Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 162 of 345
Found at i:55304977 original size:39 final size:39
Alignment explanation
Indices: 55304923--55305066 Score: 209
Period size: 39 Copynumber: 3.7 Consensus size: 39
55304913 AGTGATGGAG
*
55304923 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
55304962 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
55305001 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
55305040 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
55305067 TCGAGCTGGT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 5 0.05
39 91 0.95
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:55305075 original size:39 final size:38
Alignment explanation
Indices: 55304993--55305106 Score: 104
Period size: 39 Copynumber: 2.9 Consensus size: 38
55304983 CAGGCTATGT
* * * *
55304993 GCTGGAATTATATCCGGACTTAAGGT-CCGCAGGCTACGT
1 GCTGGAATTAT-TCCGGGC-TAAAGTCCCGCAGGCTTCGA
*
55305032 GCTGGAAATATGTCCGGGCTAAAGTCCCGCAGGCTTCGA
1 GCTGGAATTAT-TCCGGGCTAAAGTCCCGCAGGCTTCGA
* * * *
55305071 GCTGGTATTATACCGGGTTTAAATTCCCGCAGGCTT
1 GCTGGAATTATTCCGGG-CTAAAGTCCCGCAGGCTT
55305107 ATGCTGGTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.16
39 52 0.84
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (38 bp):
GCTGGAATTATTCCGGGCTAAAGTCCCGCAGGCTTCGA
Found at i:55305075 original size:78 final size:78
Alignment explanation
Indices: 55304923--55305086 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
55304913 AGTGATGGAG
* * *
55304923 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTAGAATTATATCCGGACTTAAGGTCCACAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAATATATCCGGACTTAAAGTCCACAGGC
*
55304988 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
55305001 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAATATATCCGGACTTAAAGT-CCACAGG
*
55305065 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
55305079 TATA-CCGG
1 TATATCCGG
55305087 GTTTAAATTC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 10 0.13
78 65 0.87
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAATATATCCGGACTTAAAGTCCACAGGC
TATGAGCTGGAAT
Found at i:55306656 original size:27 final size:27
Alignment explanation
Indices: 55306612--55306860 Score: 127
Period size: 27 Copynumber: 9.2 Consensus size: 27
55306602 CAAAACAGTC
* * *
55306612 ATTTTACCCTACAGGGGTATTTTAATA
1 ATTTTACACTATAGGGGTATTTCAATA
* *
55306639 ATTTTACACTATAAGGGTATTTCAGTA
1 ATTTTACACTATAGGGGTATTTCAATA
*
55306666 ATTTTACA-AATCAGGGGTATTTCAATA
1 ATTTTACACTAT-AGGGGTATTTCAATA
* * **
55306693 ATTTTACA-AATCGAGGGTATTTCGGTA
1 ATTTTACACTATAG-GGGTATTTCAATA
* * * **
55306720 ATTTTACA-AATTGGGGGCATTTCGTTA
1 ATTTTACACTA-TAGGGGTATTTCAATA
* * ***
55306747 ATTTTACA-AATTGGGGGTATTTTGGTA
1 ATTTTACACTA-TAGGGGTATTTCAATA
* *
55306774 ATTTTACA-AATTAGGGGTATTTCGATA
1 ATTTTACACTA-TAGGGGTATTTCAATA
* * *
55306801 ATTTTACA-AACAGGGGGTATTTCGATA
1 ATTTTACACTATA-GGGGTATTTCAATA
* *
55306828 ATTTTACAAACT-T-GGGGTATATCGATA
1 ATTTTAC--ACTATAGGGGTATTTCAATA
55306855 ATTTTA
1 ATTTTA
55306861 AAAAACGAGG
Statistics
Matches: 191, Mismatches: 24, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
26 4 0.02
27 184 0.96
28 2 0.01
29 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTTACACTATAGGGGTATTTCAATA
Found at i:55306671 original size:54 final size:55
Alignment explanation
Indices: 55306623--55306860 Score: 204
Period size: 54 Copynumber: 4.4 Consensus size: 55
55306613 TTTTACCCTA
* *
55306623 CAGGGGTATTTTAATAATTTTACACTAT-AAGGGTATTTCAGTAATTTTA-CAAAT
1 CAGGGGTATTTCAATAATTTTACA-AATCAAGGGTATTTCAGTAATTTTACCAAAT
* *
55306677 CAGGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTA-CAAAT
1 CAGGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACCAAAT
** * ** *** **
55306731 TGGGGGCATTTCGTTAATTTTACAAATTGGGGGTATTTTGGTAATTTTA-CAAAT
1 CAGGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACCAAAT
* * *
55306785 TAGGGGTATTTCGATAATTTTACAAA-CAGGGGGTATTTC-GATAATTTTA-CAAA-
1 CAGGGGTATTTCAATAATTTTACAAATCA-AGGGTATTTCAG-TAATTTTACCAAAT
* * *
55306838 CTTGGGGTATATCGATAATTTTA
1 C-AGGGGTATTTCAATAATTTTA
55306861 AAAAACGAGG
Statistics
Matches: 159, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.02
54 156 0.98
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (55 bp):
CAGGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACCAAAT
Found at i:55306749 original size:81 final size:81
Alignment explanation
Indices: 55306664--55306870 Score: 247
Period size: 81 Copynumber: 2.6 Consensus size: 81
55306654 GGTATTTCAG
* *
55306664 TAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAA
1 TAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAA
** *
55306729 ATTGGGGGCATTTCGT
66 ACAGGGGGCATTTCGA
** * * *
55306745 TAATTTTACAAATTGGGGGTATTTTGGTAATTTTACAAAT-TAGGGGTATTTCGATAATTTTACA
1 TAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAATCGA-GGGTATTTCGATAATTTTACA
*
55306809 AACAGGGGGTATTTCGA
65 AACAGGGGGCATTTCGA
* * * *
55306826 TAATTTTACAAA-CTTGGGGTATATCGATAATTTTAAAAAACGAGG
1 TAATTTTACAAATC-AGGGGTATTTCGATAATTTTACAAATCGAGG
55306871 TCTTAACGAC
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 102 0.98
82 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
TAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAA
ACAGGGGGCATTTCGA
Found at i:55311575 original size:30 final size:30
Alignment explanation
Indices: 55311541--55311601 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55311531 TTCCCGAGCC
55311541 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
55311571 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
55311601 T
1 T
55311602 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:55317353 original size:27 final size:27
Alignment explanation
Indices: 55317317--55317480 Score: 186
Period size: 27 Copynumber: 6.0 Consensus size: 27
55317307 ACATGCCAGA
*
55317317 AAATAGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * * * *
55317344 AAATGGAAG-CTTTCATGACGTACCTATA
1 AAATGGAAGCCTTT-GTGGC-AATCTATG
*
55317372 AAATGGAAGCCTTTATGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
55317399 AAATGGAAGCCTTCGTGGCATATCTATA
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
* **
55317427 AAATGAAAGCCTTTGTGAAAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
55317454 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
55317481 GAAAAGAACA
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.04
27 64 0.57
28 40 0.36
29 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:55317400 original size:55 final size:55
Alignment explanation
Indices: 55317316--55317466 Score: 212
Period size: 55 Copynumber: 2.7 Consensus size: 55
55317306 AACATGCCAG
* * *
55317316 AAAATAGAAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACGTACCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTCATGACATACCTAT
* * * *
55317371 AAAATGGAAGCCTTTATGGCAATCTATGAAATGGAAGCCTTCGTGGCATATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTCATGACATACCTAT
* **
55317426 AAAATGAAAGCCTTTGTGAAAATCTATGAAATGGAAGCCTT
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCCTT
55317467 TGTGGCAATC
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 85 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (55 bp):
AAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCCTTCATGACATACCTAT
Found at i:55325026 original size:21 final size:21
Alignment explanation
Indices: 55325012--55325055 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
55325002 TAACTAATAT
*
55325012 TAAGTTAATTATAACACCTTA
1 TAAGTTAATTATAACACATTA
*
55325033 TAAGTTAATTATAACACCTTA
1 TAAGTTAATTATAACACATTA
55325054 TA
1 TA
55325056 CTTGGCCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAGTTAATTATAACACATTA
Found at i:55328254 original size:29 final size:29
Alignment explanation
Indices: 55328221--55328309 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
55328211 GAGTGTGACA
55328221 CTCCTTCTATCTTCTTCGTTCTATTCTTT
1 CTCCTTCTATCTTCTTCGTTCTATTCTTT
55328250 CTCCTTCTATCTTCTTCGTTCTATTCTTT
1 CTCCTTCTATCTTCTTCGTTCTATTCTTT
*
55328279 CTCCTTCTATCTTCTTTGTTCTATTCTTT
1 CTCCTTCTATCTTCTTCGTTCTATTCTTT
55328308 CT
1 CT
55328310 TTCTCTTTGG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.07, C:0.30, G:0.03, T:0.60
Consensus pattern (29 bp):
CTCCTTCTATCTTCTTCGTTCTATTCTTT
Found at i:55329444 original size:19 final size:20
Alignment explanation
Indices: 55329413--55329470 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
55329403 ACTAGTTTTA
*
55329413 AAACAGTTTTAACTTG-TTG
1 AAACAATTTTAACTTGATTG
*
55329432 AAA-AATGTTTAACTCGATTG
1 AAACAAT-TTTAACTTGATTG
*
55329452 AAACCATTTTAACTTGATT
1 AAACAATTTTAACTTGATT
55329471 ACAAGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 17 0.53
21 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (20 bp):
AAACAATTTTAACTTGATTG
Found at i:55335302 original size:12 final size:12
Alignment explanation
Indices: 55335283--55335316 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55335273 AGAAAGAAAA
55335283 GAGTGAAAAGGT
1 GAGTGAAAAGGT
* *
55335295 GTGTGAAAAAGT
1 GAGTGAAAAGGT
55335307 GAGTGAAAAG
1 GAGTGAAAAG
55335317 AAACGAGGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.18
Consensus pattern (12 bp):
GAGTGAAAAGGT
Found at i:55354539 original size:13 final size:13
Alignment explanation
Indices: 55354521--55354545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55354511 AAAATTAGTA
55354521 AAAATAATAAATT
1 AAAATAATAAATT
55354534 AAAATAATAAAT
1 AAAATAATAAAT
