Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 83 of 185
Found at i:25753531 original size:40 final size:40
Alignment explanation
Indices: 25753474--25753866 Score: 642
Period size: 40 Copynumber: 9.8 Consensus size: 40
25753464 GAACATTGGA
* *
25753474 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25753514 ACATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
25753554 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25753594 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25753634 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25753674 ATATATCCGGGTTATGACCCGAAGGCAATTATGTGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25753714 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25753754 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
25753794 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25753834 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
25753867 TTTGCGGCTG
Statistics
Matches: 333, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 333 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:25759064 original size:12 final size:10
Alignment explanation
Indices: 25759036--25759076 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
25759026 TATGAACATG
25759036 ATTAATTTTA
1 ATTAATTTTA
25759046 ATTAATTTTA
1 ATTAATTTTA
*
25759056 TAGTTAATTTTG
1 -A-TTAATTTTA
25759068 ATTAATTTT
1 ATTAATTTT
25759077 GACTATTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 18 0.64
11 2 0.07
12 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:25765181 original size:33 final size:33
Alignment explanation
Indices: 25765115--25765209 Score: 101
Period size: 28 Copynumber: 3.0 Consensus size: 33
25765105 AGTAGTCATG
* * * *
25765115 CAGTATCAGTCTGGGCCTGAGCCCTATACAGTAA
1 CAGTA-CAGTGTGGGCCTTAGCCCAATATAGTAA
*
25765149 CAGTACAGTGTGGGCCTTAGCCCAAAATAGTAA
1 CAGTACAGTGTGGGCCTTAGCCCAATATAGTAA
25765182 C---A-A-TGTGGGCCTTAGCCCAATATAGTAA
1 CAGTACAGTGTGGGCCTTAGCCCAATATAGTAA
25765210 TAGTGTGGGC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 24 0.44
29 1 0.02
30 1 0.02
33 24 0.44
34 5 0.09
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (33 bp):
CAGTACAGTGTGGGCCTTAGCCCAATATAGTAA
Found at i:25765189 original size:28 final size:28
Alignment explanation
Indices: 25765157--25765223 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
25765147 AACAGTACAG
25765157 TGTGGGCCTTAGCCCAAAATAGTAACAA
1 TGTGGGCCTTAGCCCAAAATAGTAACAA
* * *
25765185 TGTGGGCCTTAGCCCAATATAGTAATAG
1 TGTGGGCCTTAGCCCAAAATAGTAACAA
25765213 TGTGGGCCTTA
1 TGTGGGCCTTA
25765224 CCCTAGTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAAAATAGTAACAA
Found at i:25765614 original size:27 final size:27
Alignment explanation
Indices: 25765584--25765643 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
25765574 TACCAATCAT
*
25765584 TTTACTCGATGAGGGTATTTCAGTCAA
1 TTTACCCGATGAGGGTATTTCAGTCAA
** * *
25765611 TTTACCCTTTGAGGGTATTTTAGTCAT
1 TTTACCCGATGAGGGTATTTCAGTCAA
25765638 TTTACC
1 TTTACC
25765644 ATTTGGGGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (27 bp):
TTTACCCGATGAGGGTATTTCAGTCAA
Found at i:25765654 original size:54 final size:54
Alignment explanation
Indices: 25765596--25765804 Score: 178
Period size: 54 Copynumber: 3.9 Consensus size: 54
25765586 TACTCGATGA
* *
25765596 GGGTATTTC-AGTCAATTTACCCTT-TGAGGGTATTTTAGTCATTTTACCATTTGG
1 GGGTATTTCGA-TCAATTTACCCTTCAG-GGGTATTTTAGTCATTTTACCCTTTGG
* * * **
25765650 GGGTATTTCGATCATTTTACCCATCAGGGGTATTTTGGTCATTTTACCCTTTAA
1 GGGTATTTCGATCAATTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTTGG
* * * **
25765704 GGGTATTTCGAT-AATTTTACCCTCCAGGGGTATTTCAATCATTTTACCCTACGG
1 GGGTATTTCGATCAA-TTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTTGG
* * * *
25765758 AGGTATTTC-AGTC-ATTTTCCCTTGCGGGGGCATTTT-GATCATTTTAC
1 GGGTATTTCGA-TCAATTTACCCTT-CAGGGGTATTTTAG-TCATTTTAC
25765805 TCTCCGAGGG
Statistics
Matches: 124, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
53 9 0.07
54 113 0.91
55 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGATCAATTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTTGG
Found at i:25765720 original size:27 final size:27
Alignment explanation
Indices: 25765595--25765753 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
25765585 TTACTCGATG
* *
25765595 AGGGTATTTC-AGTCAATTTACCCTTTG
1 AGGGTATTTCGA-TCATTTTACCCTTTA
* * *
25765622 AGGGTATTT-TAGTCATTTTACCATTTG
1 AGGGTATTTCGA-TCATTTTACCCTTTA
* * *
25765649 GGGGTATTTCGATCATTTTACCCATCA
1 AGGGTATTTCGATCATTTTACCCTTTA
* * *
25765676 GGGGTATTTTGGTCATTTTACCCTTTA
1 AGGGTATTTCGATCATTTTACCCTTTA
* **
25765703 AGGGTATTTCGATAATTTTACCCTCCA
1 AGGGTATTTCGATCATTTTACCCTTTA
* *
25765730 GGGGTATTTCAATCATTTTACCCT
1 AGGGTATTTCGATCATTTTACCCT
25765754 ACGGAGGTAT
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
27 108 0.99
28 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCGATCATTTTACCCTTTA
Found at i:25765762 original size:27 final size:26
Alignment explanation
Indices: 25765596--25765828 Score: 136
Period size: 27 Copynumber: 8.7 Consensus size: 26
25765586 TACTCGATGA
* **
25765596 GGGTATTTCAGTCAATTTACCCTTTG
1 GGGTATTTCAGTCATTTTACCCTACG
* * **
25765622 AGGGTATTTTAGTCATTTTACCATTTGG
1 -GGGTATTTCAGTCATTTTACC-CTACG
25765650 GGGTATTTC-GATCATTTTACCC-ATCAG
1 GGGTATTTCAG-TCATTTTACCCTA-C-G
** *
25765677 GGGTATTTTGGTCATTTTACCCTTTA-A
1 GGGTATTTCAGTCATTTTACCC--TACG
* *
25765704 GGGTATTTC-GATAATTTTACCCTCCAG
1 GGGTATTTCAG-TCATTTTACCCTAC-G
*
25765731 GGGTATTTCAATCATTTTACCCTACG
1 GGGTATTTCAGTCATTTTACCCTACG
*
25765757 GAGGTATTTCAGTCATTTT-CCCTTGCGG
1 G-GGTATTTCAGTCATTTTACCC-TAC-G
* * * *
25765785 GGGCATTT-TGATCATTTTACTCTCCG
1 GGGTATTTCAG-TCATTTTACCCTACG
25765811 AGGGTATTTCAGTCATTT
1 -GGGTATTTCAGTCATTT
25765829 GCCCACGAAT
