Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 85 of 186
Found at i:27696626 original size:12 final size:13
Alignment explanation
Indices: 27696609--27696634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27696599 GGGATTTATT
27696609 TCCCCCGTTTAAC
1 TCCCCCGTTTAAC
27696622 TCCCCCGTTTAAC
1 TCCCCCGTTTAAC
27696635 AAGATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.08, T:0.31
Consensus pattern (13 bp):
TCCCCCGTTTAAC
Found at i:27712157 original size:12 final size:12
Alignment explanation
Indices: 27712140--27712166 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27712130 ATTTTTACGG
27712140 TTTAATAACTTT
1 TTTAATAACTTT
27712152 TTTAATAACTTT
1 TTTAATAACTTT
27712164 TTT
1 TTT
27712167 CATCTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAATAACTTT
Found at i:27714071 original size:36 final size:36
Alignment explanation
Indices: 27714024--27714093 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
27714014 TTACTAAAGT
*
27714024 AAATTGCAATAGACTATTACAACTCATTGCCAACAC
1 AAATTGCAATAGACTATTACAACTCATTACCAACAC
27714060 AAATTGCAATAGACTATTACAACTCATTACCAAC
1 AAATTGCAATAGACTATTACAACTCATTACCAAC
27714094 TATTACAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (36 bp):
AAATTGCAATAGACTATTACAACTCATTACCAACAC
Found at i:27714246 original size:23 final size:24
Alignment explanation
Indices: 27714220--27714282 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
27714210 AACAAAATTG
*
27714220 AAAGCGGCAGTGAAATAACATTA-
1 AAAGCGGCAGTGAAACAACATTAC
* * *
27714243 AAAGCAGTAGTAAAACAACATTAC
1 AAAGCGGCAGTGAAACAACATTAC
27714267 AAA-CGGCAGTGAAACA
1 AAAGCGGCAGTGAAACA
27714283 GCACCAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 29 0.91
24 3 0.09
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (24 bp):
AAAGCGGCAGTGAAACAACATTAC
Found at i:27716744 original size:47 final size:47
Alignment explanation
Indices: 27716675--27716863 Score: 378
Period size: 47 Copynumber: 4.0 Consensus size: 47
27716665 ATTAAGAAAG
27716675 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
27716722 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
27716769 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
27716816 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
27716863 A
1 A
27716864 TAAGATATTT
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (47 bp):
AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
Found at i:27722768 original size:31 final size:31
Alignment explanation
Indices: 27722730--27722898 Score: 257
Period size: 31 Copynumber: 5.5 Consensus size: 31
27722720 ATGACAACTA
27722730 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
27722761 AAAAGTGGTAGTTTCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* * *
27722792 AAAAGTAGTAGCTTCTGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
27722823 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* **
27722854 AAAAATGGTAGCACCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
27722885 AATAGTGGTAGCTT
1 AAAAGTGGTAGCTT
27722899 TGACTACAAG
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 122 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
Found at i:27722916 original size:7 final size:7
Alignment explanation
Indices: 27722904--27722932 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
27722894 AGCTTTGACT
27722904 ACAAGTG
1 ACAAGTG
27722911 ACAAGTG
1 ACAAGTG
27722918 ACAAGTG
1 ACAAGTG
27722925 ACAAGTG
1 ACAAGTG
27722932 A
1 A
27722933 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:27723005 original size:47 final size:48
Alignment explanation
Indices: 27722930--27723061 Score: 178
Period size: 47 Copynumber: 2.8 Consensus size: 48
27722920 AAGTGACAAG
* * *
27722930 TGATTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATA
1 TGATTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATA
* *
27722978 TG-TTACTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATG
1 TGATTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATA
* * *
27723025 TGATTAC-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 TGATTACTGTATAAGACCATATCTGGGATATGGCATCA
27723062 TTATGTAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
47 68 0.92
48 6 0.08
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (48 bp):
TGATTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATA
Found at i:27726963 original size:9 final size:9
Alignment explanation
Indices: 27726949--27727006 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
27726939 TCCTCATTCC
27726949 TTTTTATTA
1 TTTTTATTA
27726958 TTTTTATTA
1 TTTTTATTA
27726967 TTTTTATT-
1 TTTTTATTA
*
27726975 TTTATTTTTA
1 TTT-TTATTA
*
27726985 TTATTATT-
1 TTTTTATTA
*
27726993 TCTTTATTA
1 TTTTTATTA
27727002 TTTTT
1 TTTTT
27727007 TATTTTCCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 9 0.22
9 29 0.73
10 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTATTA
Found at i:27726973 original size:6 final size:6
Alignment explanation
Indices: 27726949--27727036 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
27726939 TCCTCATTCC
* * *
27726949 TTTTTA TTATTT- TTATTA TTTTTA TTTTTA TTTTTA TTATTA TTTCT-
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
27726996 TTATTA TTTTTTA TTTTCCT- TGTTTTA TTTTTA TTTTTA TT
1 TTTTTA -TTTTTA TTTT--TA T-TTTTA TTTTTA TTTTTA TT
27727037 AGCTTTGTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 47 0.71
7 10 0.15
8 4 0.06
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:27726981 original size:21 final size:20
Alignment explanation
Indices: 27726949--27727030 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 20
27726939 TCCTCATTCC
*
27726949 TTTTTATTATTTTTATTATT
1 TTTTTTTTATTTTTATTATT
27726969 TTTATTTTTATTTTTATTATT
1 TTT-TTTTTATTTTTATTATT
* * *
27726990 ATTTCTTTATTATTTTTTATT
1 TTTTTTTTATT-TTTATTATT
27727011 TTCCTTGTTTTATTTTTATT
1 TT--TT-TTTTATTTTTATT
27727031 TTTATTAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.20
21 27 0.54
23 7 0.14
24 6 0.12
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATTTTTATTATT
Found at i:27727029 original size:30 final size:32
Alignment explanation
Indices: 27726945--27727030 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 32
27726935 TACATCCTCA
* *
27726945 TTCCTTTTTATTATTTTTATTATTTTTATTTT
1 TTCCTTATTATTATTTTTATTATTTTTATATT
**
27726977 TATTTTTATTATTATTTCTTTATTATTTTT-TATT
1 T-TCCTTATTATTA-TT-TTTATTATTTTTATATT
*
27727011 TTCCTTGTT-TTATTTTTATT
1 TTCCTTATTATTATTTTTATT
27727031 TTTATTAGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
30 6 0.14
31 2 0.05
32 4 0.09
33 14 0.32
34 6 0.14
35 12 0.27
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (32 bp):
TTCCTTATTATTATTTTTATTATTTTTATATT
Found at i:27727089 original size:34 final size:37
Alignment explanation
Indices: 27727023--27727102 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
27727013 CCTTGTTTTA
* *
27727023 TTTTTATTTTTATTAGCTTTGTTATTGATTTATTG-T
1 TTTTTATTATTATTAGCTATGTTATTGATTTATTGAT
*
27727059 TTTTTATTATTATT-GC-ATGTTATTGCTTTATTGAT
1 TTTTTATTATTATTAGCTATGTTATTGATTTATTGAT
27727094 TTGTTTATT
1 TT-TTTATT
27727103 CTTGTTCAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 15 0.38
35 5 0.13
36 19 0.49
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.68
Consensus pattern (37 bp):
TTTTTATTATTATTAGCTATGTTATTGATTTATTGAT
Found at i:27729927 original size:50 final size:51
Alignment explanation
Indices: 27729808--27729939 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
27729798 GTTGTGAGAA
* * **
27729808 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
* * *
27729860 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* *
27729910 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
27729940 TACATACCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 33 0.47
52 37 0.53
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:27730015 original size:51 final size:51
Alignment explanation
Indices: 27729808--27730090 Score: 171
Period size: 51 Copynumber: 5.5 Consensus size: 51
27729798 GTTGTGAGAA
* * * *
27729808 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTG-TAAAAGATAGCTTT-GGT
* * * * ** * *
27729860 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *** **** * * *
27729910 CGCATGTGTAGTACTAAGTGTAGGCTACTATACATACCCTATAACTTCGAT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
*
27729961 CACATGTGTGGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *
27730012 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AATAATG-TAGCTTT-GA
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAA-AA-GATAGCTTTGGT
* * *
27730062 CTACAAGGGTGGTACTATGTGCAGGCCAC
1 C-ACATGTGTAGTACTATGTGCAGGCCAC
27730091 CGGGTATCCG
Statistics
Matches: 184, Mismatches: 42, Indels: 11
0.78 0.18 0.05
Matches are distributed among these distances:
50 40 0.22
51 110 0.60
52 34 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
Found at i:27735616 original size:28 final size:29
Alignment explanation
Indices: 27735554--27735622 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
27735544 GCGTTCTCTC
* * *
27735554 TATTTTGAATATGCACTTCGGTGTTATCT
1 TATTCTGAATACGCACTTCAGTGTTATCT
*
27735583 TATTCTGAATACGCA-TTCAGTGTTGTCT
1 TATTCTGAATACGCACTTCAGTGTTATCT
*
27735611 TGTTCTGAATAC
1 TATTCTGAATAC
27735623 ACACATCGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (29 bp):
TATTCTGAATACGCACTTCAGTGTTATCT
Found at i:27743465 original size:20 final size:20
Alignment explanation
Indices: 27743435--27743488 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
27743425 ACAATTAATT
* *
27743435 TATTTAAATATTAAATTTAA
1 TATTAAAATATTAAATATAA
*
27743455 -ATTAAAAATATAAAATATAA
1 TATT-AAAATATTAAATATAA
*
27743475 TATTATAATATTAA
1 TATTAAAATATTAA
27743489 CAATTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTAAAATATTAAATATAA
Found at i:27746032 original size:34 final size:34
Alignment explanation
Indices: 27745991--27746073 Score: 116
Period size: 34 Copynumber: 2.4 Consensus size: 34