55354546 AAGAAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAATAAATT
Found at i:55361096 original size:51 final size:49
Alignment explanation
Indices: 55360974--55361166 Score: 217
Period size: 49 Copynumber: 3.9 Consensus size: 49
55360964 TATTGTGAGG
* * * *
55360974 TCACGTGTGTAGTACTAAGTGCAGGATACTAAGTGTA-CATGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA-GATAATTGA
* * *
55361023 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GA
* * * * *
55361074 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
** *
55361123 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
55361167 GCTTGACTAC
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 75 0.62
50 5 0.04
51 40 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
Found at i:55361147 original size:100 final size:100
Alignment explanation
Indices: 55360974--55361166 Score: 325
Period size: 100 Copynumber: 1.9 Consensus size: 100
55360964 TATTGTGAGG
*
55360974 TCACGTGTGTAGTACTAAGTGCAGGATACTAAGTGTACATGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGATACTAAGTGTACAGGATAATTGGTCGCATGTGTAGTACT
*
55361039 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * *
55361074 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GGATAATTGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGATACTAAGTGTA-CAGGATAATTGGTCGCATGTGTAGTAC
55361138 TAAGTGCAGGCTACTATGCGTACCAGATA
65 TAAGTGCAGGCTACTATGCGTACCAGATA
55361167 GCTTGACTAC
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 86 0.99
101 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGATACTAAGTGTACAGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:55367799 original size:24 final size:24
Alignment explanation
Indices: 55367730--55367800 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
55367720 TGCTATCCAA
**
55367730 AGCTCCTTGA-TAATAACTCTTCGG
1 AGCTCCTTGATTAA-AACTCTTATG
* *
55367754 AGCTACTTG-TT-AAGCTC-TATG
1 AGCTCCTTGATTAAAACTCTTATG
55367775 AGCTCCTTGATTAAAACTCTTATG
1 AGCTCCTTGATTAAAACTCTTATG
55367799 AG
1 AG
55367801 TTTCCTATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
21 10 0.27
22 6 0.16
23 6 0.16
24 15 0.41
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (24 bp):
AGCTCCTTGATTAAAACTCTTATG
Found at i:55379941 original size:93 final size:93
Alignment explanation
Indices: 55379832--55380003 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55379822 CGCCCATAAG
* * *
55379832 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55379897 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55379925 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55379990 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55380004 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55380000 original size:46 final size:46
Alignment explanation
Indices: 55379825--55380000 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55379815 TGTAACCCGC
* * *
55379825 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55379871 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55379921 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55379964 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55380001 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55385997 original size:21 final size:21
Alignment explanation
Indices: 55385973--55386015 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
55385963 CAACCAAAGA
*
55385973 ATACCAAAATTATTATAACTT
1 ATACCAAAATCATTATAACTT
55385994 ATACCAAAATCATTATAACTT
1 ATACCAAAATCATTATAACTT
55386015 A
1 A
55386016 CATAAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (21 bp):
ATACCAAAATCATTATAACTT
Found at i:55386834 original size:40 final size:40
Alignment explanation
Indices: 55386748--55386843 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
55386738 TATCTTGGTA
*
55386748 TCGCACACTTAGTGCCTTATATAGCTAAAGCTATTCCAGC
1 TCGCACACTTAGTGCCTTATATAGCTAAAGCTATTCCAAC
* * * *
55386788 TTGCACACTTAGTGCCATT-TGTAGCTGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCC-TTATATAGCTAAAGCTA-TTCCAAC
55386829 -CGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
55386844 GAACATAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (40 bp):
TCGCACACTTAGTGCCTTATATAGCTAAAGCTATTCCAAC
Found at i:55387873 original size:13 final size:13
Alignment explanation
Indices: 55387855--55387879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55387845 ACAAACGATT
55387855 AAATTTTCATACG
1 AAATTTTCATACG
55387868 AAATTTTCATAC
1 AAATTTTCATAC
55387880 ATGCTTAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:55397507 original size:26 final size:26
Alignment explanation
Indices: 55397478--55397530 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
55397468 CCAAACATGC
55397478 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
55397504 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
55397530 A
1 A
55397531 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:55403757 original size:53 final size:49
Alignment explanation
Indices: 55403636--55403758 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 49
55403626 ACATTTAATA
* **
55403636 AAGTTATGCATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATAAAT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAAT
* *
55403685 AATGACATGCATTATGTAACTCCCATGTTAGTTAACGTTTGCATCTTTAAAATT
1 AA-GTCATGCATTATGTAACTCCCATGTTAGTTAA-GTTTGCATC-AT-AAA-T
55403739 AAGTCATGCATTCA-GTAACT
1 AAGTCATGCATT-ATGTAACT
55403759 TATTTGTTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
49 2 0.03
50 28 0.45
51 9 0.15
52 1 0.02
53 18 0.29
54 4 0.06
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (49 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAAT
Found at i:55407977 original size:31 final size:31
Alignment explanation
Indices: 55407942--55408006 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
55407932 ATATGTTAAA
* * * *
55407942 GTTAGTTTATGTATGTGTGTTATTTAATTTG
1 GTTAGTTTATGTAGGAGTGCTATTTAATATG
55407973 GTTAGTTTATGTAGGAGTGCTATTTAATATG
1 GTTAGTTTATGTAGGAGTGCTATTTAATATG
55408004 GTT
1 GTT
55408007 GTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.25, T:0.52
Consensus pattern (31 bp):
GTTAGTTTATGTAGGAGTGCTATTTAATATG
Found at i:55409576 original size:28 final size:29
Alignment explanation
Indices: 55409530--55409584 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
55409520 ACCAATCTCT
*
55409530 TTCATATGACCCATTAGGCCCAAATCATA
1 TTCATATGACCCACTAGGCCCAAATCATA
*
55409559 TTCATATG-GCCACTAGGCCCAAATCA
1 TTCATATGACCCACTAGGCCCAAATCA
55409585 CATTTACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (29 bp):
TTCATATGACCCACTAGGCCCAAATCATA
Found at i:55412209 original size:57 final size:56
Alignment explanation
Indices: 55412114--55412221 Score: 153
Period size: 57 Copynumber: 1.9 Consensus size: 56
55412104 TTCACATACT
*
55412114 TGTATCTGGCCCATTAAGCCCAATCATATTCAGATGGCCCATTAGGCCCAGATCAC
1 TGTATCTGGCCCATTAAGCCCAATCACATTCAGATGGCCCATTAGGCCCAGATCAC
* * * * *
55412170 TGTATGTGGCCTATTAGGCCCAAATCACATTTATATGGCCCATTAGGCCCAG
1 TGTATCTGGCCCATTAAGCCC-AATCACATTCAGATGGCCCATTAGGCCCAG
55412222 TTACATTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
56 18 0.40
57 27 0.60
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (56 bp):
TGTATCTGGCCCATTAAGCCCAATCACATTCAGATGGCCCATTAGGCCCAGATCAC
Found at i:55412218 original size:29 final size:29
Alignment explanation
Indices: 55412120--55412220 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 29
55412110 TACTTGTATC
* * * *
55412120 TGGCCCATTAAGCCC-AATCATATTCAGA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
55412148 TGGCCCATTAGGCCCAGATCAC-TGTATG
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
55412176 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
55412205 TGGCCCATTAGGCCCA
1 TGGCCCATTAGGCCCA
55412221 GTTACATTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 36 0.61
29 23 0.39
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:55412314 original size:17 final size:18
Alignment explanation
Indices: 55412292--55412325 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55412282 TGCCTATTAT
55412292 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
55412309 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
55412326 TACGGCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:55412457 original size:8 final size:8
Alignment explanation
Indices: 55412456--55412482 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
55412446 TTGGCTTTTT
55412456 GGCATTTC
1 GGCATTTC
55412464 GGCATTTC
1 GGCATTTC
55412472 GGCATTTC
1 GGCATTTC
55412480 GGC
1 GGC
55412483 TTTTGCCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.30, T:0.33
Consensus pattern (8 bp):
GGCATTTC
Found at i:55422216 original size:46 final size:46
Alignment explanation
Indices: 55422154--55422275 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
55422144 GTAGCCGATG
*
55422154 CATGTCCCAGACATGTCTTATACTGGCTTACGTC-CCGAGG-CTGATA-
1 CATGTCCCAGACATGTCTTACACTGGCTTA-GTCTCC-AGGTC-GATAC
* * *
55422200 CATGTCCCAGATATGTCTTACACTAGCATTAGTCTCCATGTCGATAC
1 CATGTCCCAGACATGTCTTACACTGGC-TTAGTCTCCAGGTCGATAC
55422247 CATGTCCCAGACATGGTCTTACACTGGCT
1 CATGTCCCAGACAT-GTCTTACACTGGCT
55422276 CTCATAATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
46 33 0.51
47 20 0.31
48 12 0.18
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAGTCTCCAGGTCGATAC
Found at i:55426020 original size:5 final size:5
Alignment explanation
Indices: 55426010--55426034 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55426000 TTTGACTAAG