Statistics
Matches: 162, Mismatches: 25, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
25 1 0.01
26 9 0.06
27 142 0.88
28 9 0.06
30 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (26 bp):
GGGTATTTCAGTCATTTTACCCTACG
Found at i:25765802 original size:81 final size:79
Alignment explanation
Indices: 25765562--25765828 Score: 227
Period size: 81 Copynumber: 3.3 Consensus size: 79
25765552 GTCATTTCAT
** * * *
25765562 CTCCTAGGGGTATACCAATCATTTTACTCGA-TGAGGGTATTTCAGTCAATTTACCCTTTGAGGG
1 CTCC-AGGGGTATTTCAATCATTTTAC-CCACGGA-GGTATTTCAGTC-ATTTTCCCTTTGAGGG
25765626 TATTTT-AGTCATTTTACC
62 TATTTTGA-TCATTTTACC
* *** * ** *
25765644 ATTTGGGGGTATTTCGATCATTTTACCCATCAGG-GGTATTTTGGTCATTTTACCCTTTAAGGGT
1 CTCCAGGGGTATTTCAATCATTTTACCCA-C-GGAGGTATTTCAGTCATTTT-CCCTTTGAGGGT
* *
25765708 ATTTCGATAATTTTACC
63 ATTTTGATCATTTTACC
* * *
25765725 CTCCAGGGGTATTTCAATCATTTTACCCTACGGAGGTATTTCAGTCATTTTCCCTTGCGGGGGCA
1 CTCCAGGGGTATTTCAATCATTTTACCC-ACGGAGGTATTTCAGTCATTTTCCCTT-TGAGGGTA
*
25765790 TTTTGATCATTTTACT
64 TTTTGATCATTTTACC
*
25765806 CTCC-GAGGGTATTTCAGTCATTT
1 CTCCAG-GGGTATTTCAATCATTT
25765829 GCCCACGAAT
Statistics
Matches: 146, Mismatches: 30, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
80 14 0.10
81 128 0.88
82 3 0.02
83 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (79 bp):
CTCCAGGGGTATTTCAATCATTTTACCCACGGAGGTATTTCAGTCATTTTCCCTTTGAGGGTATT
TTGATCATTTTACC
Found at i:25767384 original size:24 final size:24
Alignment explanation
Indices: 25767325--25767385 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
25767315 CATTCTATTA
* * *
25767325 GCCTTTATGGCATATTTTTATTTG
1 GCCTTTATGGCATATTCTGATTGG
* *
25767349 ACCTTTAGGGCATATTCTGATTGG
1 GCCTTTATGGCATATTCTGATTGG
*
25767373 GCCTTCATGGCAT
1 GCCTTTATGGCAT
25767386 TTTGTTAGCC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (24 bp):
GCCTTTATGGCATATTCTGATTGG
Found at i:25767443 original size:19 final size:20
Alignment explanation
Indices: 25767380--25767443 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 20
25767370 TGGGCCTTCA
*
25767380 TGGCATTTTGTTAGCCTTTG
1 TGGCATTATGTTAGCCTTTG
* * *
25767400 TGGAAATCT-TTAGCCGTTT-
1 TGGCATTATGTTAGCC-TTTG
25767419 TGGCATTATGTT-GCCTTTG
1 TGGCATTATGTTAGCCTTTG
25767438 TGGCAT
1 TGGCAT
25767444 ACTCTGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.09
19 21 0.60
20 11 0.31
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (20 bp):
TGGCATTATGTTAGCCTTTG
Found at i:25774348 original size:20 final size:20
Alignment explanation
Indices: 25774323--25774363 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25774313 ATTTAACCTT
*
25774323 AGTTTATAACTTTAAAAATC
1 AGTTTATAAATTTAAAAATC
25774343 AGTTTATAAATTTAAAAATC
1 AGTTTATAAATTTAAAAATC
25774363 A
1 A
25774364 CTTAAACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (20 bp):
AGTTTATAAATTTAAAAATC
Found at i:25777816 original size:25 final size:25
Alignment explanation
Indices: 25777758--25777892 Score: 95
Period size: 25 Copynumber: 5.5 Consensus size: 25
25777748 TACATGTATT
* *
25777758 CTTATACGAGCTATG-AATCGATATG
1 CTTATACGAGCTA-GAAATCGGTAAG
*
25777783 CTCT-CACGAGCTAGAAATCGGTAAG
1 CT-TATACGAGCTAGAAATCGGTAAG
*
25777808 CTTATACGAGCT-GAGAATCAGTAAG
1 CTTATACGAGCTAGA-AATCGGTAAG
*
25777833 CTCTCA-A-AAGCTA-AAATCGGTAAG
1 CT-T-ATACGAGCTAGAAATCGGTAAG
* *
25777857 ATCATACGAGCT-GAAATCGGTAAG
1 CTTATACGAGCTAGAAATCGGTAAG
* *
25777881 CTCATACAAGCT
1 CTTATACGAGCT
25777893 GTGGTGTGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 39 0.44
25 43 0.49
26 3 0.03
27 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (25 bp):
CTTATACGAGCTAGAAATCGGTAAG
Found at i:25777836 original size:50 final size:48
Alignment explanation
Indices: 25777758--25777883 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 48
25777748 TACATGTATT
* **
25777758 CTTATACGAGCT-ATGAATCGATATGCTCTCACGAGCTAGAAATCGGTAAG
1 CTTATACGAGCTGA-GAATCG-TAAGCTCTCAAAAGCTA-AAATCGGTAAG
25777808 CTTATACGAGCTGAGAATCAGTAAGCTCTCAAAAGCTAAAATCGGTAAG
1 CTTATACGAGCTGAGAATC-GTAAGCTCTCAAAAGCTAAAATCGGTAAG
* *
25777857 ATCATACGAGCTGA-AATCGGTAAGCTC
1 CTTATACGAGCTGAGAATC-GTAAGCTC
25777884 ATACAAGCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
48 12 0.18
49 23 0.34
50 31 0.46
51 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (48 bp):
CTTATACGAGCTGAGAATCGTAAGCTCTCAAAAGCTAAAATCGGTAAG
Found at i:25777893 original size:24 final size:24
Alignment explanation
Indices: 25777791--25777893 Score: 109
Period size: 24 Copynumber: 4.2 Consensus size: 24
25777781 TGCTCTCACG
* *
25777791 AGCTAGAAATCGGTAAGCTTATACG
1 AGCT-GAAATCGGTAAGCTCATACA
* *
25777816 AGCTGAGAATCAGTAAGCTC-TCAAA
1 AGCTGA-AATCGGTAAGCTCAT-ACA
* * *
25777841 AGCTAAAATCGGTAAGATCATACG
1 AGCTGAAATCGGTAAGCTCATACA
25777865 AGCTGAAATCGGTAAGCTCATACA
1 AGCTGAAATCGGTAAGCTCATACA
25777889 AGCTG
1 AGCTG
25777894 TGGTGTGTCC
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
24 41 0.65
25 22 0.35
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.21
Consensus pattern (24 bp):
AGCTGAAATCGGTAAGCTCATACA
Found at i:25792081 original size:25 final size:25
Alignment explanation
Indices: 25792053--25792102 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
25792043 TAAAGGGGAC
25792053 TAAGGCATTTCACATGAATTTTTAA
1 TAAGGCATTTCACATGAATTTTTAA
*
25792078 TAAGGCATTTCGCATGAATTTTTAA
1 TAAGGCATTTCACATGAATTTTTAA
25792103 AGTATGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (25 bp):
TAAGGCATTTCACATGAATTTTTAA
Found at i:25794188 original size:19 final size:22
Alignment explanation
Indices: 25794162--25794211 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
25794152 GAACTAGATT
25794162 AGGTTAAAA-GGG-TG-TTTTA
1 AGGTTAAAAGGGGATGTTTTTA
*
25794181 ATGTTAAAAGGGGATGTTTTTA
1 AGGTTAAAAGGGGATGTTTTTA