27745981 TTTATATTTT
27745991 TTTAATTAGA-ATTTTATAATAACAC-TTCTAACTA
1 TTTAATTAGATATTTT-T-ATAACACTTTCTAACTA
* *
27746025 TTTAATTAGATATGTTTATAACACTTTTTAACTA
1 TTTAATTAGATATTTTTATAACACTTTCTAACTA
27746059 TTTAATTAGATATTT
1 TTTAATTAGATATTT
27746074 AGAGTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 7 0.16
34 33 0.75
35 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (34 bp):
TTTAATTAGATATTTTTATAACACTTTCTAACTA
Found at i:27748890 original size:15 final size:15
Alignment explanation
Indices: 27748870--27748900 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27748860 GATCGTCATT
27748870 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
27748885 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
27748900 A
1 A
27748901 ATGATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (15 bp):
ATCATCTTCTTCTTC
Found at i:27761480 original size:20 final size:20
Alignment explanation
Indices: 27761427--27761524 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
27761417 TGCTATACAG
*
27761427 AGGCACCGTAGTGCAAAT-AA
1 AGGCACCGAAGTGC-AATCAA
* *
27761447 AGGCA-CGATTGTGCAATCAG
1 AGGCACCGA-AGTGCAATCAA
* *
27761467 AGGCATCGAAGTGCAAACAA
1 AGGCACCGAAGTGCAATCAA
* * *
27761487 AGACACCGAAGTGTAAGCACA
1 AGGCACCGAAGTGCAATCA-A
27761508 A-GCACCGAAGTGCAATC
1 AGGCACCGAAGTGCAATC
27761525 TCGTACAAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.08
20 51 0.84
21 5 0.08
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (20 bp):
AGGCACCGAAGTGCAATCAA
Found at i:27769025 original size:16 final size:18
Alignment explanation
Indices: 27768951--27769028 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 18
27768941 AATATAAAAG
* *
27768951 AAATTATAAAAATTGCAAA
1 AAATAATAAAATTTG-AAA
* *
27768970 AAAAAATTAAATTAT-ACAA
1 AAATAATAAAATT-TGA-AA
27768989 AAATTAATAAAATTTGAAA
1 AAA-TAATAAAATTTGAAA
*
27769008 AAATAA-AAAA-TTGTAA
1 AAATAATAAAATTTGAAA
27769024 AAATA
1 AAATA
27769029 TTTAAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
16 10 0.21
17 4 0.08
18 4 0.08
19 20 0.42
20 10 0.21
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAATAAAATTTGAAA
Found at i:27771935 original size:22 final size:22
Alignment explanation
Indices: 27771910--27771953 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27771900 ACAATCAACT
27771910 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATATGGCAGCGTCAA
27771932 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATATGGCAGCGTCAA
27771954 GTTTCTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTACAGATATGGCAGCGTCAA
Found at i:27776404 original size:38 final size:38
Alignment explanation
Indices: 27776362--27776438 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
27776352 ATTAATTGTT
*
27776362 AGTACAAATGTTACGTTTGATGAATTTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
27776400 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
27776438 A
1 A
27776439 TAAAAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (38 bp):
AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
Found at i:27784187 original size:30 final size:30
Alignment explanation
Indices: 27784144--27785017 Score: 1685
Period size: 30 Copynumber: 29.1 Consensus size: 30
27784134 TCCATATTTA
* *
27784144 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
27784174 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784204 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784234 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784264 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784294 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784324 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784354 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784384 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784414 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784444 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784474 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784504 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784534 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784564 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784594 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784624 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784654 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784684 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784714 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784744 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784774 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784804 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784834 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784864 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
27784894 TGGAAAGTCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
27784924 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27784954 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
27784984 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
27785015 TGG
1 TGG
27785018 CATAATAAAA
Statistics
Matches: 834, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
30 826 0.99
31 8 0.01
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:27789613 original size:15 final size:15
Alignment explanation
Indices: 27789593--27789670 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
27789583 TTTATGGAAA
27789593 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
27789608 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
27789622 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
27789638 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
27789652 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
27789668 ATC
1 ATC
27789671 GAGATATTAG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:27789630 original size:30 final size:30
Alignment explanation
Indices: 27789589--27789670 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
27789579 CATATTTATG
*
27789589 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
27789619 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
27789649 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
27789671 GAGATATTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:27793907 original size:20 final size:20
Alignment explanation
Indices: 27793884--27793936 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
27793874 AAATGAAAAT
*
27793884 AAATATATAAAAAAT-TCAGA
1 AAATATATAAAAAATCT-AAA
* *
27793904 AAATATATATATAATCTAAA
1 AAATATATAAAAAATCTAAA
27793924 AAATATATAAAAA
1 AAATATATAAAAA
27793937 TAAAATTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATATATAAAAAATCTAAA
Found at i:27794010 original size:19 final size:19
Alignment explanation
Indices: 27793986--27794026 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27793976 ATATTATTTA
27793986 AAAAATGTAAAAAAATTGT
1 AAAAATGTAAAAAAATTGT
* * *
27794005 AAAAATTTTAAAGAATTGT
1 AAAAATGTAAAAAAATTGT
27794024 AAA
1 AAA
27794027 TAAAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAATGTAAAAAAATTGT
Found at i:27797934 original size:18 final size:18
Alignment explanation
Indices: 27797894--27797934 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27797884 TTATTCTTTC
*
27797894 TTTTATTATTATTATTAC
1 TTTTATTATTATTATTAA
27797912 TTTTATTATTATT-TTAA
1 TTTTATTATTATTATTAA
27797929 TCTTTA
1 T-TTTA
27797935 CACATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTATTATTATTAA
Found at i:27800082 original size:13 final size:11
Alignment explanation
Indices: 27800046--27800076 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27800036 CTGCCCGTAT
27800046 TAATTTTTATA
1 TAATTTTTATA
*
27800057 TTATTTTTATA
1 TAATTTTTATA
27800068 TAATTTTTA
1 TAATTTTTA
27800077 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:27803086 original size:44 final size:44
Alignment explanation
Indices: 27803033--27803852 Score: 368
Period size: 44 Copynumber: 18.1 Consensus size: 44
27803023 GGTACAGGAA
* * *
27803033 TTGTTGCTTCGATCTACTCCACTGCAATTTCAGGGAGATAAGAC
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * *
27803077 TTGTAGCTTCAATCTGCTCCGCTGCAATTTCAGGGAGATGAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * *
27803121 TTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
*
27803165 TTG--GCTTGAATCTACTCCACTGC-ATCTTCAGGGAGATAAGATTTGT
1 TTGTAGCTTCAATCTACTCCACTGCAAT-TTCAGGGAGATAAGA----T
* * ** * * *
27803211 AACTTGTAGTTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGAT
1 ---TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
** * * ** * * *
27803258 TCACTATCTTTAATCTGTTCTACTGTAACTTT-AGGGAGATAAGAC
1 T-TGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGAT
* * * * * * *
27803303 TTGTAACTTCAACCTGCCCCACTGCAACTTC-GTAGAGATAAAAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAG-GGAGATAAGAT
* ** * * *
27803347 TTGTTATCTTTGATTTGCTCCACTGC-ATCTTTAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTACTCCACTGCAAT-TTCAGGGAGATAAGAT
* * * *
27803392 TTGTAACTTCAATATGCTCTACTGCAACTTT-AGGGAGATAAGATTTGTAAT
1 TTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGAT-A-A---G--AT
* * * * *
27803443 TTGTAGCTTTAATCTATTCCACTGTAACTTT-AGGGAAATAGGAT
1 TTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGAT
* * * * * * *
27803487 TCGCTATCTTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGAC
1 TTG-TAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * *
27803532 TTGTAACTTCCA-CATGCTCCACTGCAACTTT-AAGGAGATAAGGTTTATAAT
1 TTGTAGCTTCAATC-TACTCCACTGCAA-TTTCAGGGAGATAA-G------AT
** * ** * * *
27803583 TTGTATTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * * * * * *
27803627 TTGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGAAAAGAC
1 TTG-TAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * * *
27803672 TTGTAACTTCAACCTTCTCCATTGCAACTTT-AGGGAGATAAGGT
1 TTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGAT
* * * * *
