAGCTTGGGTTTCCCTTTTATTTATTTATTTATTTATC
1 AAGAGCTTGGGTTTCCCTTTTATTTATTTATTTATTTATC
55862658 AAGAGCTTGGGTTTCCCTTTTATTTATTTATTTATTT
1 AAGAGCTTGGGTTTCCCTTTTATTTATTTATTTATTT
55862695 CTTTTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.56
Consensus pattern (40 bp):
AAGAGCTTGGGTTTCCCTTTTATTTATTTATTTATTTATC
Found at i:55863152 original size:65 final size:67
Alignment explanation
Indices: 55863039--55863174 Score: 195
Period size: 65 Copynumber: 2.1 Consensus size: 67
55863029 TGGTTGTTCG
55863039 TTGTCCTCCTTATTCTACTCTATTTTCAAATGTCATCCTCTCGATTTAATAACCCCTTTCGGGGG
1 TTGTCCTCCTTATTCTACTCTATTTTCAAATGTCATCCTCTCGATTTAATAACCCCTTTCGGGGG
55863104 CC
66 CC
* * ** * * *
55863106 TTGT-CTCCTTGTTCTGCTCTATTTT-TGATGTCCTCCTCTCGGTTTAATAACCCCTTTTGGGGG
1 TTGTCCTCCTTATTCTACTCTATTTTCAAATGTCATCCTCTCGATTTAATAACCCCTTTCGGGGG
55863169 CC
66 CC
55863171 TTGT
1 TTGT
55863175 TTGAGCTTTG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 39 0.63
66 19 0.31
67 4 0.06
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.43
Consensus pattern (67 bp):
TTGTCCTCCTTATTCTACTCTATTTTCAAATGTCATCCTCTCGATTTAATAACCCCTTTCGGGGG
CC
Found at i:55864954 original size:5 final size:5
Alignment explanation
Indices: 55864943--55864978 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
55864933 CATAATTAAT
* *
55864943 TCATA CCATA CCATA TCATA TCATA TCATA TCATA T
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA T
55864979 ATTTCCTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (5 bp):
TCATA
Found at i:55870250 original size:46 final size:46
Alignment explanation
Indices: 55870197--55870371 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
55870187 ATTTGGGCAG
*
55870197 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
** *** * * *
55870243 CCGAACTCGTTGAGTTGAGTTTGAGTTCGAAAGATGTA-AC-AAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA--CGT
* *
55870290 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
*
55870336 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55870372 GTGGGTTACA
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 32 0.30
48 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
Found at i:55870362 original size:93 final size:93
Alignment explanation
Indices: 55870192--55870363 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
55870182 AGGATATTTG
* *
55870192 GGCAGCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCAGCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
**
55870257 TTGAGTTTGAGTTCGAAAGATGTAACAA
66 TTGAGTCCGAGTTCGAAAGATGTAACAA
* * *
55870285 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCAGCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55870350 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55870364 ACTTATGGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCAGCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAAAGATGTAACAA
Found at i:55873934 original size:42 final size:42
Alignment explanation
Indices: 55873888--55873980 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
55873878 ACGTTGTAAC
** * ** *
55873888 GAGAAGAAACTTTTTGTCCCGACGAGTAGCCGACGTCACGGT
1 GAGAAGAAACTCCTCGTCCCGACGAACAGCCGACGTCACGAT
*
55873930 GAGAAGAAAGTCCTCGTCCCGACGAACAGCCGACGTCACGAT
1 GAGAAGAAACTCCTCGTCCCGACGAACAGCCGACGTCACGAT
55873972 GAGAAGAAA
1 GAGAAGAAA
55873981 GCCGTCATCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.28, T:0.15
Consensus pattern (42 bp):
GAGAAGAAACTCCTCGTCCCGACGAACAGCCGACGTCACGAT
Found at i:55881097 original size:27 final size:27
Alignment explanation
Indices: 55881067--55881149 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
55881057 GATGCAAATG
* *
55881067 TATATAGTGAGTCCGCACACTTAGTGC
1 TATATAATAAGTCCGCACACTTAGTGC
*
55881094 TATATAATCAG-CTCGCACACTTAGTGC
1 TATATAATAAGTC-CGCACACTTAGTGC
* *
55881121 TATATAATCAAATTCGCACACTTAGTGC
1 TATATAAT-AAGTCCGCACACTTAGTGC
55881149 T
1 T
55881150 GTACAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 31 0.65
28 16 0.33
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
TATATAATAAGTCCGCACACTTAGTGC
Done.