25794203 AGGTTAAAA
1 AGGTTAAAA
25794212 ATCGAGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 3 0.12
21 2 0.08
22 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
AGGTTAAAAGGGGATGTTTTTA
Found at i:25808458 original size:29 final size:28
Alignment explanation
Indices: 25808375--25808458 Score: 64
Period size: 28 Copynumber: 2.9 Consensus size: 28
25808365 CTTGAAACGA
* *
25808375 TAACCACTGGCATAAAGTGCCTGGAACTG
1 TAACCACCGACAT-AAGTGCCTGGAACTG
* * * *
25808404 -AAACACCAATACATAA-TACCTAGAACTG
1 TAACCACC--GACATAAGTGCCTGGAACTG
25808432 TAACCACCGACATAGAGTGCCTGGAAC
1 TAACCACCGACATA-AGTGCCTGGAAC
25808459 ACCTTAATGA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
27 5 0.12
28 16 0.40
29 16 0.40
30 3 0.08
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (28 bp):
TAACCACCGACATAAGTGCCTGGAACTG
Found at i:25817896 original size:20 final size:20
Alignment explanation
Indices: 25817873--25817939 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 20
25817863 TACTTTCATA
25817873 CTCCTGATAACACTACGGTG
1 CTCCTGATAACACTACGGTG
* * * *** *
25817893 CTCCTAACAATACTTTTGTA
1 CTCCTGATAACACTACGGTG
* *
25817913 CTCTTGATAGCACTACGGTG
1 CTCCTGATAACACTACGGTG
25817933 CTCCTGA
1 CTCCTGA
25817940 CAGTAGTTTC
Statistics
Matches: 30, Mismatches: 17, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (20 bp):
CTCCTGATAACACTACGGTG
Found at i:25817951 original size:80 final size:79
Alignment explanation
Indices: 25817844--25818055 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 79
25817834 TCCTGGTAGT
* *
25817844 ACTACGGTGCTCCTGGAAATACTTTCATACTCCTGATAACACTACGGTGCTCCTAACAATACTTT
1 ACTACGGTGCTCCT-GAAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAATACTTT
* * *
25817909 TGTACTCTTGATAGC
65 CGTACTCCTAATAGC
* * * * * *
25817924 ACTACGGTGCTCCTGACAGTAGTTTCATCCTCCTGATGGCACTATGGTGCTCCTAACAGTTCTTT
1 ACTACGGTGCTCCTGA-AGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAATACTTT
25817989 CGTACTCCTAATAGC
65 CGTACTCCTAATAGC
* * *
25818004 ACTACGGTGCTCTTGATAGTACTTTCGTACTCCTGTTAGCACTACGGTGCTC
1 ACTACGGTGCTCCTGA-AGTACTTTCATACTCCTGATAGCACTACGGTGCTC
25818056 TTGATAGCAG
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 2 0.02
80 110 0.98
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (79 bp):
ACTACGGTGCTCCTGAAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAATACTTTC
GTACTCCTAATAGC
Found at i:25818046 original size:120 final size:120
Alignment explanation
Indices: 25817865--25818087 Score: 293
Period size: 120 Copynumber: 1.9 Consensus size: 120
25817855 CCTGGAAATA
* * *
25817865 CTTTCATACTCCTGATAACACTACGGTGCTCCTAACAATACTTTTGTACTCTTGATAGCACTACG
1 CTTTCATACTCCTAATAACACTACGGTGCTCCTAACAATACTTTCGTACTCCTGATAGCACTACG
* *
25817930 GTGCTCCTGACAGTAGTTTCATCCTCCTGATGGCACTATGGTGCTCCTAACAGTT
66 GTGCTCCTGACAGCAGATTCATCCTCCTGATGGCACTATGGTGCTCCTAACAGTT
* * * * * * *
25817985 CTTTCGTACTCCTAATAGCACTACGGTGCTCTTGATAGTACTTTCGTACTCCTGTTAGCACTACG
1 CTTTCATACTCCTAATAACACTACGGTGCTCCTAACAATACTTTCGTACTCCTGATAGCACTACG
* * * * *
25818050 GTGCTCTTGATAGCAGATTCATGCTCCTGTTTGCACTA
66 GTGCTCCTGACAGCAGATTCATCCTCCTGATGGCACTA
25818088 CGGTACCCCT
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
120 86 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (120 bp):
CTTTCATACTCCTAATAACACTACGGTGCTCCTAACAATACTTTCGTACTCCTGATAGCACTACG
GTGCTCCTGACAGCAGATTCATCCTCCTGATGGCACTATGGTGCTCCTAACAGTT
Found at i:25818056 original size:40 final size:40
Alignment explanation
Indices: 25817833--25818091 Score: 241
Period size: 40 Copynumber: 6.5 Consensus size: 40
25817823 TGAATAAGTG
* * *
25817833 CTCCTGGTAGTACTACGGTGCTCCTGGA-AATACTTTCATA
1 CTCCTGATAGCACTACGGTGCTCCT-GACAGTACTTTCATA
* * * **
25817873 CTCCTGATAACACTACGGTGCTCCTAACAATACTTTTGTA
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCATA
* * *
25817913 CTCTTGATAGCACTACGGTGCTCCTGACAGTAGTTTCATC
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCATA
* * * * *
25817953 CTCCTGATGGCACTATGGTGCTCCTAACAGTTCTTTCGTA
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCATA
* * * *
25817993 CTCCTAATAGCACTACGGTGCTCTTGATAGTACTTTCGTA
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCATA
* * * * ** *
25818033 CTCCTGTTAGCACTACGGTGCTCTTGATAGCAGATTCATG
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCATA
* *
25818073 CTCCTGTTTGCACTACGGT
1 CTCCTGATAGCACTACGGT
25818092 ACCCCTAATT
Statistics
Matches: 181, Mismatches: 37, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 180 0.99
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.34
Consensus pattern (40 bp):
CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCATA
Found at i:25819920 original size:26 final size:24
Alignment explanation
Indices: 25819855--25819920 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 24
25819845 CAGTTTCACT
*
25819855 GTGAGGCAGGTTCGCTAATGTGTTG
1 GTGA-GCAGGTTCGCCAATGTGTTG
* *
25819880 GTGAGCTGGGGTTCGCCAATTTGTTTG
1 GTGAGC--AGGTTCGCCAATGTG-TTG
25819907 GTGAGCAGGATTCG
1 GTGAGCAGG-TTCG
25819921 TCATGTAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.06
25 6 0.18
26 16 0.48
27 9 0.27
ACGTcount: A:0.15, C:0.14, G:0.39, T:0.32
Consensus pattern (24 bp):
GTGAGCAGGTTCGCCAATGTGTTG
Found at i:25828190 original size:26 final size:28
Alignment explanation
Indices: 25828032--25828196 Score: 131
Period size: 29 Copynumber: 5.9 Consensus size: 28
25828022 CTTCAGATTA
* * *
25828032 CGCCACAAAGGCACTCC-TTTCCCAAGAT
1 CGCCACAAAGGC-TTCCTTTTACAAAGAT
* * * * *
25828060 AGCCACAGAGGCTTTCTTTT-CAGAGTTT
1 CGCCACAAAGGCTTCCTTTTACAAAG-AT
* *
25828088 CACCACAAAGGCTTCCTTTTAAAATAGAT
1 CGCCACAAAGGCTTCCTTTTACAA-AGAT
25828117 CGCCACAAAGGCTTCCTTTTAACAAAGAT
1 CGCCACAAAGGCTTCCTTTT-ACAAAGAT
* *
25828146 CGCCACAAAGACTTTC-TTT-CAAAGAT
1 CGCCACAAAGGCTTCCTTTTACAAAGAT
* * *