55426010 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
55426035 AATAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:55428199 original size:5 final size:5
Alignment explanation
Indices: 55428189--55428213 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55428179 CATATGCTCT
55428189 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
55428214 ACGAGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:55430373 original size:25 final size:26
Alignment explanation
Indices: 55430345--55430398 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
55430335 CAATTTGCAT
55430345 AAAATATTAA-TAACTC-AATAAA-TTG
1 AAAA-ATTAATTAAC-CAAATAAATTTG
55430370 AAAAATTAATTAACCAAATAAATTTG
1 AAAAATTAATTAACCAAATAAATTTG
55430396 AAA
1 AAA
55430399 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.23
25 14 0.54
26 6 0.23
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (26 bp):
AAAAATTAATTAACCAAATAAATTTG
Found at i:55437845 original size:85 final size:85
Alignment explanation
Indices: 55437702--55437897 Score: 261
Period size: 85 Copynumber: 2.3 Consensus size: 85
55437692 TAAAACATCG
* * * *
55437702 TGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTATGTATAAGATCATGTCTGGGACAT
1 TGTAAGACCGTGTCTGGGATACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
55437767 CGACATCATATCTAATTTCA
66 CGACATCATATCTAATTTCA
* *
55437787 TGTAAGACCGTGTCTGGGATACAGTCCTTGATT-AGGATTTACGTATAAGACCATGTCTGGGACA
1 TGTAAGACCGTGTCTGGGATACAGGCCTCGATTGA-GATTTACGTATAAGACCATGTCTGGGACA
* * *
55437851 TCGACATCGTATCTTATTTCG
65 TCGACATCATATCTAATTTCA
* *
55437872 TGTAAGATCC-TATCTGGGATAGAGGC
1 TGTAAGA-CCGTGTCTGGGATACAGGC
55437898 ATTAATATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 94 0.97
86 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (85 bp):
TGTAAGACCGTGTCTGGGATACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
CGACATCATATCTAATTTCA
Found at i:55437921 original size:85 final size:85
Alignment explanation
Indices: 55437745--55437942 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 85
55437735 GAGATTTATG
* *
55437745 TATAAGATCATGTCTGGGACATCGACATCATATCTAATTTCATGTAAGACCGTGTCTGGGATACA
1 TATAAGACCATGTCTGGGACATCGACATCATATCTAATTTCATGTAAGACCGTATCTGGGATACA
* * * * *
55437810 GTCCTTGATTAGGATTTACG
66 GGCATTAATTAGGAATTACA
* * * *
55437830 TATAAGACCATGTCTGGGACATCGACATCGTATCTTATTTCGTGTAAGATCC-TATCTGGGATAG
1 TATAAGACCATGTCTGGGACATCGACATCATATCTAATTTCATGTAAGA-CCGTATCTGGGATAC
*
55437894 AGGCATTAA-TATTGAATTACA
65 AGGCATTAATTA-GGAATTACA
* ** * *
55437915 TGTAAGACCACATTTAGGACATCGACAT
1 TATAAGACCATGTCTGGGACATCGACAT
55437943 TGTACTTGTT
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
84 2 0.02
85 90 0.96
86 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (85 bp):
TATAAGACCATGTCTGGGACATCGACATCATATCTAATTTCATGTAAGACCGTATCTGGGATACA
GGCATTAATTAGGAATTACA
Found at i:55443102 original size:25 final size:26
Alignment explanation
Indices: 55443041--55443102 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
55443031 GAAAATATAA
* * *
55443041 AAAATTAAAAGTTATTAATGATTCAAT
1 AAAATTAAAAATTA-TAATAATTAAAT
55443068 -AAATTGAAAAATTA-AATAATTAAAT
1 AAAATT-AAAAATTATAATAATTAAAT
55443093 AAAATTAAAA
1 AAAATTAAAA
55443103 TTTAGGAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 13 0.43
26 10 0.33
27 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAATTAAAAATTATAATAATTAAAT
Found at i:55445081 original size:16 final size:16
Alignment explanation
Indices: 55445060--55445092 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55445050 AAGACAAGGG
55445060 AGCATGAAATCACTCT
1 AGCATGAAATCACTCT
55445076 AGCATGAAATCACTCT
1 AGCATGAAATCACTCT
55445092 A
1 A
55445093 ACCCTATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (16 bp):
AGCATGAAATCACTCT
Found at i:55445723 original size:48 final size:47
Alignment explanation
Indices: 55445683--55445853 Score: 182
Period size: 48 Copynumber: 3.6 Consensus size: 47
55445673 TATCGGTGCT
*
55445683 GATGCCATGTCCCAAATATGGTCTTACACTAGCACACATATCATCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAT-GCC
* * * **
55445731 GATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAACACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC-ATGCC
* * *
55445779 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA-ACTCGGATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATA-TC--ATGCC
* * *
55445828 AACGCCATGTCCCAGACATGGTCTTA
1 GATGCCATGTCCCAAACATGGTCTTA
55445854 GACAGGATCT
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 76 0.73
49 27 0.26
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCATGCC
Found at i:55458833 original size:45 final size:45
Alignment explanation
Indices: 55458769--55458956 Score: 216
Period size: 45 Copynumber: 4.0 Consensus size: 45
55458759 TAAAGTGTGC
*
55458769 CAGCACTTCAAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGA
1 CAGCACTTCGAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGA
* *
55458814 CAGCACTTCGAGGGAGAGAAATGTTTGTGGTGACTGAGAGCATG-
1 CAGCACTTCGAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGA
* *
55458858 TAGTTCATTCTCCTCCTTGAAGGTAGAGAAATGTATGTGGCGACTGAGAGCATGA
1 CAG--CA--CT--T-C--G-AGGGAGAGAAATGTATGTGGCGACTGAGAGCATGA
* *
55458913 CAGCACTTCGAGGGAGAGAAATGTTTGTGGTGACTGAGAGCATG
1 CAGCACTTCGAGGGAGAGAAATGTATGTGGCGACTGAGAGCATG
55458957 TAGTTCATTC
Statistics
Matches: 121, Mismatches: 11, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
44 2 0.02
45 72 0.60
46 3 0.02
48 3 0.02
49 1 0.01
50 1 0.01
51 3 0.02
53 3 0.02
54 31 0.26
55 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (45 bp):
CAGCACTTCGAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGA
Found at i:55458910 original size:54 final size:54
Alignment explanation
Indices: 55458824--55458977 Score: 193
Period size: 54 Copynumber: 3.0 Consensus size: 54
55458814 CAGCACTTCG
55458824 AGGGAGAGAAATGTTTGTGGTGACTGAGAGCATGTAGTTCATTCTCCTCCTTGA
1 AGGGAGAGAAATGTTTGTGGTGACTGAGAGCATGTAGTTCATTCTCCTCCTTGA
* * * *
55458878 AGGTAGAGAAATGTATGTGGCGACTGAGAGCATGACAG--CA--CT--T-C--G-
1 AGGGAGAGAAATGTTTGTGGTGACTGAGAGCATG-TAGTTCATTCTCCTCCTTGA
55458923 AGGGAGAGAAATGTTTGTGGTGACTGAGAGCATGTAGTTCATTCTCCTCCTTGA
1 AGGGAGAGAAATGTTTGTGGTGACTGAGAGCATGTAGTTCATTCTCCTCCTTGA
55458977 A
1 A
55458978 CTCCTTCGTA
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
44 2 0.02
45 31 0.38
46 3 0.04
48 3 0.04
49 1 0.01
50 1 0.01
51 3 0.04
53 3 0.04
54 32 0.40
55 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (54 bp):
AGGGAGAGAAATGTTTGTGGTGACTGAGAGCATGTAGTTCATTCTCCTCCTTGA
Found at i:55458954 original size:99 final size:99
Alignment explanation
Indices: 55458778--55458977 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 99
55458768 CCAGCACTTC
55458778 AAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGACAGCACTTCGAGGGAGAGAAATGTTTGTG
1 AAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGACAGCACTTCGAGGGAGAGAAATGTTTGTG
55458843 GTGACTGAGAGCATGTAGTTCATTCTCCTCCTTG
66 GTGACTGAGAGCATGTAGTTCATTCTCCTCCTTG
*
55458877 AAGGTAGAGAAATGTATGTGGCGACTGAGAGCATGACAGCACTTCGAGGGAGAGAAATGTTTGTG
1 AAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGACAGCACTTCGAGGGAGAGAAATGTTTGTG
55458942 GTGACTGAGAGCATGTAGTTCATTCTCCTCCTTG
66 GTGACTGAGAGCATGTAGTTCATTCTCCTCCTTG
55458976 AA
1 AA
55458978 CTCCTTCGTA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.26
Consensus pattern (99 bp):
AAGGGAGAGAAATGTATGTGGCGACTGAGAGCATGACAGCACTTCGAGGGAGAGAAATGTTTGTG
GTGACTGAGAGCATGTAGTTCATTCTCCTCCTTG
Found at i:55474708 original size:27 final size:27
Alignment explanation
Indices: 55474677--55474730 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
55474667 TAAGTCAATT
55474677 CTCTTCCCTTACTCAATATGGGTGTTA
1 CTCTTCCCTTACTCAATATGGGTGTTA
55474704 CTCTTCCCTTACTCAATATGGGTGTTA
1 CTCTTCCCTTACTCAATATGGGTGTTA
55474731 GCCGAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.41
Consensus pattern (27 bp):
CTCTTCCCTTACTCAATATGGGTGTTA
Found at i:55475885 original size:27 final size:27
Alignment explanation
Indices: 55475847--55476040 Score: 253
Period size: 27 Copynumber: 7.2 Consensus size: 27
55475837 AGAGATCGCT
*
55475847 AAATGACCGTAATGCCCCTATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
** * **
55475874 AAATGATTGTAATGCTCCTGTAAAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
55475901 AAATGACCGTAATGCCTCTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
55475928 AAATGATCGTAATGCCCCTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
55475955 AAATGACCGTAATGTCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
55475982 AAATGACCGTAATGCCTCTGTATGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
55476009 AAATGACCGTAATACCCCTGTATGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
55476036 AAATG
1 AAATG
55476041 TCGATTATGC
Statistics
Matches: 144, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:55476268 original size:26 final size:27
Alignment explanation
Indices: 55476183--55476268 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
55476173 GGAAGTACTA
* * *
55476183 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* *
55476210 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACATTTACTGT
*
55476237 TACTGGTTGCT-TGCCACATTTACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
*
55476263 TTCTGG
1 TACTGG
55476269 CAGTTATGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 18 0.36
27 32 0.64
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTTACTGT
Found at i:55476507 original size:33 final size:32
Alignment explanation
Indices: 55476452--55476546 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 32
55476442 CCCACATTGT
* *
55476452 TACTGTATAGGGTTAAAGCCCAGACTGTTCTGG
1 TACTGTATAGGGCT-AAGCCCAGACTGTTCTGA
* *
55476485 TATTGTATAGGGCTAAGTCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAG-CCCAGACTGTTCTGA
* * *
55476518 TACTGGATAGGGCTTAGGCCTAGACTGTT
1 TACTGTATAGGGC-TAAGCCCAGACTGTT
55476547 ACTGCATGCA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
32 3 0.06
33 45 0.88
34 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (32 bp):
TACTGTATAGGGCTAAGCCCAGACTGTTCTGA
Found at i:55485645 original size:33 final size:32
Alignment explanation
Indices: 55485594--55485657 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
55485584 ACGAAGTCAC
* *
55485594 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
55485626 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
55485658 TTGTAGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:55491437 original size:16 final size:17
Alignment explanation
Indices: 55491416--55491448 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
55491406 CATATAGATG
55491416 AATATA-TATACACATT
1 AATATAGTATACACATT
55491432 AATATATGTATACACAT
1 AATATA-GTATACACAT
55491449 GTTTCAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
AATATAGTATACACATT
Found at i:55491852 original size:86 final size:86
Alignment explanation
Indices: 55491700--55491921 Score: 320
Period size: 86 Copynumber: 2.6 Consensus size: 86
55491690 ATATCGTACA
* * * * * *
55491700 ATGTCAACGTCCTAGACATGGTCTTATATGTAATCACGTATCGATGCCACTGTCCCAGATAGGGT
1 ATGTCAACATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATAGGGT
55491765 CTTACACATAATCACATATCG
66 CTTACACATAATCACATATCG
* *
55491786 ATGTCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGA-CGTGG
1 ATGTCAACATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATAG-GG
* *
55491850 TCTTACACGTAATCACATATTG
65 TCTTACACATAATCACATATCG
* *
55491872 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCACATATCGATGCCAA
1 ATGTCAACATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAA
55491922 CTAAAAAATG
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
85 1 0.01
86 121 0.99
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (86 bp):
ATGTCAACATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATAGGGT
CTTACACATAATCACATATCG
Found at i:55491921 original size:43 final size:43
Alignment explanation
Indices: 55491704--55491922 Score: 271
Period size: 43 Copynumber: 5.1 Consensus size: 43
55491694 CGTACAATGT
* * * * * *
55491704 CAACGTCCTAGACATGGTCTTATATGTAATCACGTATCGATGC
1 CAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGC
* * * *
55491747 C-ACTGTCCCAGATAG-GGTCTTACACATAATCACATATCGATGT
1 CAAC-ATCCCAGA-CGTGGTCTTACACGTAATCACATATCGATGC
55491790 CAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGC
1 CAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGC
** *
55491833 CAATGTCCCAGACGTGGTCTTACACGTAATCACATATTGATGC
1 CAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGC
* *
55491876 CAACATCCCAGATGTGGTCTTACATGTAATCACATATCGATGC
1 CAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGC
55491919 CAAC
1 CAAC
55491923 TAAAAAATGT
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
42 3 0.02
43 147 0.97
44 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
CAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGC
Found at i:55498585 original size:43 final size:43
Alignment explanation
Indices: 55498407--55498586 Score: 247
Period size: 43 Copynumber: 4.2 Consensus size: 43
55498397 ATATCGTACA
* *
55498407 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
55498450 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * *
55498493 ATGCCAAAGTCCCAGATGTGGTTTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
55498536 ATGCCAACGTCCCAGACGTGGTTTTACACGTAATCATATATCT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
55498579 ATGCCAAC
1 ATGCCAAC
55498587 TAAAAAATGT
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.02
43 119 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:55501147 original size:43 final size:43
Alignment explanation
Indices: 55501016--55501152 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
55501006 CAATGTCGAC
* * * * *
55501016 TCCCAAACATGGTCTTACATGT-AATTCAATATTGATGCCTCTA
1 TCCCAGACATGGTCTTACACGTAAATTC-AGATTGATGCCTATG
* * *
55501059 TCCCAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATTCAGAT-TGATGCCTATG
* *
55501101 TCCCAGACATGGTCTTACACGTAAATCTCA-ATTGAGGCCTGTG
1 TCCCAGACATGGTCTTACACGTAAAT-TCAGATTGATGCCTATG
55501144 TCCCAGACA
1 TCCCAGACA
55501153 CGATCATACA
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.04
42 29 0.38
43 39 0.51
44 2 0.03
45 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAAATTCAGATTGATGCCTATG
Found at i:55504525 original size:40 final size:40
Alignment explanation
Indices: 55504477--55504642 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
55504467 AGACTAAGAT
*
55504477 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55504517 TCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55504557 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
55504597 CCGAAGGCATTCGTGCGAGTTG-CTATATCCGGG-TAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
55504636 CCGAAGG
1 CCGAAGG
55504643 TACTTGGGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.09
40 103 0.89
41 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:55512451 original size:40 final size:40
Alignment explanation
Indices: 55512403--55512568 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
55512393 GGACTAAGAT
*
55512403 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55512443 CCGAAGGCATTTGTGCTAGTGACTGTATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55512483 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
55512523 CCGAAGGCATTCGTGCGAGTTG-CTATATCCGGG-TAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
55512562 CCGAAGG
1 CCGAAGG
55512569 TACTTGGGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.09
40 103 0.89
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:55523454 original size:30 final size:30
Alignment explanation
Indices: 55523419--55523482 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
55523409 AACCAAAATG
*
55523419 TAAACTAATAAATTCACAAATAAGACTTTA
1 TAAACTAACAAATTCACAAATAAGACTTTA
*
55523449 TAAACTAACAAATTCACAAATAAGACTTTT
1 TAAACTAACAAATTCACAAATAAGACTTTA
55523479 TAAA
1 TAAA
55523483 ATAGTCCCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (30 bp):
TAAACTAACAAATTCACAAATAAGACTTTA
Found at i:55525058 original size:15 final size:16
Alignment explanation
Indices: 55525038--55525068 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55525028 AAATTGGAGA
55525038 TAAATT-AAAATTAAT
1 TAAATTAAAAATTAAT
55525053 TAAATTAAAAATTAAT
1 TAAATTAAAAATTAAT
55525069 ACACATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTAAAAATTAAT
Found at i:55526483 original size:42 final size:41
Alignment explanation
Indices: 55526368--55526484 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
55526358 AAAAAGCTCG
* * *
55526368 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCA-AAGTGGTCTTACACGAAATCAAA
* *
55526410 TATCGATG-CAACTATCCCAGACAG-GGTCTTACACGAAATCAAA
1 TA-CAATGCCAA-TGTCCCA-A-AGTGGTCTTACACGAAATCAAA
55526453 TACAATGCCAATGTCCCAAATGTGGTCTTACA
1 TACAATGCCAATGTCCCAAA-GTGGTCTTACA
55526485 TGATAACACA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.03
42 24 0.39
43 34 0.55
44 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
TACAATGCCAATGTCCCAAAGTGGTCTTACACGAAATCAAA
Found at i:55532042 original size:47 final size:47
Alignment explanation
Indices: 55531980--55532152 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 47
55531970 ATCCATAAGT
* * * *
55531980 GAACTCAGACGCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
* * * ***
55532027 GAACTCGGACTCAACTTAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATCTCTC
55532073 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
55532120 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
55532153 CAAATATCCC
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 32 0.31
47 61 0.59
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:55532101 original size:46 final size:46
Alignment explanation
Indices: 55531926--55532101 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
55531916 TGTAACTCGC
* * *
55531926 CCATAAGCGAACTCGGACTCAACTTAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * *
55531972 CCATAAGTGAACTCAGACGCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
55532018 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
55532065 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55532102 TGCCTAGTTA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 64 0.63
47 28 0.27
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:55532101 original size:93 final size:93
Alignment explanation
Indices: 55531933--55532148 Score: 369
Period size: 93 Copynumber: 2.3 Consensus size: 93
55531923 CGCCCATAAG
* *
55531933 CGAACTCGGACTCAACTTAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACGCAACTCA
1 CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACGCAACTCA
*
55531998 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
55532026 CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACGCAACTCA
*
55532091 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