27803716 TTATAGCTTTAATCT-GTCCTACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATCTACTCC-ACTGCAATTTCAGGGAGATAAGAT
* * *** * *
27803760 TTGCTATCTTCAATCTTACTCCATTGCAACCCCCGGGAGATAAGAC
1 TTG-TAGCTTCAATC-TACTCCACTGCAATTTCAGGGAGATAAGAT
* * *
27803806 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
27803850 TTG
1 TTG
27803853 CCATTATGAT
Statistics
Matches: 581, Mismatches: 148, Indels: 94
0.71 0.18 0.11
Matches are distributed among these distances:
41 1 0.00
42 32 0.06
43 9 0.02
44 253 0.44
45 153 0.26
46 29 0.05
47 4 0.01
49 4 0.01
50 4 0.01
51 90 0.15
52 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
Found at i:27803465 original size:140 final size:139
Alignment explanation
Indices: 27803321--27803852 Score: 544
Period size: 140 Copynumber: 3.8 Consensus size: 139
27803311 TCAACCTGCC
* * * *
27803321 CCACTGCAACTTC-GTAGAGATAAAATTTGTTATCTTT-GATTTGCTCCACTGCATCTTTAGGGA
1 CCACTGCAACTTCAG-AGAGATAAAATTTGCTATCTTTAG-TTTACTCCACTGCAACTTCAGGGA
* * *
27803384 GATAAGATTTGTAACTTCAATATGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAG
64 GATAAGACTTGTAACTTCAACATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAG
27803449 CTTTAATCTATT
129 CTTTAATCT-TT
* * * * ** * * *
27803461 CCACTGTAACTTTAGGGAAATAGGATTCGCTATCTTTAGTCTACTCCACCGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGAGAGATAAAATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
* * * * **
27803526 TAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAATTTGTATTT
66 TAAGACTTGTAACTTCAACATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCT
27803591 TTAATCTGTT
131 TTAATCT-TT
* * * * *
27803601 CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGA
1 CCACTGCAACTTCAGAGAGATAAAATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
* * * * *
27803666 AAAGACTTGTAACTTCAACCTTCTCCATTGCAACTTTAGGGAGATAAG----G---TTTATAGCT
66 TAAGACTTGTAACTTCAACATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCT
*
27803724 TTAATCTGT
131 TTAATCTTT
* * * * ** *
27803733 CCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACCCCCGGGA
1 CC-ACTGCAACTTCAGAGAGATAAAATTTGCTATCTTTAGT-TTACTCCACTGCAACTTCAGGGA
** *
27803798 GATAAGACTTGTGGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTG
64 GATAAGACTTGTAACTTCAA-CATGCTCCACTGCAACTTTAGGGAGATAAGATTTG
27803853 CCATTATGAT
Statistics
Matches: 325, Mismatches: 58, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
132 3 0.01
133 46 0.14
134 60 0.18
135 1 0.00
138 1 0.00
140 212 0.65
141 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (139 bp):
CCACTGCAACTTCAGAGAGATAAAATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
TAAGACTTGTAACTTCAACATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCT
TTAATCTTT
Found at i:27803465 original size:229 final size:226
Alignment explanation
Indices: 27803044--27803852 Score: 652
Period size: 229 Copynumber: 3.5 Consensus size: 226
27803034 TGTTGCTTCG
* * * * * *
27803044 ATCTACTCCACTGCAATTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCGCTGCAATTTCA
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * * * * *
27803109 GGGAGATGAGATTTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGGCTTGA
66 GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
* * * *
27803174 ATCTACTCCACTGCATCTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTGC
131 ATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTGC
27803239 AACTTCAGAGAAATAAGATTCACTATCTTTA
196 AACTTCAGAGAAATAAGATTCACTATCTTTA
** * * * * *
27803270 ATCTGTTCTACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTC-
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
** * * * *
27803334 GTAGAGATAAAATTTGTTATCTTTGATTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGTAAC
66 G-AGAGATAAAATTTG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG--AC
* * * *
27803399 TTCAATATGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCCA
127 TTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
* * * * *
27803464 CTGTAACTTTAGGGAAATAGGATTCGCTATCTTTA
192 CTGCAACTTCAGAGAAATAAGATTCACTATCTTTA
* * * *
27803499 GTCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTA
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * ** * *
27803564 -AGGAGATAAGGTTTATAATTTGTATTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATT
66 GA-GAGAT-A-----A-AATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * * *
27803628 TGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGA-AA-A---G--ACTTGTAACTTCAACC
123 TG--A-CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATC
* * * * * * *
27803686 T-TCTCCATTGCAACTTTAGGGAGATAAGGTTTA-TAGCTTTA
185 TAT-TCCACTGCAACTTCAGAGAAATAAGATTCACTATCTTTA
* * * * * * * * *
27803727 ATCT-GTCCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACC
1 ATCTACTCC-ACCGCAACTTCAGGGAGATAAGACTTG-TAACTTCAA-CCTGCTCCACTGCAACT
* * * * * ** *
27803791 CCCGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
63 TCAGAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
27803853 CCATTATGAT
Statistics
Matches: 464, Mismatches: 100, Indels: 41
0.77 0.17 0.07
Matches are distributed among these distances:
223 41 0.09
224 1 0.00
225 1 0.00
226 64 0.14
227 40 0.09
228 36 0.08
229 189 0.41
230 19 0.04
231 1 0.00
234 1 0.00
235 40 0.09
236 31 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (226 bp):
ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
ATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTGC
AACTTCAGAGAAATAAGATTCACTATCTTTA
Found at i:27803844 original size:90 final size:89
Alignment explanation
Indices: 27803644--27803853 Score: 253
Period size: 90 Copynumber: 2.4 Consensus size: 89
27803634 CTTTAGTTTA
* * * ***
27803644 CTCCACTGTAACTTCAGGGAGAAAAGACTTG-TAACTTCAACCTTCTCCATTGCAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAACCTTCTCCATTGCAACCCCAGGGA
** *
27803708 GATAAGGTTTATAGCTTTAATCTG
66 GATAAGACTTATAGCTTCAATCTG
* * * *
27803732 -TCCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACCCCCGG
1 CTCC-ACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAACCTT-CTCCATTGCAACCCCAGG
* *
27803796 GAGATAAGACTTGTGGCTTCAATCTG
64 GAGATAAGACTTATAGCTTCAATCTG
27803822 CTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGC
27803854 CATTATGATT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
87 3 0.03
88 23 0.23
89 11 0.11
90 62 0.61
91 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAACCTTCTCCATTGCAACCCCAGGGA
GATAAGACTTATAGCTTCAATCTG
Found at i:27804202 original size:34 final size:34
Alignment explanation
Indices: 27804154--27804222 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
27804144 GCCTTCTTGT
*
27804154 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTAACAGAAAACCCGAAGAAA
*
27804188 TCAGCCAGTTTCTTTAACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTAACAGAAAACCCGAAGAAA
27804222 T
1 T
27804223 AATCACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (34 bp):
TCAGCCAGTATCTTTAACAGAAAACCCGAAGAAA
Found at i:27805316 original size:34 final size:34
Alignment explanation
Indices: 27805273--27805338 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
27805263 TTTATAAGTC
*
27805273 TCAGTCATTTTCCCTGCAATCTTCTTAATGTTTT
1 TCAGTCATTTTCCCTACAATCTTCTTAATGTTTT
27805307 TCAGTCATTTTCCCTACAATCTTCTTAATGTT
1 TCAGTCATTTTCCCTACAATCTTCTTAATGTT
27805339 CTTATTGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (34 bp):
TCAGTCATTTTCCCTACAATCTTCTTAATGTTTT
Found at i:27812184 original size:3 final size:3
Alignment explanation
Indices: 27812176--27812228 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
27812166 AATAAATAGG
* * * *
27812176 TAA TAA TAA CAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27812224 TAA TA
1 TAA TA
27812229 GTAGGACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:27813260 original size:15 final size:15
Alignment explanation
Indices: 27813240--27813277 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
27813230 GGGCATGGTA
27813240 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27813255 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27813270 ATTGGGTT
1 ATTGGGTT
27813278 CTTTTGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:27813528 original size:41 final size:41
Alignment explanation
Indices: 27813471--27813657 Score: 160
Period size: 44 Copynumber: 4.4 Consensus size: 41
27813461 AATCCATTGT
* *
27813471 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*** *
27813512 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
1 ACTTCAGAGAGATAAGA-CT-TGA-TGCGATCTGCTCTACTGCA
* * * * *
27813556 ACTTCAGAGAGATAGGA-TTGGTTTCTTCTATCTGCTCCACTGCA
1 ACTTCAGAGAGATAAGACTT-G---ATGCGATCTGCTCTACTGCA
* * * *
27813600 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*
27813641 ACCTCAGAGAGATAAGA
1 ACTTCAGAGAGATAAGA
27813658 TCCTTTATTT
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 44 0.38
42 4 0.03
43 3 0.03
44 62 0.54
45 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
Found at i:27813557 original size:44 final size:43
Alignment explanation
Indices: 27813501--27813698 Score: 168
Period size: 44 Copynumber: 4.6 Consensus size: 43
27813491 GATGCGATCT
27813501 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-TGATTTTAATCC
* * * * *
27813545 GCTCTACTGCAACTTCAGAGAGATAGGAT-TGGTTTCTTCTATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATT-TT-AATCC
* * *** *
27813589 GCTCCACTGCAACTTCAGGGAGATAAGA-CTTGA-TGCGATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
* * * * *
27813630 ACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGAT-CTTGATTTTAATCC
* * *
27813674 GCTCCACTGTAACTTCAGGGAGATA
1 GCTCTACTGCAACTTCAGAGAGATA
27813699 GGATAGTGTC
Statistics
Matches: 119, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 26 0.22
42 3 0.03
43 8 0.07
44 82 0.69
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
Found at i:27813701 original size:129 final size:129
Alignment explanation
Indices: 27813471--27813790 Score: 403
Period size: 129 Copynumber: 2.5 Consensus size: 129
27813461 AATCCATTGT