25828172 AGCCACAAAGGCGTCCTTTCACAAA
1 CGCCACAAAGGCTTCCTTTTACAAA
25828197 AATTGGTGTT
Statistics
Matches: 107, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
26 19 0.18
27 7 0.07
28 37 0.35
29 39 0.36
30 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (28 bp):
CGCCACAAAGGCTTCCTTTTACAAAGAT
Found at i:25834809 original size:14 final size:14
Alignment explanation
Indices: 25834792--25834818 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25834782 GCCAAAAAAT
25834792 CGTGGCGAAATCAC
1 CGTGGCGAAATCAC
25834806 CGTGGCGAAATCA
1 CGTGGCGAAATCA
25834819 ATGGCCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.30, T:0.15
Consensus pattern (14 bp):
CGTGGCGAAATCAC
Found at i:25841455 original size:14 final size:15
Alignment explanation
Indices: 25841430--25841458 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25841420 AAAAAAGGGG
25841430 TCTAGTTGAACCGAA
1 TCTAGTTGAACCGAA
25841445 TCTAG-TGAACCGAA
1 TCTAGTTGAACCGAA
25841459 CCAGCCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (15 bp):
TCTAGTTGAACCGAA
Found at i:25846697 original size:16 final size:16
Alignment explanation
Indices: 25846676--25846710 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25846666 TTTTATTTTC
25846676 ATAATAAATTTTAAA-A
1 ATAAT-AATTTTAAATA
25846692 ATAATAATTTTAAATA
1 ATAATAATTTTAAATA
25846708 ATA
1 ATA
25846711 TTATTCACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAATTTTAAATA
Found at i:25846758 original size:17 final size:17
Alignment explanation
Indices: 25846736--25846800 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
25846726 TGAAAATATT
25846736 TAATAAAAATATTTTAA
1 TAATAAAAATATTTTAA
*
25846753 TAATAAATAT-TTATTACA
1 TAATAAAAATATT-TTA-A
* * *
25846771 -ATTATAAATATATTAA
1 TAATAAAAATATTTTAA
*
25846787 TAATAAAAAAATTT
1 TAATAAAAATATTT
25846801 AGTATAAAGG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
16 3 0.09
17 30 0.86
18 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATAAAAATATTTTAA
Found at i:25846762 original size:15 final size:15
Alignment explanation
Indices: 25846729--25846793 Score: 62
Period size: 15 Copynumber: 4.2 Consensus size: 15
25846719 GTATTACTGA
25846729 AAATA-TTTAATAA-
1 AAATATTTTAATAAT
25846742 AAATATTTTAATAAT
1 AAATATTTTAATAAT
*
25846757 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
25846776 AAATATATTAATAAT
1 AAATATTTTAATAAT
25846791 AAA
1 AAA
25846794 AAAATTTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.12
14 8 0.19
15 13 0.30
16 2 0.05
17 4 0.09
18 1 0.02
19 10 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:25846765 original size:14 final size:13
Alignment explanation
Indices: 25846728--25846765 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
25846718 CGTATTACTG
25846728 AAAATATTTAATA
1 AAAATATTTAATA
25846741 AAAATATTTTAATA
1 AAAATA-TTTAATA
25846755 ATAAATATTTA
1 A-AAATATTTA
25846766 TTACAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATTTAATA
Found at i:25847269 original size:14 final size:14
Alignment explanation
Indices: 25847250--25847302 Score: 97
Period size: 14 Copynumber: 3.8 Consensus size: 14
25847240 TCAGAAAAGT
25847250 AAATCATTTTCCAG
1 AAATCATTTTCCAG
25847264 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
25847278 AAGTCATTTTCCAG
1 AAATCATTTTCCAG
25847292 AAATCATTTTC
1 AAATCATTTTC
25847303 AGTGAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:25847936 original size:65 final size:65
Alignment explanation
Indices: 25847828--25847952 Score: 214
Period size: 65 Copynumber: 1.9 Consensus size: 65
25847818 AAAATTTTAC
* *
25847828 CCCGTCATTTAATTTTTTATCTTTTTTAGCTCTTAAACCTGCGTTTTTGTCAAATCATCCCAAAG
1 CCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACCTGCGTTTTTATCAAATCATCCCAAAG
* *
25847893 CCCGTCATTTAATTTTTCATCTTTTTTTGCTCTTAAACTTGCGTTTTTATCAAATCATCC
1 CCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACCTGCGTTTTTATCAAATCATCC
25847953 AAAAATGGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.22, C:0.23, G:0.08, T:0.47
Consensus pattern (65 bp):
CCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACCTGCGTTTTTATCAAATCATCCCAAAG
Found at i:25852940 original size:9 final size:9
Alignment explanation
Indices: 25852926--25852951 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25852916 ATTCATTAAT
25852926 TTTTAGTTA
1 TTTTAGTTA
25852935 TTTTAGTTA
1 TTTTAGTTA
25852944 TTTTAGTT
1 TTTTAGTT
25852952 TGTGTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Found at i:25853066 original size:33 final size:33
Alignment explanation
Indices: 25853029--25853124 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 33
25853019 TATGTAACTT
*
25853029 TCATGTTAGTTGAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
* *
25853062 TCATGTTAGTTTAA--TT--AT--GTAACTT---
1 TCATGTTAG-TTAAGTTTGCATCATTAAATTAAG
25853087 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
25853120 TCATG
1 TCATG
25853125 CATTAACTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
24 4 0.08
25 9 0.19
26 2 0.04
28 7 0.15
30 7 0.15
32 2 0.04
33 14 0.29
34 3 0.06
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (33 bp):
TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
Found at i:25865965 original size:27 final size:27
Alignment explanation
Indices: 25865935--25866112 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25865925 ATATTGAGTC
* * * *
25865935 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25865962 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25865989 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25866017 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25866044 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25866071 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25866098 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25866113 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25866074 original size:82 final size:81