55532119 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTTAACGAGTTCGGA
55532149 TGCCCAAATA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 116 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACGCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:55535556 original size:18 final size:18
Alignment explanation
Indices: 55535533--55535569 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55535523 CGTTGTCCAT
55535533 CAATCGTCCCTTTTCTCA
1 CAATCGTCCCTTTTCTCA
55535551 CAATCGTCCCTTTTCTCA
1 CAATCGTCCCTTTTCTCA
55535569 C
1 C
55535570 CATCCTCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.41, G:0.05, T:0.38
Consensus pattern (18 bp):
CAATCGTCCCTTTTCTCA
Found at i:55537552 original size:12 final size:13
Alignment explanation
Indices: 55537536--55537573 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
55537526 AAGTAATGTA
55537536 AGGTATAATATAT
1 AGGTATAATATAT
*
55537549 -GGTAAAATATAT
1 AGGTATAATATAT
55537561 AGTGTATAATATA
1 AG-GTATAATATA
55537574 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:55537635 original size:14 final size:14
Alignment explanation
Indices: 55537616--55537664 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
55537606 ATATGATAAG
55537616 TAATAAAAAATATA
1 TAATAAAAAATATA
* *
55537630 TAATAAGAAGTATA
1 TAATAAAAAATATA
*
55537644 TAAT--ATAATATA
1 TAATAAAAAATATA
55537656 TAATAAAAA
1 TAATAAAAA
55537665 GAAAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
12 9 0.33
14 18 0.67
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
TAATAAAAAATATA
Found at i:55537674 original size:26 final size:26
Alignment explanation
Indices: 55537624--55537674 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
55537614 AGTAATAAAA
* * * *
55537624 AATATATAATAAGAAGTATATAATAT
1 AATATATAATAAAAAGAAAAAAATAT
55537650 AATATATAATAAAAAGAAAAAAATA
1 AATATATAATAAAAAGAAAAAAATA
55537675 CTATAAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (26 bp):
AATATATAATAAAAAGAAAAAAATAT
Found at i:55537707 original size:17 final size:17
Alignment explanation
Indices: 55537687--55537719 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55537677 ATAAGGAATA
55537687 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
55537704 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
55537720 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:55537869 original size:11 final size:12
Alignment explanation
Indices: 55537845--55537883 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
55537835 TTTACAGAAA
*
55537845 ATAAAAAAATAAT
1 ATAATAAAAT-AT
55537858 ATATATAAAATAT
1 ATA-ATAAAATAT
55537871 ATAATAAAATAT
1 ATAATAAAATAT
55537883 A
1 A
55537884 ATTTATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 10 0.42
13 8 0.33
14 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:55537874 original size:26 final size:30
Alignment explanation
Indices: 55537845--55537907 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
55537835 TTTACAGAAA
55537845 ATAA-AAAA-ATAATATAT-A-TAAAATAT
1 ATAATAAAATATAATATATAAGTAAAATAT
*
55537871 ATAATAAAATATAATTTATAAGTAAAATAT
1 ATAATAAAATATAATATATAAGTAAAATAT
55537901 ATAATAA
1 ATAATAA
55537908 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 8 0.25
29 1 0.03
30 15 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAAAATATAATATATAAGTAAAATAT
Found at i:55537884 original size:19 final size:19
Alignment explanation
Indices: 55537860--55537910 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
55537850 AAAATAATAT
55537860 ATATAAAATATATAA-TAAA
1 ATAT-AAATATATAAGTAAA
*
55537879 ATAT-AATTTATAAGTAAA
1 ATATAAATATATAAGTAAA
55537897 ATATATAATA-ATAA
1 ATATA-AATATATAA
55537911 AAATAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 8 0.30
20 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATATAAATATATAAGTAAA
Found at i:55537890 original size:28 final size:29
Alignment explanation
Indices: 55537845--55537915 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
55537835 TTTACAGAAA
55537845 ATAA-AAAAATAATATAT-A-TAAAATAT
1 ATAATAAAAATAATATATAAGTAAAATAT
*
55537871 ATAATAAAATATAATTTATAAGTAAAATAT
1 ATAATAAAA-ATAATATATAAGTAAAATAT
55537901 ATAATAATAAA-AATA
1 ATAATAA-AAATAATA
55537916 ATGTAATGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.11
27 4 0.11
28 8 0.21
29 4 0.11
30 16 0.42
31 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
ATAATAAAAATAATATATAAGTAAAATAT
Found at i:55537910 original size:26 final size:25
Alignment explanation
Indices: 55537820--55537910 Score: 57
Period size: 22 Copynumber: 3.6 Consensus size: 25
55537810 ACAATGAATG
*
55537820 AATAATAATACATAATTTACAG-AA
1 AATAATAATACATAATTTATAGTAA
* *
55537844 AATAA-AA-AAATAATATATA-TAA
1 AATAATAATACATAATTTATAGTAA
*
55537866 AATATATAATAAAATATAATTTATAAGTAA
1 AATA-ATAAT---ACATAATTTAT-AGTAA
55537896 AATATATAATA-ATAA
1 AATA-ATAATACATAA
55537911 AAATAATGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
22 15 0.28
23 3 0.06
24 7 0.13
26 4 0.08
27 1 0.02
28 9 0.17
29 1 0.02
30 13 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATAATACATAATTTATAGTAA
Found at i:55537991 original size:27 final size:27
Alignment explanation
Indices: 55537961--55538012 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
55537951 ATATAACTAA
55537961 TATTTATAAAAAAAAT-AATATATAAGG
1 TATTTA-AAAAAAAATAAATATATAAGG
* *
55537988 TATTTAAAATAAATTAAATATATAA
1 TATTTAAAAAAAAATAAATATATAA
55538013 AGAAGGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
TATTTAAAAAAAAATAAATATATAAGG
Found at i:55539622 original size:44 final size:44
Alignment explanation
Indices: 55539460--55539811 Score: 229
Period size: 44 Copynumber: 8.3 Consensus size: 44
55539450 TCGAACACAA
* **
55539460 AGATGCCAAATCTACTATCTTCGATCTGCTCTTTGACAAT----
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAG
* * * * * * * *
55539500 --ATACCAAATTTGCT-TCTTGGATTTACTCCTTGTCGAATACAA
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGAC-AATACAG
* * * * ** *
55539542 AGATGTCAAATCTACTATC-TCTAATTTGCTTTCTGACCATACAG
1 AGATGCCAAATCTGCTATCTTC-GATCTGCTCCCTGACAATACAG
55539586 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAG
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAG
* * * * *
55539630 GGATGCCAAATCTGCT-TCTTGGATTTGC-CCCTCGTCAAATA-TG
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCT-GAC-AATACAG
* *
55539673 AAGATGCCAAA--T-C-ATCTTGGATCTGCTCCCCT--CGAATACGG
1 -AGATGCCAAATCTGCTATCTTCGATCTGCT-CCCTGAC-AATACAG
* * *
55539714 AGATGCCAAATAT-C-ATCTTCGATCTGCTCTCTGACAATATAG
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAG
* * *
55539756 AGACGCTAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAG
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAG
55539800 AGATGCCAAATC
1 AGATGCCAAATC
55539812 ATCTTGGATC
Statistics
Matches: 242, Mismatches: 47, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
37 15 0.06
38 14 0.06
40 15 0.06
41 16 0.07
42 35 0.14
43 19 0.08
44 115 0.48
45 13 0.05
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
AGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAG
Found at i:55539734 original size:126 final size:128
Alignment explanation
Indices: 55539580--55539825 Score: 322
Period size: 126 Copynumber: 1.9 Consensus size: 128
55539570 CTTTCTGACC
* * *
55539580 ATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGGGATGCCAAATCTGC
1 ATACAGAGATGCCAAATATGCTATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGC
* * *
55539645 T-TCTTGGATTTGCCCCTCGTCA-AATA-TGAAGATGCCAAATCATCTTGGATCTGCTCCCCTCG
66 TATCTTCGATCTG-CCCTC-TCACAATACAG-AGATGCCAAATCATCTTGGATCTGCTCCCCTCG
55539707 A
128 A
* * * *
55539708 ATACGGAGATGCCAAATAT-C-ATCTTCGATCTGCTCTCTGACAATATAGAGACGCTAAATCTGC
1 ATACAGAGATGCCAAATATGCTATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGC
* *
55539771 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTGCT
66 TATCTTCGATCTGCCCTCTCACAATACAGAGATGCCAAATCATCTTGGATCTGCT
55539826 TCAGCGTAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
125 2 0.02
126 73 0.71
127 11 0.11
128 17 0.17
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (128 bp):
ATACAGAGATGCCAAATATGCTATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGC
TATCTTCGATCTGCCCTCTCACAATACAGAGATGCCAAATCATCTTGGATCTGCTCCCCTCGA
Found at i:55542556 original size:48 final size:48
Alignment explanation
Indices: 55542494--55542678 Score: 343
Period size: 48 Copynumber: 3.9 Consensus size: 48
55542484 TATATATGTG
55542494 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
55542542 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
55542590 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
55542638 TGTGATAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
55542679 GTGTGTATAT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 133 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:55548808 original size:93 final size:93
Alignment explanation
Indices: 55548676--55548846 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
55548666 GCCCATAAGT
* * *** *
55548676 GAACTTGGACTCAACTCAATGAGCTCGGGTGTTCACATCCATAAGTGAACTC-AGGCTCAACTCA
1 GAACTTGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGA-ACTCAACTCA
55548740 ACAAGATCGGATGCCTAGTTACATCTCTC
65 ACAAGATCGGATGCCTAGTTACATCTCTC
* *
55548769 GAACTTGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTTGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
* *
55548834 CGAGTTCGGATGC
66 CAAGATCGGATGC
55548847 TCAACCATCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