* * *
27813471 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-CTGTG
1 ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
* * * *
27813535 ATTTTAATCCGCTCTACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCA
66 ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA-TAGTGTCTTCGATCTGCTCCACTGCA
* * *
27813600 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCT-TT
1 ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
* * * *
27813664 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTA
66 ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGCA
* * * * *
27813728 A-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 ACT-TCAGGGAGATAAGA-CT-T-GATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATC
27813791 TGAAATTCTT
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
127 1 0.01
128 36 0.22
129 92 0.56
130 3 0.02
131 33 0.20
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGCA
Found at i:27813741 original size:87 final size:85
Alignment explanation
Indices: 27813580--27813876 Score: 237
Period size: 87 Copynumber: 3.4 Consensus size: 85
27813570 GGATTGGTTT
* * * * * * * *
27813580 CTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATGCGATCTACTCTGCTGTAACC
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGA-TTGTCTTCGATCTGCTCCGCTGTAATC
* *
27813644 TCAGAGAGATAAGATC-CTTTA
65 TCAGGGAGATAAGATCTC-TGA
* * *
27813665 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT--TGTCTTCGATCTGCTCCGCTGTAAT
*
27813730 CTCAGGGAGATAAGATCTCTGG
64 CTCAGGGAGATAAGATCTCTGA
* * * * * *
27813752 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT-TG----TCTTCGATCTGCTCCGCTGT
27813817 AATCTCAGGGAGATAAGA-C-CTGA
61 AATCTCAGGGAGATAAGATCTCTGA
* ** * *
27813840 -TGT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 CT-TCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT
27813877 CTTTTAATCC
Statistics
Matches: 173, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
84 1 0.01
85 31 0.18
86 4 0.02
87 97 0.56
88 5 0.03
89 1 0.01
90 34 0.20
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (85 bp):
CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTGTCTTCGATCTGCTCCGCTGTAATCT
CAGGGAGATAAGATCTCTGA
Found at i:27813771 original size:44 final size:42
Alignment explanation
Indices: 27813585--27813961 Score: 209
Period size: 44 Copynumber: 8.8 Consensus size: 42
27813575 GGTTTCTTCT
* * *
27813585 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGA-CT-TGATGCG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGCT-TG
* ** * * * ** *
27813626 ATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTCT-GCTTG
* * **
27813670 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTCTTCG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTG-CTT-G
* *
27813713 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT-GCTT-G
* * *
27813757 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTGC-TTG
* * *
27813803 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGCT-TG
* * * *
27813844 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCT-T--TTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGCTTG
* * * * * *
27813883 ATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CTCTGCTTG
*
27813927 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
27813962 GTGTAATAAA
Statistics
Matches: 255, Mismatches: 56, Indels: 49
0.71 0.16 0.14
Matches are distributed among these distances:
39 24 0.09
40 5 0.02
41 55 0.22
42 9 0.04
43 32 0.13
44 94 0.37
45 3 0.01
46 30 0.12
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGCTTG
Found at i:27826779 original size:3 final size:3
Alignment explanation
Indices: 27826771--27826820 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
27826761 AATAAATAGG
* * * *
27826771 TAA TAA TAA CAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27826819 TA
1 TA
27826821 GTAGGACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:27827829 original size:35 final size:35
Alignment explanation
Indices: 27827761--27827854 Score: 152
Period size: 35 Copynumber: 2.7 Consensus size: 35
27827751 GGTGATGGGA
** *
27827761 CGGTGGCAGAAAGTAGGTGAACGGCGGAGTTGGTGG
1 CGGTGGCAGAGGGTAGGTG-ATGGCGGAGTTGGTGG
27827797 CGGTGGCAGAGGGTAGGTGATGGCGGAGTTGGTGG
1 CGGTGGCAGAGGGTAGGTGATGGCGGAGTTGGTGG
27827832 CGGTGGCAGAGGGTAGGTGATGG
1 CGGTGGCAGAGGGTAGGTGATGG
27827855 GGGGCATGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 38 0.69
36 17 0.31
ACGTcount: A:0.18, C:0.10, G:0.54, T:0.18
Consensus pattern (35 bp):
CGGTGGCAGAGGGTAGGTGATGGCGGAGTTGGTGG
Found at i:27827886 original size:15 final size:15
Alignment explanation
Indices: 27827866--27827918 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
27827856 GGGCATGGTA
27827866 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27827881 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27827896 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27827911 ATTGGGTT
1 ATTGGGTT
27827919 CTTTTGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:27827894 original size:8 final size:8
Alignment explanation
Indices: 27827868--27827910 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
27827858 GCATGGTAAT
27827868 TGGGTTTG
1 TGGGTTTG
*
27827876 TGGGTAT-
1 TGGGTTTG
27827883 TGGGTTTG
1 TGGGTTTG
*
27827891 TGGGTAT-
1 TGGGTTTG
27827898 TGGGTTTG
1 TGGGTTTG
27827906 TGGGT
1 TGGGT
27827911 ATTGGGTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.47
Consensus pattern (8 bp):
TGGGTTTG
Found at i:27828169 original size:41 final size:41
Alignment explanation
Indices: 27828112--27828298 Score: 160
Period size: 44 Copynumber: 4.4 Consensus size: 41
27828102 AATCCATTGT
* *
27828112 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*** *
27828153 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
1 ACTTCAGAGAGATAAGA-CT-TGA-TGCGATCTGCTCTACTGCA
* * * * *
27828197 ACTTCAGAGAGATAGGA-TTGGTTTCTTCTATCTGCTCCACTGCA
1 ACTTCAGAGAGATAAGACTT-G---ATGCGATCTGCTCTACTGCA
* * * *
27828241 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*
27828282 ACCTCAGAGAGATAAGA
1 ACTTCAGAGAGATAAGA
27828299 TCCTTTATTT
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 44 0.38
42 4 0.03
43 3 0.03
44 62 0.54
45 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
Found at i:27828198 original size:44 final size:43
Alignment explanation
Indices: 27828142--27828339 Score: 168
Period size: 44 Copynumber: 4.6 Consensus size: 43
27828132 GATGCGATCT
27828142 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-TGATTTTAATCC
* * * * *
27828186 GCTCTACTGCAACTTCAGAGAGATAGGAT-TGGTTTCTTCTATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATT-TT-AATCC
* * *** *
27828230 GCTCCACTGCAACTTCAGGGAGATAAGA-CTTGA-TGCGATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
* * * * *
27828271 ACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGAT-CTTGATTTTAATCC
* * *
27828315 GCTCCACTGTAACTTCAGGGAGATA
1 GCTCTACTGCAACTTCAGAGAGATA
27828340 GGATAGTGTT
Statistics
Matches: 119, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 26 0.22
42 3 0.03
43 8 0.07
44 82 0.69
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
Found at i:27828342 original size:129 final size:129
Alignment explanation
Indices: 27828112--27828431 Score: 396
Period size: 129 Copynumber: 2.5 Consensus size: 129
27828102 AATCCATTGT
* * *
27828112 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-CTGTG
1 ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
* * *
27828176 ATTTTAATCCGCTCTACTGCAACTTCAGAGAGATAGGATTG-GTTTCTTCTATCTGCTCCACTGC
66 ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTG-TT-TTCGATCTGCTCCACTGC
27828240 A
129 A
* * *
27828241 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCT-TT
1 ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
* * * *
27828305 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCGCTGTA
66 ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTGTTTTCGATCTGCTCCACTGCA
* * * * *
27828369 A-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 ACT-TCAGGGAGATAAGA-CT-T-GATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATC
27828432 TGAAATTCTT
Statistics
Matches: 165, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
127 1 0.01
128 31 0.19
129 96 0.58
130 4 0.02
131 33 0.20
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTGTTTTCGATCTGCTCCACTGCA
Found at i:27828376 original size:43 final size:43
Alignment explanation
Indices: 27828310--27828601 Score: 140
Period size: 44 Copynumber: 6.8 Consensus size: 43
27828300 CCTTTATTTT
* * * **
27828310 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTTTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCACTGGCTTC
* * *
27828353 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCACTGGCTTC
* * *
27828397 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATC---ACTGGCTTC
** * *
27828443 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CT-GATGT-
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCACTGGCT-TC
* * * *
27828484 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCACTGGCTTC
* * * * * **
27828523 AATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTT-
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCACT-GGCTTC
* *
27828567 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATC
27828602 TGTGTAATAA
Statistics
Matches: 192, Mismatches: 43, Indels: 27
0.73 0.16 0.10
Matches are distributed among these distances:
39 25 0.13
40 5 0.03
41 28 0.15
42 4 0.02
43 28 0.15
44 68 0.35
45 1 0.01
46 32 0.17
47 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTGTAACTCAGGGAGATAAGATCACTGGCTTC
Found at i:27828382 original size:87 final size:85
Alignment explanation
Indices: 27828221--27828517 Score: 237
Period size: 87 Copynumber: 3.4 Consensus size: 85
27828211 GGATTGGTTT
* * * * * * * *
27828221 CTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATGCGATCTACTCTGCTGTAACC
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGA-TTGTTTTCGATCTGCTCCGCTGTAATC
* *
27828285 TCAGAGAGATAAGATC-CTTTA
65 TCAGGGAGATAAGATCTC-TGA
* * *
27828306 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCGCTGTAAT
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT--TGTTTTCGATCTGCTCCGCTGTAAT
*
27828371 CTCAGGGAGATAAGATCTCTGG
64 CTCAGGGAGATAAGATCTCTGA
* * * * * *
27828393 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT-TG---TT-TTCGATCTGCTCCGCTGT
27828458 AATCTCAGGGAGATAAGA-C-CTGA
61 AATCTCAGGGAGATAAGATCTCTGA
* ** * *
27828481 -TGT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 CT-TCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT
27828518 CCTTTAATCC
Statistics
Matches: 173, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
84 1 0.01
85 31 0.18
86 4 0.02
87 97 0.56
88 5 0.03
89 3 0.02
90 32 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (85 bp):
CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTGTTTTCGATCTGCTCCGCTGTAATCT
CAGGGAGATAAGATCTCTGA
Found at i:27828419 original size:44 final size:44
Alignment explanation
Indices: 27828221--27828432 Score: 164
Period size: 44 Copynumber: 4.9 Consensus size: 44
27828211 GGATTGGTTT
* * *
27828221 CTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-T-G
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * * ** * **
27828262 ATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TGG
* * * * * ** *
27828306 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * *
27828349 TTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
27828393 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
27828433 GAAATTCTTT
Statistics
Matches: 127, Mismatches: 38, Indels: 9
0.73 0.22 0.05
Matches are distributed among these distances:
41 28 0.22
42 1 0.01
43 33 0.26
44 65 0.51
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
Found at i:27829794 original size:15 final size:15
Alignment explanation
Indices: 27829774--27829811 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
27829764 GGGCATGGTA
27829774 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27829789 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
27829804 ATTGGGTT
1 ATTGGGTT
27829812 CTTTTGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:27848345 original size:3 final size:3
Alignment explanation
Indices: 27848330--27848374 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
27848320 TAAGATATGA
*
27848330 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27848375 AAAAAGTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:27849058 original size:8 final size:8
Alignment explanation
Indices: 27849042--27849109 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
27849032 ACCAAAATTA
*
27849042 AATTCTAT
1 AATTTTAT
27849050 AATTTTAT
1 AATTTTAT
*
27849058 AATTGTA-
1 AATTTTAT
**
27849065 AA-AATAT
1 AATTTTAT
27849072 AATTTTAT
1 AATTTTAT
*
27849080 CATTTTAAT
1 AATTTT-AT
27849089 AA-TTTAT
1 AATTTTAT
*
27849096 ATTTTTAT
1 AATTTTAT
27849104 AATTTT
1 AATTTT
27849110 TAAATGATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
6 2 0.04
7 7 0.15
8 34 0.74
9 3 0.07
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (8 bp):
AATTTTAT
Found at i:27849075 original size:22 final size:24
Alignment explanation
Indices: 27849047--27849107 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
27849037 AATTAAATTC
27849047 TATAATTTTATAATTGTAA-AA-A
1 TATAATTTTATAATTGTAATAATA
* * *
27849069 TATAATTTTATCATTTTAATAATT
1 TATAATTTTATAATTGTAATAATA
*
27849093 TATATTTTTATAATT
1 TATAATTTTATAATT
27849108 TTTAAATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 17 0.53
23 2 0.06
24 13 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
TATAATTTTATAATTGTAATAATA
Found at i:27849105 original size:15 final size:16
Alignment explanation
Indices: 27849069--27849108 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
27849059 ATTGTAAAAA
27849069 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
27849086 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
27849101 TATAATTT
1 TATAATTT
27849109 TTAAATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:27850674 original size:21 final size:21
Alignment explanation
Indices: 27850630--27850675 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
27850620 TTTCTTTTTG
*
27850630 AAAAAGAACAAAATGAATTAT
1 AAAAAGAACAAAATGAATCAT
*
27850651 AAAAA-AATAAAATGAATCACT
1 AAAAAGAACAAAATGAATCA-T
27850672 AAAA
1 AAAA
27850676 CTAAAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (21 bp):
AAAAAGAACAAAATGAATCAT
Found at i:27852344 original size:17 final size:17
Alignment explanation
Indices: 27852322--27852357 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27852312 AAGAGTAGAT
27852322 TTTTAGTCTAAATATTA
1 TTTTAGTCTAAATATTA
* *
27852339 TTTTAGTTTAAATTTTA
1 TTTTAGTCTAAATATTA
27852356 TT
1 TT
27852358 ATTTATGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAGTCTAAATATTA
Found at i:27852549 original size:15 final size:16
Alignment explanation
Indices: 27852529--27852570 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
27852519 TTAATTATTT
27852529 TAAAAATTATA-AAAA
1 TAAAAATTATATAAAA
*
27852544 TAAAAATTA-ATATAA
1 TAAAAATTATATAAAA
27852559 TAAAAA-TATATA
1 TAAAAATTATATA
27852571 TTAACTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAATTATATAAAA
Found at i:27852573 original size:21 final size:22
Alignment explanation
Indices: 27852537--27852591 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
27852527 TTTAAAAATT
* *
27852537 ATAAAAATAAAAATTAA-TATA
1 ATAAAAATATATATTAACTATA
* *
27852558 ATAAAAATATATATTAACTTTT
1 ATAAAAATATATATTAACTATA
27852580 AT-AAAATATATA
1 ATAAAAATATATA
27852592 ACATAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAAATATATATTAACTATA
Found at i:27852826 original size:3 final size:3
Alignment explanation
Indices: 27852818--27852844 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27852808 CAAGGATTTC
27852818 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
27852845 TACCTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27852985 original size:16 final size:16
Alignment explanation
Indices: 27852964--27853003 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
27852954 TTTTCCTTTT
*
27852964 TTCACTCCCTCCCT-CC
1 TTCACTCCCT-CATGCC
27852980 TTCACTCCCTCATGCC
1 TTCACTCCCTCATGCC
27852996 TTCACTCC
1 TTCACTCC
27853004 ACAAAACGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.10, C:0.55, G:0.03, T:0.33
Consensus pattern (16 bp):
TTCACTCCCTCATGCC
Found at i:27861490 original size:3 final size:3
Alignment explanation
Indices: 27861484--27861508 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27861474 TTATTATTAT
27861484 TAC TAC TAC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC T
27861509 TCTTCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:27866754 original size:13 final size:14
Alignment explanation
Indices: 27866735--27866767 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
27866725 GCCCAATACC
*
27866735 TAAAATAAAATAAA
1 TAAAATAAAAGAAA
27866749 -AAAATAAAAGAAA
1 TAAAATAAAAGAAA
27866762 TAAAAT
1 TAAAAT
27866768 CTAAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:27866805 original size:22 final size:22
Alignment explanation
Indices: 27866780--27866842 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
27866770 AAATATCTTT
27866780 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
27866802 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
*
27866824 ACCCCACTAAACCACTCCA
1 ACTCCACTAAACCACTCCA
27866843 CTGAACCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.52, G:0.00, T:0.11
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:27866838 original size:35 final size:35
Alignment explanation
Indices: 27866798--27866866 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
27866788 AAACCACTCC
27866798 AACCACTCCACTAAACCACCCCAACCACCCCACTA
1 AACCACTCCACTAAACCACCCCAACCACCCCACTA
* *
27866833 AACCACTCCACTGAACCACCCCAACCACTCCACT
1 AACCACTCCACTAAACCACCCCAACCACCCCACT
27866867 TGCCTACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.54, G:0.01, T:0.10
Consensus pattern (35 bp):
AACCACTCCACTAAACCACCCCAACCACCCCACTA
Found at i:27867265 original size:3 final size:3
Alignment explanation
Indices: 27867233--27867281 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
27867223 GGAGAGAGTG
* * * *
27867233 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
27867279 TTA
1 TTA
27867282 CTAATACCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27867270 original size:19 final size:18
Alignment explanation
Indices: 27867233--27867274 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
27867223 GGAGAGAGTG
*
27867233 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
27867251 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
27867270 TTATT
1 TTATT
27867275 ATTATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:27869946 original size:19 final size:19
Alignment explanation
Indices: 27869924--27869970 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
27869914 CTTCCTTTCT
27869924 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
27869943 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
27869962 TTTGCATTA
1 TTTGCATTA
27869971 AACTTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:27870138 original size:24 final size:24
Alignment explanation
Indices: 27870103--27870153 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
27870093 TAGAAAGGAT
*
27870103 AGAACAAATACAAAG-GGAGATGCA
1 AGAACAAATAC-AAGCGCAGATGCA
*
27870127 AGAACAATTACAAGCGCAGATGCA
1 AGAACAAATACAAGCGCAGATGCA
27870151 AGA
1 AGA
27870154 GCAACTGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.10
Consensus pattern (24 bp):
AGAACAAATACAAGCGCAGATGCA
Found at i:27873674 original size:53 final size:52
Alignment explanation
Indices: 27873571--27873674 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
27873561 GTCCAAATAA
* * * *