Alignment explanation
Indices: 25865956--25866111 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25865946 TGCTATATAA
* *
25865956 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25866021 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25866038 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25866102 CACTTAGTGC
65 CACTTAGTGC
25866112 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25872113 original size:9 final size:9
Alignment explanation
Indices: 25872099--25872161 Score: 65
Period size: 9 Copynumber: 6.8 Consensus size: 9
25872089 TTATTAGAAA
25872099 TGAGAGACT
1 TGAGAGACT
25872108 TGAGAGACT
1 TGAGAGACT
25872117 TGAGAGGGA-T
1 TGAGA--GACT
*
25872127 TGAGAGAATT
1 TGAGAG-ACT
*
25872137 TGAGAGAAT
1 TGAGAGACT
*
25872146 TGAGAGAGT
1 TGAGAGACT
25872155 TGAGAGA
1 TGAGAGA
25872162 AGGATGTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
8 1 0.02
9 32 0.67
10 13 0.27
11 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.22
Consensus pattern (9 bp):
TGAGAGACT
Found at i:25872131 original size:19 final size:19
Alignment explanation
Indices: 25872107--25872160 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
25872097 AATGAGAGAC
*
25872107 TTGAGAGACTTGAGAGGGA
1 TTGAGAGACTTGAGAGGAA
*
25872126 TTGAGAGAATTTGAGA-GAA
1 TTGAGAG-ACTTGAGAGGAA
*
25872145 TTGAGAGAGTTGAGAG
1 TTGAGAGACTTGAGAG
25872161 AAGGATGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 16 0.53
20 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (19 bp):
TTGAGAGACTTGAGAGGAA
Found at i:25874278 original size:28 final size:29
Alignment explanation
Indices: 25874246--25874305 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
25874236 AAATAATTAT
* *
25874246 AAATAT-ATATAATTGTTTGAAAATT-TAA
1 AAATATGATAGAATT-TTTAAAAATTGTAA
*
25874274 AAATATGTTAGAATTTTTAAAAATTGTAA
1 AAATATGATAGAATTTTTAAAAATTGTAA
25874303 AAA
1 AAA
25874306 ATAATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (29 bp):
AAATATGATAGAATTTTTAAAAATTGTAA
Found at i:25874282 original size:20 final size:20
Alignment explanation
Indices: 25874259--25874297 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25874249 TATATATAAT
*
25874259 TGTTTGAAAATTTAAAAATA
1 TGTTAGAAAATTTAAAAATA
**
25874279 TGTTAGAATTTTTAAAAAT
1 TGTTAGAAAATTTAAAAAT
25874298 TGTAAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
TGTTAGAAAATTTAAAAATA
Found at i:25874314 original size:11 final size:10
Alignment explanation
Indices: 25874292--25874411 Score: 83
Period size: 10 Copynumber: 12.6 Consensus size: 10
25874282 TAGAATTTTT
*
25874292 AAAAATTGTA
1 AAAAATTATA
* *
25874302 AAAAATAATT
1 AAAAATTATA
25874312 AAAAATTATA
1 AAAAATTATA
25874322 AAAAATTATA
1 AAAAATTATA
*
25874332 AAAAA--CT-
1 AAAAATTATA
* *
25874339 AGAAATTGT-
1 AAAAATTATA
*
25874348 AAAAATCAT-
1 AAAAATTATA
*
25874357 AAAAATCAT-
1 AAAAATTATA
25874366 AAAAATTAT-
1 AAAAATTATA
25874375 AAAAATTATAA
1 AAAAATTAT-A
*
25874386 AAAAATTGTA
1 AAAAATTATA
* *
25874396 AAAGATTGTA
1 AAAAATTATA
25874406 AAAAAT
1 AAAAAT
25874412 AATTAAAAAC
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
7 4 0.04
8 1 0.01
9 33 0.36
10 45 0.49
11 8 0.09
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:25874352 original size:27 final size:27
Alignment explanation
Indices: 25874291--25874389 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
25874281 TTAGAATTTT
* *
25874291 TAAAAATTGTAAAAAATAATTAAAAATTA
1 TAAAAATTATAAAAAA-CA-TAAAAATTA
* *
25874320 TAAAAAATTATAAAAAAC-TAGAAATTG
1 T-AAAAATTATAAAAAACATAAAAATTA
* *
25874347 TAAAAATCATAAAAATCATAAAAATTA
1 TAAAAATTATAAAAAACATAAAAATTA
25874374 TAAAAATTATAAAAAA
1 TAAAAATTATAAAAAA
25874390 ATTGTAAAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 14 0.24
27 29 0.50
29 1 0.02
30 14 0.24
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (27 bp):
TAAAAATTATAAAAAACATAAAAATTA
Found at i:25874398 original size:9 final size:9
Alignment explanation
Indices: 25874291--25874388 Score: 92
Period size: 9 Copynumber: 10.7 Consensus size: 9
25874281 TTAGAATTTT
*
25874291 TAAAAATTG
1 TAAAAATTA
*
25874300 TAAAAAATAA
1 T-AAAAATTA
25874310 TTAAAAATTA
1 -TAAAAATTA
25874320 TAAAAAATTA
1 T-AAAAATTA
25874330 TAAAAA--A
1 TAAAAATTA
* *
25874337 CTAGAAATTG
1 -TAAAAATTA
*
25874347 TAAAAATCA
1 TAAAAATTA
*
25874356 TAAAAATCA
1 TAAAAATTA
25874365 TAAAAATTA
1 TAAAAATTA
25874374 TAAAAATTA
1 TAAAAATTA
25874383 TAAAAA
1 TAAAAA
25874389 AATTGTAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
7 1 0.01
8 5 0.07
9 45 0.61
10 22 0.30
11 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
TAAAAATTA
Found at i:25875040 original size:17 final size:17
Alignment explanation
Indices: 25875026--25875060 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25875016 TTTATAATCT
25875026 TCCTATTTTTTTAATAA
1 TCCTATTTTTTTAATAA
*
25875043 TCCTATTTTTTAAATAA
1 TCCTATTTTTTTAATAA
25875060 T
1 T
25875061 TTTGTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (17 bp):
TCCTATTTTTTTAATAA
Found at i:25875685 original size:20 final size:20
Alignment explanation
Indices: 25875660--25875699 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25875650 CGCAAAATGA
*
25875660 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25875680 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25875700 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25875715 original size:14 final size:15
Alignment explanation
Indices: 25875639--25875715 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25875629 GATTGGCAGT
* *
25875639 AAAATG-TTTTCCGC
1 AAAATGATTTTCTGG
25875653 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