93 66 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTTGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CAAGATCGGATGCCTAGTTACATCTCTC
Found at i:55553534 original size:27 final size:27
Alignment explanation
Indices: 55553498--55553552 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
55553488 ATTTTCTTTC
55553498 TCTTACTCTATTTCTCCCTAATAATTT
1 TCTTACTCTATTTCTCCCTAATAATTT
55553525 TCTTACTCTATTTCTCCCTAATAATTT
1 TCTTACTCTATTTCTCCCTAATAATTT
55553552 T
1 T
55553553 AACTAATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (27 bp):
TCTTACTCTATTTCTCCCTAATAATTT
Found at i:55554797 original size:24 final size:24
Alignment explanation
Indices: 55554770--55554870 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
55554760 AAGGCTGTCA
*
55554770 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
55554794 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
55554818 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
55554842 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
55554866 GGAGA
1 GGAGA
55554871 ACAGTTTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.34, C:0.04, G:0.43, T:0.20
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:55555765 original size:17 final size:17
Alignment explanation
Indices: 55555743--55555785 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
55555733 TAGTTCATTT
*
55555743 TGGTAGTTAGATTAATG
1 TGGTAGTTAGATAAATG
* *
55555760 TGGTAGTAATATAAATG
1 TGGTAGTTAGATAAATG
55555777 TAGGTAGTT
1 T-GGTAGTT
55555786 CATGAGTGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (17 bp):
TGGTAGTTAGATAAATG
Found at i:55556358 original size:27 final size:27
Alignment explanation
Indices: 55556328--55556410 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
55556318 AATTATCTAA
55556328 TCTGGTGGCACTGCCACATATATCTGT
1 TCTGGTGGCACTGCCACATATATCTGT
* ** *
55556355 TCTGATGGTTCTGCCACA-ATTATTTGT
1 TCTGGTGGCACTGCCACATA-TATCTGT
* *
55556382 TCTGGTGACACTG-TAGCAT-TATCTGT
1 TCTGGTGGCACTGCCA-CATATATCTGT
55556408 TCT
1 TCT
55556411 AGTAGCCATG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
26 11 0.26
27 32 0.74
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (27 bp):
TCTGGTGGCACTGCCACATATATCTGT
Found at i:55560553 original size:14 final size:13
Alignment explanation
Indices: 55560511--55560555 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
55560501 GAAATAAAAG
55560511 TAATATA-AGGTA
1 TAATATATAGGTA
55560523 TAATATAT-GGTA
1 TAATATATAGGTA
*
55560535 AAATATATAGTGTA
1 TAATATATAG-GTA
55560549 TAATATA
1 TAATATA
55560556 ATTTGTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 18 0.64
13 1 0.04
14 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATATATAGGTA
Found at i:55560657 original size:26 final size:26
Alignment explanation
Indices: 55560608--55560657 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
55560598 TAATAAAAAT
* * * *
55560608 ATATATAATAAGAAGTATATAATATA
1 ATATATAATAAAAAGAAAAAAATATA
55560634 ATATATAATAAAAAGAAAAAAATA
1 ATATATAATAAAAAGAAAAAAATA
55560658 CTATAAGGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (26 bp):
ATATATAATAAAAAGAAAAAAATATA
Found at i:55560663 original size:48 final size:48
Alignment explanation
Indices: 55560617--55560710 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
55560607 TATATATAAT
*
55560617 AAGAAGTATATAATATAATATATAATAAAAAG-AAAAAAATACTATAAGG
1 AAGAA-TATATAATAAAATATA-AATAAAAAGAAAAAAAATACTATAAGG
* * *
55560666 AATAATATATAATAAAATATAAATAATATGAAATAAAAATACTAT
1 AAGAATATATAATAAAATATAAATAAAAAGAAA-AAAAATACTAT
55560711 CATATAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 7 0.18
48 17 0.44
49 15 0.38
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (48 bp):
AAGAATATATAATAAAATATAAATAAAAAGAAAAAAAATACTATAAGG
Found at i:55560826 original size:17 final size:17
Alignment explanation
Indices: 55560804--55560870 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
55560794 TTTACAGAAA
*
55560804 ATAAAAAAATAAAATAT
1 ATAAAAAAATATAATAT
*
55560821 ATAAAAAAATATAATTT
1 ATAAAAAAATATAATAT
55560838 ATAAGTAAAATATATAATA-
1 ATAA--AAAA-ATATAATAT
55560857 ATAAAAATAATATA
1 ATAAAAA-AATATA
55560871 CATTATTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
17 27 0.63
18 1 0.02
19 8 0.19
20 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (17 bp):
ATAAAAAAATATAATAT
Found at i:55565744 original size:16 final size:16
Alignment explanation
Indices: 55565720--55565754 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55565710 GCAAATCCCG
*
55565720 AAATGCCGAAAAGCCA
1 AAATACCGAAAAGCCA
55565736 AAATACCGAAAAGCCA
1 AAATACCGAAAAGCCA
55565752 AAA
1 AAA
55565755 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.23, G:0.14, T:0.06
Consensus pattern (16 bp):
AAATACCGAAAAGCCA
Found at i:55566011 original size:29 final size:29
Alignment explanation
Indices: 55565969--55566036 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
55565959 GCATGTATAT
55565969 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
55565998 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
55566027 GAATGAGATT
1 GAATGTGATT
55566037 GGCTTAGTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:55574839 original size:27 final size:27
Alignment explanation
Indices: 55574809--55574986 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55574799 ATATTGAGTC
* * * *
55574809 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55574836 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55574863 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55574891 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55574918 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55574945 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55574972 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55574987 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55574948 original size:82 final size:81
Alignment explanation
Indices: 55574830--55574985 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55574820 TGCTATATAA
* *
55574830 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55574895 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55574912 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55574976 CACTTAGTGC
65 CACTTAGTGC
55574986 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55583015 original size:27 final size:27
Alignment explanation
Indices: 55582985--55583162 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55582975 ATATTGAGTC
* * * *
55582985 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55583012 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55583039 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55583067 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55583094 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55583121 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55583148 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55583163 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55583124 original size:82 final size:81
Alignment explanation
Indices: 55583006--55583161 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55582996 TGCTATATAA
* *
55583006 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55583071 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55583088 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55583152 CACTTAGTGC
65 CACTTAGTGC
55583162 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55588446 original size:38 final size:38
Alignment explanation
Indices: 55588395--55588479 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
55588385 GTTTTCAAAG
55588395 ATAGATCTGAGATCCGGCTACTACCAGTTGTGAGTTAA
1 ATAGATCTGAGATCCGGCTACTACCAGTTGTGAGTTAA
55588433 ATAGATCTGAGATCCGGCTACTACCAGTTGTGAGTTAA
1 ATAGATCTGAGATCCGGCTACTACCAGTTGTGAGTTAA
*
55588471 AGAG-TCTGA
1 ATAGATCTGA
55588480 CGTGCCTAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 5 0.11
38 41 0.89
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (38 bp):
ATAGATCTGAGATCCGGCTACTACCAGTTGTGAGTTAA
Found at i:55590399 original size:50 final size:48
Alignment explanation
Indices: 55590234--55590405 Score: 167
Period size: 49 Copynumber: 3.5 Consensus size: 48
55590224 AATGCCGATA
*
55590234 CCATGTCCCAGACATGGTATTACACTAGCTCATC-C-ATCAAGTA--GATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATC--GTACTGATG
* * * *
55590281 CCATGTCCCAGACATGGTTTTACACT-GACTATCAAAATCG-AGGCTGACG
1 CCATGTCCCAGACATGGTCTTACACTAG-CTCTCACAATCGTA--CTGATG
55590330 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTACTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATC-GTACTGATG
* *
55590380 CCATGTCCCAGACACGGTCTTCCACT
1 CCATGTCCCAGACATGGTCTTACACT
55590406 GACACCTCTA
Statistics
Matches: 104, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
45 1 0.01
46 4 0.04
47 27 0.26
48 3 0.03
49 34 0.33
50 33 0.32
51 1 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCGTACTGATG
Found at i:55590566 original size:46 final size:45
Alignment explanation
Indices: 55590474--55590640 Score: 142
Period size: 46 Copynumber: 3.6 Consensus size: 45
55590464 ATAGCTGACA
* * * * *
55590474 CATGTCCCAAACATGTCTTACATTGGCT-TACAGCTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-CA-CTCAATGCCGATG
*
55590520 CATGTCCCAAACATGTCTTAGACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCA-CTCAATGCCGATG
* * * *
55590566 CCATATCCCAGACATGGTCTTACACTGGCTCTCA-T-AATGTGGCCGATA
1 -CATGTCCCAAACAT-GTCTTACACTAGCTCTCACTCAA--T-GCCGATG