27873571 ATTTTCTTCTTATTGCATTGCTATCTTTGATTAAATCATTCGTTTTGAGTTG
1 ATTTCCTTCTTATTGCATTGCTATCTTTGATTAAATCATCCATTTCGAGTTG
* *
27873623 ATTTCCTTCTTATTGCATTTG-TAATCTTTGATTAATTTATCCATTTCGAGTT
1 ATTTCCTTCTTATTGCA-TTGCT-ATCTTTGATTAAATCATCCATTTCGAGTT
27873675 ATGCTCCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 17 0.39
53 27 0.61
ACGTcount: A:0.20, C:0.14, G:0.12, T:0.54
Consensus pattern (52 bp):
ATTTCCTTCTTATTGCATTGCTATCTTTGATTAAATCATCCATTTCGAGTTG
Found at i:27874997 original size:205 final size:205
Alignment explanation
Indices: 27874633--27875121 Score: 773
Period size: 205 Copynumber: 2.4 Consensus size: 205
27874623 ATCAGGCGGA
*
27874633 GAGCAGATCGAAGACATAGCTGATTTAGG-TTTCACGTGTTTACGTTGAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTT-GGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGA
* *
27874697 TTTGGAATTTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAG
65 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAG
* * * * *
27874762 ACACATAGCAGATCTAACCTTCAGATGTTTATACTTAAGTAGATCCAAGATGGTTTGGCATCCTT
130 ACACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTT
27874827 CTGCTTACAAG
195 CTGCTTACAAG
* * *
27874838 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGTAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * * *
27874903 TTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGTATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
*
27874968 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTC
27875033 TGCTTACAAG
196 TGCTTACAAG
* *
27875043 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
*
27875108 TTGGCGTCTCTGTA
66 TTGGCATCTCTGTA
27875122 GCGGCGAAGA
Statistics
Matches: 259, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
204 2 0.01
205 257 0.99
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTC
TGCTTACAAG
Found at i:27875439 original size:132 final size:132
Alignment explanation
Indices: 27875146--27876264 Score: 1828
Period size: 132 Copynumber: 8.5 Consensus size: 132
27875136 ATCGAAGATT
* *
27875146 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGTAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
27875211 TTACAGTGAAGCAGATCGAAGATTTCAGCAT-GCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27875275 CA
131 CA
* * **
27875277 GCAGATTTGACATCCCTGTGCTTATAGGGAATAGATCGAAGATAATAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
27875342 TTACAGTAAAGCAGATCGAAGATTTTAGCATGGTATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27875407 CA
131 CA
*
27875409 GCAGATTTGGCATCCCCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
27875474 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27875539 CA
131 CA
* * * *
27875541 GCAGATTTGGTATCCCTGTGCTTATATGGAACAGATCAAAGATAGCAGATCTGACATTCTTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
27875606 TTACAGTGAAGCAGATCAAAGATTTCAGTATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27875671 CA
131 CA
* * *
27875673 GTAGATTTGACATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCAGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
27875738 TTACGGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
27875803 TA
131 CA
*
27875805 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
27875870 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGCTTATAGGGAAAAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27875935 CA
131 CA
*
27875937 GCAGATTTGGTATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
27876002 TTACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27876067 CA
131 CA
* * *
27876069 ACAAATTTGGCATCCATGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * * *
27876134 TTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTATGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
27876199 TA
131 CA
* * * * * * *
27876201 GCAGATTTGGCATCCTTGTGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTG
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTG
27876265 TTTATGGGGA
Statistics
Matches: 917, Mismatches: 69, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
131 91 0.10
132 826 0.90
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
CA
Found at i:27877449 original size:84 final size:84
Alignment explanation
Indices: 27877308--27877474 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 84
27877298 CCAAAATCCG
*
27877308 AAGGAAATAATGTTCTGTTTTCACCTCATGGTATGAGATCCTGATGTGTATCAGACAAAGGTGAA
1 AAGGAAACAATGTTCTGTTTTCACCTCATGGTATGAGATCCTGATGTGTATCAGACAAAGGTGAA
27877373 AGAATATAAAGATTTTCGA
66 AGAATATAAAGATTTTCGA
27877392 AAGGAAACAATGTTCTGTTTTCACCTCATGGTATGAGATCCTGATGTGTATCAGACAAAGGTGAA
1 AAGGAAACAATGTTCTGTTTTCACCTCATGGTATGAGATCCTGATGTGTATCAGACAAAGGTGAA
27877457 AGAATATAAAGATTTTCG
66 AGAATATAAAGATTTTCG
27877475 CTGACAGAAG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (84 bp):
AAGGAAACAATGTTCTGTTTTCACCTCATGGTATGAGATCCTGATGTGTATCAGACAAAGGTGAA
AGAATATAAAGATTTTCGA
Found at i:27877812 original size:13 final size:14
Alignment explanation
Indices: 27877795--27877827 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
27877785 GCCCAATACC
*
27877795 TAAAATAAAATAAA
1 TAAAATAAAAGAAA
27877809 -AAAATAAAAGAAA
1 TAAAATAAAAGAAA
27877822 TAAAAT
1 TAAAAT
27877828 CTAAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:27877865 original size:22 final size:22
Alignment explanation
Indices: 27877840--27877902 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
27877830 AAATATCTTT
27877840 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
27877862 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
*
27877884 ACCCCACTAAACCACTCCA
1 ACTCCACTAAACCACTCCA
27877903 CTGAACCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.52, G:0.00, T:0.11
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:27877898 original size:35 final size:35
Alignment explanation
Indices: 27877858--27877926 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
27877848 AAACCACTCC
27877858 AACCACTCCACTAAACCACCCCAACCACCCCACTA
1 AACCACTCCACTAAACCACCCCAACCACCCCACTA
* *
27877893 AACCACTCCACTGAACCACCCCAACCACTCCACT
1 AACCACTCCACTAAACCACCCCAACCACCCCACT
27877927 TGCCTACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.54, G:0.01, T:0.10
Consensus pattern (35 bp):
AACCACTCCACTAAACCACCCCAACCACCCCACTA
Found at i:27878325 original size:3 final size:3
Alignment explanation
Indices: 27878293--27878341 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
27878283 GGAGAGAGTG
* * * *
27878293 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
27878339 TTA
1 TTA
27878342 CTAATACCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27878330 original size:19 final size:18
Alignment explanation
Indices: 27878293--27878334 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
27878283 GGAGAGAGTG
*
27878293 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
27878311 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
27878330 TTATT
1 TTATT
27878335 ATTATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:27879151 original size:35 final size:35
Alignment explanation
Indices: 27879112--27879181 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
27879102 TGCCTCGAAA
* * *
27879112 CCTTTTTAGTTGAACTCCTTATCATTAATATTTTG
1 CCTTTTTAATTGAACACCTTATCATGAATATTTTG
27879147 CCTTTTTAATTGAACACCTTATCATGAATATTTTG
1 CCTTTTTAATTGAACACCTTATCATGAATATTTTG
27879182 GAATTCATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (35 bp):
CCTTTTTAATTGAACACCTTATCATGAATATTTTG
Found at i:27880047 original size:9 final size:10
Alignment explanation
Indices: 27880013--27880045 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
27880003 TTTATCTAAG
27880013 TTATATATAA
1 TTATATATAA
*
27880023 ATATATATAA
1 TTATATATAA
27880033 TTAT-TATAA
1 TTATATATAA
27880042 TTAT
1 TTAT
27880046 TAACCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATATATAA
Found at i:27881258 original size:20 final size:20
Alignment explanation
Indices: 27881235--27881281 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
27881225 GTATAATTAA
27881235 TATGTGTTTAATTTAATATG
1 TATGTGTTTAATTTAATATG
27881255 TATGTGTTTAATTTAATATG
1 TATGTGTTTAATTTAATATG
27881275 TATGTGT
1 TATGTGT
27881282 GGTAAGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (20 bp):
TATGTGTTTAATTTAATATG
Found at i:27881718 original size:45 final size:44
Alignment explanation
Indices: 27881668--27881780 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 44
27881658 CGACTACTGT
* *
27881668 TACTGTTGTCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAA
1 TACTGTT-ACGTTACTGTTACTGATTCAACACTTTGTGTGTCGAA
* *
27881713 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTA-CGTTACTGTTACTGATTCAACACTTTGTGTGTCGAA
27881758 TACTGTTACTGTTACTGTTACTG
1 TACTGTTAC-GTTACTGTTACTG
27881781 CTACCGTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (44 bp):
TACTGTTACGTTACTGTTACTGATTCAACACTTTGTGTGTCGAA
Found at i:27881769 original size:6 final size:6
Alignment explanation
Indices: 27881758--27881801 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
27881748 GTGTGTTGAA
* * *
27881758 TACTGT TACTGT TACTGT TACTGC TACCGT TAGTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
27881802 TAGGTACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:27883887 original size:12 final size:13
Alignment explanation
Indices: 27883859--27883891 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
27883849 TTATTTCTTT
27883859 TTCTCCATCTACC
1 TTCTCCATCTACC
*
27883872 TTCTCC-TCTTCC
1 TTCTCCATCTACC
27883884 TTCTCCAT
1 TTCTCCAT
27883892 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:27884991 original size:28 final size:28
Alignment explanation
Indices: 27884959--27885051 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
27884949 ATTTACTAGA
27884959 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
27884987 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* * *
27885015 ATACCCATATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