25875667 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
25875687 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
25875702 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
25875716 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:25877034 original size:3 final size:3
Alignment explanation
Indices: 25877021--25877091 Score: 56
Period size: 3 Copynumber: 23.0 Consensus size: 3
25877011 TTACTATTTA
*
25877021 ATT ATTT ATT ATT ATT A-T ATT A-T ACTT GTTT ATT ATT ATT ATT ATTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT ATT A-TT
* * *
25877068 ATT ATT AAT ATT GTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
25877092 TTCGTGTACA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
2 4 0.07
3 41 0.76
4 9 0.17
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:25877059 original size:16 final size:16
Alignment explanation
Indices: 25877015--25877079 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
25877005 ACTATTTTAC
25877015 TATTTAATTATTTATTAT
1 TATTT-ATTA-TTATTAT
25877033 TA-TTA-TATTA-TACT
1 TATTTATTATTATTA-T
*
25877047 TGTTTATTATTATTAT
1 TATTTATTATTATTAT
*
25877063 TATTTATTATTAATAT
1 TATTTATTATTATTAT
25877079 T
1 T
25877080 GTAATTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.05
14 5 0.12
15 5 0.12
16 22 0.55
17 4 0.10
18 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTATTATTATTAT
Found at i:25877087 original size:31 final size:30
Alignment explanation
Indices: 25877007--25877091 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 30
25876997 ATTTTTGAAC
*
25877007 TATT-TTACTATT-TAATTATTTATTATTAT
1 TATTATTAATATTGTAATTA-TTATTATTAT
*
25877036 TA-TATT-ATACTTGTTTATTATTATTATTATT
1 TATTATTAATA-TTG-TAATTATTATTATTA-T
25877067 TATTATTAATATTGTAATTATTATT
1 TATTATTAATATTGTAATTATTATT
25877092 TTCGTGTACA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
28 3 0.07
29 6 0.13
30 9 0.20
31 18 0.39
32 7 0.15
33 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (30 bp):
TATTATTAATATTGTAATTATTATTATTAT
Found at i:25881995 original size:7 final size:7
Alignment explanation
Indices: 25881983--25882034 Score: 72
Period size: 7 Copynumber: 7.4 Consensus size: 7
25881973 AAATGATGAG
25881983 ATGAAAA
1 ATGAAAA
25881990 ATGAAAA
1 ATGAAAA
25881997 AGTG-AAA
1 A-TGAAAA
25882004 ATGAAAA
1 ATGAAAA
25882011 ATGAAAA
1 ATGAAAA
25882018 ATGAAAA
1 ATGAAAA
25882025 A-GTAAAA
1 ATG-AAAA
25882032 ATG
1 ATG
25882035 GAGAGGCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 3 0.07
7 35 0.85
8 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:25883550 original size:43 final size:43
Alignment explanation
Indices: 25883369--25883693 Score: 131
Period size: 44 Copynumber: 7.4 Consensus size: 43
25883359 CCTGAAGTTA
* * *
25883369 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGTAATTCTACCTCCCTGGGCAG
* * * **
25883412 CAGTGGAATAGATTGAAG--ATTACAGATCTTACCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGCCAGTA-A-TTC-TACCTCCCTGGGCAG
* * ** *** * * *
25883456 TAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGCCAGT-AATTCTACCTCCCTG-GG-CAG
* *
25883501 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGTAATTCTACCTCCCTGGGCAG
* * * **
25883544 CAGTGGAATAGATTGAAG--ATTACAGATCTTACCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGCCAGTA-A-TTC-TACCTCCCTGGGCAG
* * * *** ** * *
25883588 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGCCAG-TAATTCTACCTCCCTG-GG-CAG
* * ** *
25883633 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCCAGACAG
1 CAGTGGAGTAGATTGAAGCCAGTAATTCTACCTCCCTGGGCAG
*
25883676 CAGTGGAATAGATTGAAG
1 CAGTGGAGTAGATTGAAG
25883694 ATTTCAGATA
Statistics
Matches: 194, Mismatches: 70, Indels: 36
0.65 0.23 0.12
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 55 0.28
44 90 0.46
45 34 0.18
46 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGCCAGTAATTCTACCTCCCTGGGCAG
Found at i:25883580 original size:44 final size:44
Alignment explanation
Indices: 25883404--25883650 Score: 144
Period size: 44 Copynumber: 5.6 Consensus size: 44
25883394 TTCTATCTCT
*
25883404 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTACCTCC
1 CTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTACCTCC
** * * ** **** *
25883448 CTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCC
1 CTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTACCTCC
* * * * *
25883492 CTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCC
1 CTG-GG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCTTACCTCC
*
25883536 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTACCTCC
1 CTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTACCTCC
** * * * ** * *
25883580 CTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
1 CTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTACCTCC
* *
25883624 CTGAGGTTA-CAGTGGAGTACATTGAAG
1 CTG-GG-CAGCAGTGGAGTAGATTGAAG
25883651 CCAGTAATTC
Statistics
Matches: 143, Mismatches: 50, Indels: 19
0.67 0.24 0.09
Matches are distributed among these distances:
41 3 0.02
42 2 0.01
43 20 0.14
44 85 0.59
45 30 0.21
46 2 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
CTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTACCTCC
Found at i:25884121 original size:44 final size:43
Alignment explanation
Indices: 25883929--25884782 Score: 141
Period size: 44 Copynumber: 19.4 Consensus size: 43
25883919 TAATTCTACT
* * * * *
25883929 TCCCTAAGCAGTAGTGGAATAGATTGAGGATTTTAGATATTATC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TTAAGATCTTACC
* * ** * *
25883973 TCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGAT--TAAGATCTTACC
** ** * * * *
25884017 TCCCTGTGGTTGTAGTGGAGTACATTGAAGCCAGTAA-TTC-TACT
1 TCCCT-AAGCAGTAGTGGAGTAGATTGAAG--ATTAAGATCTTACC