*
55590614 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
55590641 ACACAAATAA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 50 0.50
47 27 0.27
48 22 0.22
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCACTCAATGCCGATG
Found at i:55590597 original size:48 final size:48
Alignment explanation
Indices: 55590224--55590600 Score: 192
Period size: 46 Copynumber: 7.9 Consensus size: 48
55590214 CATAGGGTAT
* * * *
55590224 AATGCCGATACCATGTCCCAGACATGGTATTACACTAG--CTCATCCATC
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TC
* * * **
55590272 AA-G-TAGATGCCATGTCCCAGACATGGTTTTACACTGACTATCAAAATC
1 AATGCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTC
* * * * *
55590320 GAGGCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTC
** * * * * *
55590370 TGTACTGATGCCATGTCCCAGACACGGTCTTCCACTGACAC-C-TCT-
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* * * * ***
55590415 ATACGTGCCGATGCCATGTCCTAGATATGGTCTTACA-TTG-AAACATCTC
1 A-A--TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* * *
55590464 -ATAGCTGA--CACATGTCCCAAACAT-GTCTTACATTGGCT-TACAGCTC
1 AAT-GCTGATGC-CATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTC
* * * * *
55590510 GAGGCTGATG-CATGTCCCAAACAT-GTCTTAGACTAGCTCTCATCTC
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* *
55590556 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCAT
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
55590601 AATGTGGCCG
Statistics
Matches: 247, Mismatches: 57, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
44 9 0.04
45 14 0.06
46 54 0.22
47 47 0.19
48 51 0.21
49 34 0.14
50 37 0.15
51 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
Found at i:55591399 original size:15 final size:15
Alignment explanation
Indices: 55591375--55591406 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
55591365 CAAGATCATT
55591375 TACTTATAGAGAGAC
1 TACTTATAGAGAGAC
*
55591390 TACTTGTAGAGAGAC
1 TACTTATAGAGAGAC
55591405 TA
1 TA
55591407 AGTTGCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (15 bp):
TACTTATAGAGAGAC
Found at i:55595233 original size:47 final size:47
Alignment explanation
Indices: 55595181--55595590 Score: 615
Period size: 47 Copynumber: 8.6 Consensus size: 47
55595171 GATAATTGTG
* *
55595181 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55595228 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
**
55595277 ATGTGAAAGTGTATATATATATGTGATAAGATCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55595328 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55595375 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
55595424 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
55595471 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
55595518 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
55595565 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
55595591 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 17, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
46 2 0.01
47 198 0.59
48 2 0.01
49 89 0.26
51 40 0.12
53 5 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:55595438 original size:96 final size:96
Alignment explanation
Indices: 55595181--55595590 Score: 636
Period size: 96 Copynumber: 4.3 Consensus size: 96
55595171 GATAATTGTG
55595181 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
55595244 ACATGTGATAAGGCCTAATGGCCGATGTGATGA
66 --ATGTGATAAGGCCTAATGGCCGATGTGATGA
**
55595277 ATGTGAAAGTGTATATATATATGTGATAAGATCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55595342 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
55595375 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
55595440 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
55595471 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
55595534 ATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAG-GCCTAATGGCCGATGTGATGA
55595565 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
55595591 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 14, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
93 2 0.01
94 92 0.31
95 1 0.00
96 100 0.34
97 2 0.01
98 44 0.15
100 52 0.18
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:55597723 original size:46 final size:46
Alignment explanation
Indices: 55597673--55597845 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
55597663 TTGAGCATCC
55597673 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
55597719 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
55597766 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
55597812 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55597846 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:55597826 original size:93 final size:93
Alignment explanation
Indices: 55597667--55597838 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55597657 GGATGGTTGA
* *
55597667 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
55597732 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55597760 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
55597825 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55597839 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55605370 original size:47 final size:47
Alignment explanation
Indices: 55605252--55605412 Score: 171
Period size: 46 Copynumber: 3.5 Consensus size: 47
55605242 GGATGGTTGA
*
55605252 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
55605300 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
55605343 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
55605391 --A-CCGAACTCGTTGAGTTGAGTC
1 GCATCCGAACTCGTTGAGTTGAGTC
55605413 GTTCGTGAGT
Statistics
Matches: 98, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
42 2 0.02
43 26 0.27
44 1 0.01
45 3 0.03
46 29 0.30
47 29 0.30
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:55608986 original size:27 final size:26
Alignment explanation
Indices: 55608930--55608986 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
55608920 CAACCTTAAC
* *
55608930 CCTAGGGGTATATTAGTAATTTTACT
1 CCTAGGGGTAAATTAGTAATTTTACA
*
55608956 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTACA
55608983 CCTA
1 CCTA
55608987 TAAAGGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTACA
Found at i:55611230 original size:17 final size:17
Alignment explanation
Indices: 55611208--55611258 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
55611198 ATTGAGATAA
55611208 AAATAAATAACG-AAAAT
1 AAATAAATAA-GAAAAAT
55611225 AAATAAATAAGAAAAAT
1 AAATAAATAAGAAAAAT
* * *
55611242 AAACAAACAATAAAAAT
1 AAATAAATAAGAAAAAT
55611259 CATTAAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.16
Consensus pattern (17 bp):
AAATAAATAAGAAAAAT
Found at i:55612652 original size:24 final size:25
Alignment explanation
Indices: 55612625--55612680 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
55612615 GCTTTAATAG
*
55612625 AGTTGCACCAAAGTGCC-ATCACAA
1 AGTTGCACCAAAATGCCTATCACAA
*
55612649 AGTTGCACCAAAATGCCTTTCACAA
1 AGTTGCACCAAAATGCCTATCACAA
*
55612674 AATTGCA
1 AGTTGCA
55612681 TCGAAGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (25 bp):
AGTTGCACCAAAATGCCTATCACAA
Found at i:55636290 original size:90 final size:89
Alignment explanation
Indices: 55636111--55636345 Score: 222
Period size: 90 Copynumber: 2.6 Consensus size: 89
55636101 AATAGGGTGC
* * * * * * * * *
55636111 CAAAGCCATGTCCAAGACATGGTCTTACATGGAACCACACATCGATTCCATATCCCTAATATGGT
1 CAAAGCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGCCAT-GCCCAAACATGGT
*
55636176 CTTATACAAAGTCTCGAATCGATGT
65 CTTATACAAAGTCACGAATCGATGT
* * *
55636201 CGACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATGCCCAAGACATGGT
1 CAAAGCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGCCATGCCCAA-ACATGGT
** *
55636266 CTTATACGAAA-TCACTTATTGATGT
65 CTTATAC-AAAGTCACGAATCGATGT
* * ** *
55636291 CAAAGCCATATCCCTA-ATATGGTCTTACACTAGATCTCATATCGATGCCAATGCC
1 CAAAGCCATGTCCC-AGACATGGTCTTACACGGGACCTCATATCGATGCC-ATGCC
55636346 ATGTCCCAGA
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
89 4 0.03
90 104 0.89
91 9 0.08
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (89 bp):
CAAAGCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGCCATGCCCAAACATGGTC
TTATACAAAGTCACGAATCGATGT
Found at i:55639863 original size:46 final size:47
Alignment explanation
Indices: 55639807--55639983 Score: 198
Period size: 49 Copynumber: 3.7 Consensus size: 47
55639797 CAGTGTTGAG
55639807 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AT-T
1 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGATAT
* *
55639853 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATAT
1 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACG-ATAT
* * *
55639901 ACGAGAGCTAGTGTAAGACCATGTCTGGGACGTGGCATCGGCATCGA-AG
1 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA-CGATAT
* * * *
55639950 ATGATAGCCAGTGTAAGACCATGTCTAGGACATG
1 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACATG
55639984 GCTTCGACAA
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.03
46 37 0.33
47 2 0.02
48 18 0.16
49 42 0.37
50 9 0.08
51 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGATAT
Found at i:55639963 original size:49 final size:50
Alignment explanation
Indices: 55639765--55639985 Score: 196
Period size: 49 Copynumber: 4.6 Consensus size: 50
55639755 CGATTTGTAC
* * *
55639765 GCCAGTCTAAGACCATGTCTGGGATATGGCATCAG--TGT-TGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTAT-AGACGAGA