27885043 ATACCCCTA
1 ATACCCCTA
27885052 GGGTTAATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:27885198 original size:28 final size:27
Alignment explanation
Indices: 27885157--27885246 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
27885147 AGGAAGCGTC
27885157 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
27885185 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
27885212 CTGGTGGCACTGCCACAAAATGTCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
27885241 CTGGTG
1 CTGGTG
27885247 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:27885265 original size:55 final size:56
Alignment explanation
Indices: 27885157--27885271 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
27885147 AGGAAGCGTC
* * *
27885157 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
27885212 CTGGTGGC-ACTGCCACAAAATGTCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
27885268 CTGG
1 CTGG
27885272 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:27888674 original size:32 final size:33
Alignment explanation
Indices: 27888594--27888674 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 33
27888584 ACATTGTCAG
*
27888594 TCCAACCAAACACACTAGATGCTCACACGAGCCAA
1 TCCAACC-AACACACTA-ATGCTCACAAGAGCCAA
** * * *
27888629 TCCCTCCAGCACACT-ATGCTCATAAGAGCTAA
1 TCCAACCAACACACTAATGCTCACAAGAGCCAA
27888661 TCCAACCAACACAC
1 TCCAACCAACACAC
27888675 CAAACAGAGT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 25 0.68
34 7 0.19
35 5 0.14
ACGTcount: A:0.37, C:0.38, G:0.10, T:0.15
Consensus pattern (33 bp):
TCCAACCAACACACTAATGCTCACAAGAGCCAA
Found at i:27891336 original size:7 final size:7
Alignment explanation
Indices: 27891324--27891352 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
27891314 TACATAAATG
27891324 TATATAA
1 TATATAA
27891331 TATATAA
1 TATATAA
27891338 TATATAA
1 TATATAA
27891345 TATATAA
1 TATATAA
27891352 T
1 T
27891353 TCTATACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATATAA
Found at i:27892529 original size:22 final size:24
Alignment explanation
Indices: 27892504--27892547 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
27892494 TTTTAAATTT
27892504 AAAT-TTAATTATAAAA-ATATAG
1 AAATATTAATTATAAAACATATAG
*
27892526 AAATATTAGTTATAAAACATAT
1 AAATATTAATTATAAAACATAT
27892548 TTTTGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (24 bp):
AAATATTAATTATAAAACATATAG
Found at i:27892835 original size:30 final size:31
Alignment explanation
Indices: 27892801--27892858 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
27892791 TTGATATCTG
* * *
27892801 AACTTGACTTTTTTTC-TAATTTGGTACGTA
1 AACTTAACATTTTTTCATAAGTTGGTACGTA
27892831 AACTTAACATTTTTTCATAAGTTGGTAC
1 AACTTAACATTTTTTCATAAGTTGGTAC
27892859 TTAATCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (31 bp):
AACTTAACATTTTTTCATAAGTTGGTACGTA
Found at i:27892905 original size:60 final size:60
Alignment explanation
Indices: 27892818--27892930 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
27892808 CTTTTTTTCT
* * * *
27892818 AATTTGGTACGTAAACTTAACATTTTTTCATAAGTTGGTACTTAATCTTTTTTAGGGTCC
1 AATTCGGTACCTAAACTCAACATTTTTTCATAAGTTAGTACTTAATCTTTTTTAGGGTCC
* * *
27892878 AATTCGGTACCTAAACTCAAC-TCTTTTTCCTTATTTAGTACTTAATCTTTTTT
1 AATTCGGTACCTAAACTCAACAT-TTTTTCATAAGTTAGTACTTAATCTTTTTT
27892931 CGTTCGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 44 0.98
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (60 bp):
AATTCGGTACCTAAACTCAACATTTTTTCATAAGTTAGTACTTAATCTTTTTTAGGGTCC
Found at i:27907328 original size:9 final size:9
Alignment explanation
Indices: 27907301--27907337 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
27907291 TGAGTTTTTG
27907301 AATTCGAAT
1 AATTCGAAT
* *
27907310 AACTCAAAT
1 AATTCGAAT
27907319 AATTCGAAT
1 AATTCGAAT
27907328 AATTCGAAT
1 AATTCGAAT
27907337 A
1 A
27907338 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27908699 original size:18 final size:18
Alignment explanation
Indices: 27908676--27908712 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27908666 TATAGTTTGA
* *
27908676 TATTCGGTTTATTTGAAT
1 TATTCGGGTTATTCGAAT
27908694 TATTCGGGTTATTCGAAT
1 TATTCGGGTTATTCGAAT
27908712 T
1 T
27908713 CAAAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (18 bp):
TATTCGGGTTATTCGAAT
Found at i:27911756 original size:7 final size:7
Alignment explanation
Indices: 27911746--27911770 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27911736 AGTCATTTCA
27911746 TATTTAG
1 TATTTAG
27911753 TATTTAG
1 TATTTAG
27911760 TATTTAG
1 TATTTAG
27911767 TATT
1 TATT
27911771 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:27912878 original size:25 final size:24
Alignment explanation
Indices: 27912825--27912878 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
27912815 AAAAAGTTGT
27912825 TTTTAATATTTTAATAGTAAATTAA
1 TTTTAATATTTTAATAG-AAATTAA
27912850 TTTT-ATATTTTGAATA-AAATATAA
1 TTTTAATATTTT-AATAGAAAT-TAA
27912874 GTTTT
1 -TTTT
27912879 TTTTAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.15
24 10 0.38
25 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTTAATATTTTAATAGAAATTAA
Found at i:27916130 original size:125 final size:126
Alignment explanation
Indices: 27915932--27916181 Score: 349
Period size: 125 Copynumber: 2.0 Consensus size: 126
27915922 GGCCAATCAT
* * * * *
27915932 GAATTATTGTAGAAAAAGAGCGTCTACGTGAGAGTTTTTTTCAGAAATTTTGCTGACAATGCATC
1 GAATTACTGTAGAAAAACAGCGTCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
* * * *
27915997 CTGCTTGAAGTGTTTTTCACACCATTTGTTCAGAAACG-TTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTCACACCATTTATTCAAAAACGTTTTATCAAAATTATTTTTTCAA
* * * *
27916057 GAATTACTGTAGAAAAACAGCGTCCACATGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
1 GAATTACTGTAGAAAAACAGCGTCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
* * *
27916122 TTGCTTGAAGCGTTTTTGACACTATTTATTCAAAAACGTTTTATCAAAATTATTTTTTCA
66 CTGCTTGAAGCGTTTTTCACACCATTTATTCAAAAACGTTTTATCAAAATTATTTTTTCA
27916182 CGGTACAAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
125 88 0.81
126 20 0.19
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
GAATTACTGTAGAAAAACAGCGTCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTCACACCATTTATTCAAAAACGTTTTATCAAAATTATTTTTTCAA
Found at i:27916286 original size:30 final size:29
Alignment explanation
Indices: 27916252--27916337 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 29
27916242 AACCTTACAC
*
27916252 CCTAATTTAATTTATTTAAAACCCTAGAAT
1 CCTAATTTAATTTATTTAAAACCATA-AAT
*
27916282 CCTAATTTACTTAATTTATCTAAAAACCATAAAT
1 CCTAA--T--TTAATTTAT-TTAAAACCATAAAT
*
27916316 CCTAATTTAACTTATTTAAAAC
1 CCTAATTTAATTTATTTAAAAC
27916338 AACAATTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 6 0.13
30 13 0.28
32 2 0.04
34 17 0.36
35 9 0.19
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (29 bp):
CCTAATTTAATTTATTTAAAACCATAAAT
Found at i:27916296 original size:34 final size:35
Alignment explanation
Indices: 27916258--27916333 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
27916248 ACACCCTAAT
* *
27916258 TTAATTTAT-TTAAAACCCTAGAATCCTAATTT-AC
1 TTAATTTATCTAAAAACCATA-AATCCTAATTTAAC
27916292 TTAATTTATCTAAAAACCATAAATCCTAATTTAAC
1 TTAATTTATCTAAAAACCATAAATCCTAATTTAAC
27916327 TT-ATTTA
1 TTAATTTA
27916334 AAACAACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 25 0.66
35 13 0.34
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.42
Consensus pattern (35 bp):
TTAATTTATCTAAAAACCATAAATCCTAATTTAAC
Found at i:27916390 original size:17 final size:18
Alignment explanation
Indices: 27916364--27916400 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
27916354 ACCCTAAACC
27916364 TAAAACCCTAATTT-ATT
1 TAAAACCCTAATTTAATT
*
27916381 TAAAATCCTAATTTAATT
1 TAAAACCCTAATTTAATT
27916399 TA
1 TA
27916401 TTTAAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAACCCTAATTTAATT
Found at i:27916398 original size:22 final size:22
Alignment explanation
Indices: 27916372--27916413 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
27916362 CCTAAAACCC
*
27916372 TAATTTATTTAAAATCCTAATT
1 TAATTTATTTAAAACCCTAATT
27916394 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
27916414 AAAAATCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAATT
Found at i:27916531 original size:41 final size:41
Alignment explanation
Indices: 27916470--27916547 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
27916460 TTAACTTATT
*
27916470 TAAAACACTAATTTATTTAATTTATTTAAAAACTCTACACC
1 TAAAACACTAATTTACTTAATTTATTTAAAAACTCTACACC
* *
27916511 TAAAACCCTAATTTACTTAATTTATTTAACAACTCTA
1 TAAAACACTAATTTACTTAATTTATTTAAAAACTCTA
27916548 AACCCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (41 bp):
TAAAACACTAATTTACTTAATTTATTTAAAAACTCTACACC
Found at i:27916583 original size:34 final size:34
Alignment explanation
Indices: 27916513--27916583 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
27916503 TCTACACCTA
** * *
27916513 AAACCCTAATTTACTTAATTTATTTAACAACTCT
1 AAACCCTAATTTAAATAATTTATTAAACAACACT
*
27916547 AAACCCTAATTTAAATAATTT-TTAAAATAACACT
1 AAACCCTAATTTAAATAATTTATT-AAACAACACT
27916581 AAA
1 AAA
27916584 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (34 bp):
AAACCCTAATTTAAATAATTTATTAAACAACACT
Found at i:27921766 original size:55 final size:55
Alignment explanation
Indices: 27921680--27921783 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
27921670 GTCGATACAA
27921680 AAAAAATTAATTCTAAAATAAATTTAAATTTAAATTTT-TATTATTTATTTGTACC
1 AAAAAATTAATTCTAAAATAAATTTAAATTTAAATTTTAT-TTATTTATTTGTACC
* *
27921735 AAAAAA-TAATTTTAAAATATATTTTAAATTTAAATTTTATTTATTTATT
1 AAAAAATTAATTCTAAAATA-AATTTAAATTTAAATTTTATTTATTTATT
27921784 GAGAATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
54 12 0.27
55 32 0.71
56 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (55 bp):
AAAAAATTAATTCTAAAATAAATTTAAATTTAAATTTTATTTATTTATTTGTACC
Found at i:27925039 original size:10 final size:10
Alignment explanation