** *
25884061 TCCCTGGGCAGTAGTGGAATAGATTGAAGATTGAAGATCTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGATT-AAGATCTTACC
* * ** *
25884105 TCCCTAAGCAGTAGTGGAGCAGA-TCAAGGATGGCAGATTTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAA-GAT-TAAGATCTTACC
* * * * *
25884149 TCCCTGAG--GTTACAGTGGAGTACATTGAAGCCAGTAA-TTC-TATC
1 TCCCTAAGCAG-T--AGTGGAGTAGATTGAAG--ATTAAGATCTTACC
* ** * *
25884193 TTCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGATTA-AGATCTTACC
* * *** *
25884237 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-TAAGATCTTACC
* * * * *
25884281 TCCCTGAG--GTTACAGTGGAGTACATTGAAGCCAGTAA-TTC-TATC
1 TCCCTAAGCAG-T--AGTGGAGTAGATTGAAG--ATTAAGATCTTACC
* ** * * *
25884325 TCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TTAAGATCTTACC
* ** * * * *** *
25884369 TCCCCAAGCAGTAGCAGAGCAGTTTAAAGATGGCGGATTTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-TAAGATCTTACC
** * * * *
25884413 TCCCT--GTGGTTACAGTGGAGTATATTGAAGCCAATAA-TTC-TACT
1 TCCCTAAGCAG-T--AGTGGAGTAGATTGAAG--ATTAAGATCTTACC
** * * ** **
25884457 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TTAAGATCTTACC
* * * ** *** *
25884501 TCCCTAAACAGTAGTGGAGCAGGTCAAAGATGGCGGATTTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-TAAGATCTTACC
* ** * * * *
25884545 TCCCTATGGTTGCAGTGGAGTACATTGAAGCCATTAA-TTC-TACT
1 TCCCTA-AGCAGTAGTGGAGTAGATTGAAG--ATTAAGATCTTACC
** ** *
25884589 TCCCTGGGCAGCGGTGGAATAGATTGAAGATTACAGATCTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGATTA-AGATCTTACC
* * * *
25884633 TCCCTAAGCAGTAGTGGAGCAGA-TCAAGGATGACAGATTTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAA-GATTA-AGATCTTACC
* * * * * *
25884677 TCCCTGAGGTTA-TAGTGGAGTACATTGAAGCCAGTAA-TTC-TATC
1 TCCCT-AAG-CAGTAGTGGAGTAGATTGAAG--ATTAAGATCTTACC
** ** *
25884721 TCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTACC
1 TCCCTAAGCAGTAGTGGAGTAGATTGAAGATTA-AGATCTTACC
* *
25884765 TCCTTAAGTAGTAGTGGA
1 TCCCTAAGCAGTAGTGGA
25884783 ACAGATCAAT
Statistics
Matches: 549, Mismatches: 201, Indels: 120
0.63 0.23 0.14
Matches are distributed among these distances:
41 14 0.03
42 13 0.02
43 123 0.22
44 292 0.53
45 87 0.16
46 12 0.02
47 8 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TCCCTAAGCAGTAGTGGAGTAGATTGAAGATTAAGATCTTACC
Found at i:25885662 original size:43 final size:43
Alignment explanation
Indices: 25885613--25885794 Score: 106
Period size: 44 Copynumber: 4.2 Consensus size: 43
25885603 CCTGTGGTTA
25885613 CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGGCAG
1 CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGGCAG
* * * * *
25885656 CAGTGGAATAGATTAAAG--ATTACAGATCTTATCT-TCCTAGGCAG
1 CAGTGGAGTACATTAAAGCCAGTA-A-TTC-TATCTCT-CTGGGCAG
* * * * * * * *
25885700 TAGTGGAGTAGATCGAAGATGGCAG--ATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTACAT-TAA-A-GCCAGTAATTCTATCTCTCTG-GG-CAG
* *
25885745 CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGTCGG
1 CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGGCAG
25885788 CAGTGGA
1 CAGTGGA
25885795 ATCGATTGAA
Statistics
Matches: 99, Mismatches: 25, Indels: 30
0.64 0.16 0.19
Matches are distributed among these distances:
41 3 0.03
42 5 0.05
43 28 0.28
44 42 0.42
45 16 0.16
46 3 0.03
47 1 0.01
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGGCAG
Found at i:25885823 original size:132 final size:132
Alignment explanation
Indices: 25883349--25885806 Score: 3379
Period size: 132 Copynumber: 18.6 Consensus size: 132
25883339 TTGATGGCAT
* *
25883349 ATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGCAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * *
25883414 GTGGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25883479 GG
131 GG
25883481 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * *
25883546 GTGGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25883611 GG
131 GG
** *
25883613 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCCAGACAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * * * *
25883678 GTGGAATAGATTGAAGATTTCAGATATTGTTTCCCTAAGCAGTAGCGGAGCAGGTCAAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25883743 GG
131 GG
* * *
25883745 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTA-CTTCCTTGGGCAGC
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
** * * * *
25883809 AGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAACAGTAGTAGAGCAGGTCAAAGATGG
65 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
25883874 CGG
130 CGG
* * * ** *
25883877 ATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTA-CTTCCCTAAGCAGT
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
* * * *
25883941 AGTGGAATAGATTGAGGATTTTAGATATTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGG
65 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
* *
25884006 TGA
130 CGG
* ** *
25884009 ATTTTACCTCCCTGTGGTTGTAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGT
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
** * *
25884073 AGTGGAATAGATTGAAGATTGAAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGG
65 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
*
25884138 CAG
130 CGG
*
25884141 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCCTGGGCAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * *
25884206 GTGGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25884271 GG
131 GG
* *
25884273 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* ** * *
25884338 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAGCAGTAGCAGAGCAGTTTAAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25884403 GG
131 GG
* * *
25884405 ATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCCAATAATTCTA-CTTCCCTGGGCAGC
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