* * * *
55639813 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC--AT-TATGAGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGTATAGACGAGA
* *
55639859 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATATACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGACGAGA
* * * * *
55639907 GCTAGTGTAAGACCATGTCTGGGACGTGGCATCGGCATCG-A-AGATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CGTATAGACGAGA
*
55639956 GCCAGTGTAAGACCATGTCTAGGACATGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGC
55639986 TTCGACAACT
Statistics
Matches: 146, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
45 3 0.02
46 44 0.30
47 15 0.10
48 28 0.19
49 45 0.31
50 9 0.06
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGACGAGA
Found at i:55642426 original size:48 final size:48
Alignment explanation
Indices: 55642364--55642740 Score: 700
Period size: 48 Copynumber: 7.9 Consensus size: 48
55642354 TATATATGTG
*
55642364 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
55642412 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
55642460 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
55642508 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
55642556 TGTGGAAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
55642604 TGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
55642652 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
55642700 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
55642741 GTGTGTATAT
Statistics
Matches: 320, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 320 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:55642930 original size:37 final size:37
Alignment explanation
Indices: 55642880--55642982 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
55642870 GGAAATATAT
55642880 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55642917 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
55642954 TCTGAGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
55642983 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55649998 original size:15 final size:15
Alignment explanation
Indices: 55649978--55650007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55649968 TTCCTGCATC
55649978 TTTTCTTTTCTTTCT
1 TTTTCTTTTCTTTCT
*
55649993 TTTTCTTTTTTTTCT
1 TTTTCTTTTCTTTCT
55650008 ACTTAACCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTCTTTCT
Found at i:55652770 original size:17 final size:16
Alignment explanation
Indices: 55652745--55652777 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
55652735 ACAGTTATCC
55652745 TTTTTTTTTTCTTTCT
1 TTTTTTTTTTCTTTCT
55652761 TTTTTCTTTTTCTTTCT
1 TTTTT-TTTTTCTTTCT
55652778 ATTACTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTCTTTCT
Found at i:55658535 original size:46 final size:46
Alignment explanation
Indices: 55658384--55658645 Score: 212
Period size: 46 Copynumber: 5.6 Consensus size: 46
55658374 TTATTTGTGT
* * *
55658384 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ACTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * *
55658430 GCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
** *
55658478 GCTGGTATAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * * *
55658524 ACCAGTGTAAGACATGTCTGGGACATGTATCGG-CTACGAAAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* * *
55658568 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGA
* *
55658618 GCCCGTGTAAGACCATGTTTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
55658646 GAATCGGTAT
Statistics
Matches: 172, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 68 0.40
47 29 0.17
48 22 0.13
49 2 0.01
50 25 0.15
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:55658618 original size:140 final size:140
Alignment explanation
Indices: 55658385--55658645 Score: 330
Period size: 140 Copynumber: 1.9 Consensus size: 140
55658375 TATTTGTGTG
*
55658385 CCAGTGTAAGACATGTCTGGGACATGCATCGACCACACTATGAGAGCCAGAGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACCACACAAT-AGAGCCAGAGTAAGACCATGTCT
** **
55658450 GGGACATGGCATCGGCATTGAGACGAGAGCTGGTATAAGA-CATGTCTGGGACATGCATCGGCCT
65 GGGACATGGCATCGGCACGGAGACGAGAGCCCGTATAAGACCATGTCTGGGACATGCATCGGCCT
55658514 CGAGATGTAAA
130 CGAGATGTAAA
* * * * * *
55658525 CCAGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-AAT-GTGTCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ACAATAGAGCCAGAGTAAGACCATGTCT
* * * *
55658588 GGGACATGGCATCGGCACGGATATGTGAGAGCCCGTGTAAGACCATGTTTGGGACATG
65 GGGACATGGCATCGGCACGGAGA--CGAGAGCCCGTATAAGACCATGTCTGGGACATG
55658646 GAATCGGTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
138 39 0.38
140 48 0.47
141 15 0.15
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (140 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGACCACACAATAGAGCCAGAGTAAGACCATGTCTG
GGACATGGCATCGGCACGGAGACGAGAGCCCGTATAAGACCATGTCTGGGACATGCATCGGCCTC
GAGATGTAAA
Found at i:55662856 original size:27 final size:27
Alignment explanation
Indices: 55662825--55663002 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55662815 TAAATTGTAC
55662825 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55662852 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55662878 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55662906 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55662934 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55662961 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55662988 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55663003 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55662939 original size:82 final size:81
Alignment explanation
Indices: 55662826--55662981 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55662816 AAATTGTACA
* *
55662826 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55662890 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55662907 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55662972 TGCGAGTTGA
65 TGCGAATTGA
55662982 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55662993 original size:82 final size:81
Alignment explanation
Indices: 55662822--55663002 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
55662812 GATTAAATTG
* *
55662822 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55662887 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55662903 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55662967 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55662985 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55663003 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55872868 original size:27 final size:28
Alignment explanation
Indices: 55872784--55872881 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
55872774 CATGAGATTG
* * * *
55872784 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
55872813 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55872841 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55872868 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55872882 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55872892 original size:27 final size:27
Alignment explanation
Indices: 55872812--55872894 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
55872802 TAAATTGTAC
* *
55872812 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
55872840 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
55872867 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
55872894 A
1 A
55872895 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:55872895 original size:29 final size:27
Alignment explanation
Indices: 55872784--55872895 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
55872774 CATGAGATTG
** * *
55872784 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
55872813 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
55872841 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
55872868 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
55872896 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:55880142 original size:27 final size:28
Alignment explanation
Indices: 55880058--55880155 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
55880048 CATGAGATTG
* * * *
55880058 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
55880087 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55880115 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55880142 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55880156 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55880166 original size:27 final size:27
Alignment explanation
Indices: 55880086--55880168 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
55880076 TAAATTGTAC
* *
55880086 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
55880114 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
55880141 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
55880168 A
1 A
55880169 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:55880169 original size:29 final size:27
Alignment explanation
Indices: 55880058--55880169 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
55880048 CATGAGATTG
** * *
55880058 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
55880087 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
55880115 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
55880142 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
55880170 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Done.