Indices: 27925026--27925051 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27925016 TCTAAATTTA
27925026 TCATTTCTAT
1 TCATTTCTAT
27925036 TCATTTCTAT
1 TCATTTCTAT
27925046 TCATTT
1 TCATTT
27925052 GATTCAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:27927411 original size:15 final size:15
Alignment explanation
Indices: 27927393--27927440 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
27927383 TTTAGTTTTG
27927393 TTAATTAAGGTTTAA
1 TTAATTAAGGTTTAA
* * *
27927408 TTAAATAAAGTATAA
1 TTAATTAAGGTTTAA
*
27927423 TTAATT-AGTTTTAA
1 TTAATTAAGGTTTAA
27927437 TTAA
1 TTAA
27927441 GGTATAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (15 bp):
TTAATTAAGGTTTAA
Found at i:27928032 original size:44 final size:44
Alignment explanation
Indices: 27927982--27928067 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
27927972 ATTCATGCAG
27927982 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATCTA
1 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATCTA
27928026 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATC
1 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATC
27928068 GAGAATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (44 bp):
TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATCTA
Found at i:27938072 original size:49 final size:49
Alignment explanation
Indices: 27937814--27938856 Score: 1645
Period size: 49 Copynumber: 21.5 Consensus size: 49
27937804 TTTGTGTGCT
* * * * * *
27937814 AGTGTAAGA-CATGTCTGAGACATGGCATAGGCTTTGA-GACGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
* * * * * *
27937860 TAGTGTAAGA-CATGTCTTGGACAT-GCATCAGCCTTGA-GATG-TAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGAT-AGTC
* * * *
27937907 AGTGTAAGA-CATGTCTGGGTCAT-GCATTGG-CTACGA-GATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATGACGATAGTC
* * * * * *
27937951 AGTATAAGACCATGTCTGGGACATGGCATCGGCAC-GGAT-ATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGATGA--CGATAGTC
27938001 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938050 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938099 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938148 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938197 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938246 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938295 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938344 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938393 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938442 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938491 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938540 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938589 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938638 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
*
27938687 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
27938736 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
* * * *
27938785 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATG--GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGAT-AGTC
*
27938832 AGTGTAAAACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
27938857 ACATCGACAT
Statistics
Matches: 949, Mismatches: 32, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
44 10 0.01
45 15 0.02
46 60 0.06
47 49 0.05
48 10 0.01
49 768 0.81
50 36 0.04
51 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATAGTC
Found at i:27945436 original size:43 final size:43
Alignment explanation
Indices: 27945345--27945571 Score: 310
Period size: 43 Copynumber: 5.2 Consensus size: 43
27945335 GGTAACGACT
* *
27945345 TTTAGCGGCGTTTGTGGGGAAAGCGCTCCGCTAAAAGTCATGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCG--CCGCTAAAAGTCATGACC
* * * * *
27945390 TTTAGCGGTGTTTGCGGGGAAAGCGCCACTAAAAGTCATGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACC
* *
27945433 TTTAGCGTCGTTTGTGGGAAAAACGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACC
* * *
27945476 TTTAGTGGCATTTGTGGGAAAAGCACCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACC
* *
27945519 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACC
27945562 TTTAGCGGCG
1 TTTAGCGGCG
27945572 CTTTTGTTAC
Statistics
Matches: 163, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 140 0.86
45 23 0.14
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACC
Found at i:27945678 original size:31 final size:31
Alignment explanation
Indices: 27945643--27945701 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
27945633 AATCCTTCCT
*
27945643 GCATTAAATCCAACCAAAAACAACAAATATA
1 GCATTAAATCCAACCAAAAACAAAAAATATA
* * *
27945674 GCATTGAATCCAATCAAATACAAAAAAT
1 GCATTAAATCCAACCAAAAACAAAAAAT
27945702 GTAACATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (31 bp):
GCATTAAATCCAACCAAAAACAAAAAATATA
Found at i:27946430 original size:13 final size:14
Alignment explanation
Indices: 27946404--27946432 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27946394 ACTAACGACG
27946404 AATTAAACCATTAT
1 AATTAAACCATTAT
27946418 AATTAAA-CATTAT
1 AATTAAACCATTAT
27946431 AA
1 AA
27946433 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:27951498 original size:9 final size:9
Alignment explanation
Indices: 27951484--27951580 Score: 67
Period size: 9 Copynumber: 11.0 Consensus size: 9
27951474 TAAGTATAAT
27951484 TAAGTTATG
1 TAAGTTATG
27951493 TAAGTTATG
1 TAAGTTATG
* * *
27951502 ATATGATATA
1 -TAAGTTATG
*
27951512 T-ATTTATG
1 TAAGTTATG
27951520 T-A-TTATG
1 TAAGTTATG
*
27951527 TATGTTATG
1 TAAGTTATG
*
27951536 TAAATTATG
1 TAAGTTATG
*
27951545 TAAGTTATC
1 TAAGTTATG
27951554 TGAA-TTATG
1 T-AAGTTATG
*
27951563 TAAATTATG
1 TAAGTTATG
*
27951572 TAAGATATG
1 TAAGTTATG
27951581 ATATATATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
7 6 0.09
8 7 0.10
9 47 0.69
10 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:27951978 original size:105 final size:105
Alignment explanation
Indices: 27951848--27952221 Score: 559
Period size: 105 Copynumber: 3.4 Consensus size: 105
27951838 CAATATTTAA
27951848 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
27951913 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
*
27951953 AAACACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
27952018 ATTAAAATAAAATAAAATAAAATATTTAAAATAAATATTTAAATACTTT
66 ATTAAAATAAAATAAAATAAAATA-TT----TAAA-A--TAAA-ACTTT
* * *
27952067 AAATACAATTTAATTTAATTAGGTTATTTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCGT
1 AAATACAATTTAATTTAATTAGG-TAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGT
* *
27952132 GATTAAATTAAAATAAAATAAAATAACATATTCAAAATAAAAATTT
65 GATTAAAATAAAATAAAATAAAAT---AT-TT-AAAATAAAACTTT
27952178 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
27952222 TATTTAAAAT
Statistics
Matches: 246, Mismatches: 8, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
105 88 0.36
106 2 0.01
110 24 0.10
111 28 0.11
112 4 0.02
113 4 0.02
114 29 0.12
115 64 0.26
117 1 0.00
118 2 0.01
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.34
Consensus pattern (105 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:27952055 original size:13 final size:13
Alignment explanation
Indices: 27952019--27952060 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
27952009 TTTTTCGTGA
27952019 TTAAAATAAA-A-
1 TTAAAATAAATAT
27952030 -TAAAATAAAATAT
1 TTAAAAT-AAATAT
27952043 TTAAAATAAATAT
1 TTAAAATAAATAT
27952056 TTAAA
1 TTAAA
27952061 TACTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 1 0.04
13 11 0.41
14 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAAATAAATAT
Found at i:27952070 original size:21 final size:20
Alignment explanation
Indices: 27952025--27952079 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
27952015 GTGATTAAAA
*
27952025 TAAAATAAAA-TAAAATATT
1 TAAAATAAAATTTAAATATT
27952044 TAAAATAAATATTTAAATACTT
1 TAAAATAAA-ATTTAAATA-TT
*
27952066 T-AAATACAATTTAA
1 TAAAATAAAATTTAA
27952080 TTTAATTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 9 0.29
20 7 0.23
21 12 0.39
22 3 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAAAATTTAAATATT
Found at i:27952116 original size:115 final size:114
Alignment explanation
Indices: 27951923--27952221 Score: 412
Period size: 115 Copynumber: 2.6 Consensus size: 114
27951913 ATTAAAATAA
*
27951923 AATAAAATAAAATATTTAAAATAAAACTTTAAACACAATTTAATTTAATTAGGTAATTTAAAAAT
1 AATAAAATAAAATATTT-AAAT---ACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAAT
* *
27951988 AAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATAAAATAAAAT
62 AAAATAAAAGTAGACAAAAAAATTTTCGTGATTAAAATAAAATAAAATAAAAT
* *
27952041 ATTTAAAAT-AAATATTTAAATACTTTAAATACAATTTAATTTAATTAGGTTATTTTAAAAATAA
1 A-ATAAAATAAAATATTTAAATACTTTAAATACAATTTAATTTAATTAGG-TAATTTAAAAATAA
*
27952105 AATAAAAGTAGACAAAAAAATTTTCGTGATTAAATTAAAATAAAATAAAAT
64 AATAAAAGTAGACAAAAAAATTTTCGTGATTAAAATAAAATAAAATAAAAT
* * *
27952156 AACATATTCAAAATA---AAA-A-TTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAA
1 AATAAAAT-AAAATATTTAAATACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAA
27952216 ATAAAA
65 ATAAAA
27952222 TATTTAAAAT
Statistics
Matches: 166, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
110 20 0.12
111 26 0.16
112 1 0.01
113 3 0.02
114 30 0.18
115 62 0.37
116 5 0.03
117 4 0.02
118 9 0.05
119 6 0.04
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (114 bp):
AATAAAATAAAATATTTAAATACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAA
TAAAAGTAGACAAAAAAATTTTCGTGATTAAAATAAAATAAAATAAAAT
Found at i:27969225 original size:34 final size:34
Alignment explanation
Indices: 27969181--27969248 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
27969171 TCTAAAAGTT
27969181 ATCAACTTTTTAATAATTTTAAAAAATCATTCGA
1 ATCAACTTTTTAATAATTTTAAAAAATCATTCGA
*
27969215 ATCAATTTTTTAATAATTTTAAAAAATCATTCGA
1 ATCAACTTTTTAATAATTTTAAAAAATCATTCGA
27969249 TAAGAATATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (34 bp):
ATCAACTTTTTAATAATTTTAAAAAATCATTCGA
Done.