** * * *
25884469 AGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAACAGTAGTGGAGCAGGTCAAAGATGG
65 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
25884534 CGG
130 CGG
* *
25884537 ATTTTACCTCCCT-ATGGTTGCAGTGGAGTACATTGAAGCCATTAATTCTA-CTTCCCTGGGCAG
1 ATTTTACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAG
* * * *
25884600 CGGTGGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
64 CAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* *
25884665 ACAG
129 GCGG
* *
25884669 ATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * * * * * *
25884734 GTGGAATAGATTGAAGATTACAGATCTTACCTCCTTAAGTAGTAGTGGAACAGATCAATGATGGT
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25884799 GG
131 GG
* ** *
25884801 ATTTTACCTCCCAGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCATTGGGAAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * * *
25884866 GTGGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAATGGAGCAGATCGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25884931 GG
131 GG
* *
25884933 ATTTTACTTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * * * * *
25884998 GTGGAATAGATTGAAGGTTTCAGATCTTGTCTCCCCAAGCAGTAGCGGAACAGGTCAAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
25885063 GG
131 GG
* * *
25885065 ATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAATAATTCTA-CTTCCCTGGGCAGC
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
* ** * * * * **
25885129 AGTGGGATAGATTGAAGATTTTGGATCTTGTCTCCTTAAACAGTAGTGGAGCAGGTCAAAGATAA
65 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
25885194 CGG
130 CGG
* * * * *
25885197 ATTTTACCTCCCTGTGGTTACAGTGGAGTACTTTGAAGCCAATAATTCTA-CTTCCCTGAGCAGT
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
* * * * *
25885261 AGTGGAATAGATT-AAGGATTTTAGATCTTGTCTCCCCAAGCAGTAGTGGAACAGATCAAAAATG
65 AGTGGAATAGATTGAA-GATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* *
25885325 GTGA
129 GCGG
* * * *
25885329 ATTTTACCTCCCTGTGGTTGCAGTGGAGTACATTGAATCCAGTAATTCTA-CTTCCATGGGCAGC
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGC
* * *
25885393 AGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAATAGTGGAGCAGATCAAAGATGG
65 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
* *
25885458 TGA
130 CGG
* * *
25885461 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAACA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * *
25885526 GTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGT
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
*
25885591 GA
131 GG
* * *
25885593 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGGCAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
* * * * * *
25885658 GTGGAATAGATTAAAGATTACAGATCTTATCTTCCTAGGCAGTAGTGGAGTAGATCGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
*
25885723 AG
131 GG
* * * *
25885725 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCTCTGGTCGGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
*
25885790 GTGGAATCGATTGAAGA
66 GTGGAATAGATTGAAGA
25885807 AAGCAGATCT
Statistics
Matches: 2097, Mismatches: 219, Indels: 20
0.90 0.09 0.01
Matches are distributed among these distances:
131 5 0.00
132 2086 0.99
133 6 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC
GG
Found at i:25885964 original size:44 final size:44
Alignment explanation
Indices: 25885901--25886020 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 44
25885891 GAAGATACAA
* *
25885901 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAAATAACCG
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-ATAAAATAACAG
* * *
25885945 GTCTTATCTCCTTGAAGTTGCAATGGAG-TGAATTAAAATCACAG
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAA-TAAAATAACAG
* *
25885989 ATCTTATCT-CTCTGAAGTTGCAGTAGAGCAGA
1 GTCTTATCTCCT-TGAAGTTGCAGTGGAGCAGA
25886021 TCGCATTAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 1 0.02
43 4 0.06
44 56 0.89
45 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAATAAAATAACAG
Found at i:25887425 original size:3 final size:3
Alignment explanation
Indices: 25887412--25887491 Score: 74
Period size: 3 Copynumber: 26.0 Consensus size: 3
25887402 TTACTATTTA
*
25887412 ATT ATTT ATT ATT ATT A-T ATT A-T ACTT GTTT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT ATT ATT
* * *
25887458 ATT ATT ATTT ATT ATT AAT ATT GTA ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
25887492 TTCGTGTACA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.06
3 50 0.79
4 9 0.14
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:25887468 original size:25 final size:25
Alignment explanation
Indices: 25887412--25887492 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
25887402 TTACTATTTA
25887412 ATTATTTATTATTATTA-TATTA-T
1 ATTATTTATTATTATTATTATTATT
*
25887435 ACTTGTTTATTATTATTATTATTATT
1 A-TTATTTATTATTATTATTATTATT
* * *
25887461 ATTATTTATTATTAATATTGTAATT
1 ATTATTTATTATTATTATTATTATT
25887486 ATTATTT
1 ATTATTT
25887493 TCGTGTACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 1 0.02
24 15 0.30
25 32 0.64
26 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTATTTATTATTATTATTATTATT
Found at i:25890556 original size:6 final size:6
Alignment explanation
Indices: 25890545--25890577 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
25890535 TGTCAAGGAT
*
25890545 AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGG
25890578 AAAATTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:25891242 original size:28 final size:25
Alignment explanation
Indices: 25891188--25891258 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 25
25891178 AAATCATAGT
25891188 TTACTTATGATAATTTA--TTTAAAA
1 TTACTTA-GATAATTTATTTTTAAAA
25891212 TTACTTAGATAATTTATTGTTTAGATAA
1 TTACTTAGATAATTTATT-TTTA-A-AA
*
25891240 TTATTTAGATAAATTTATT
1 TTACTTAGAT-AATTTATT
25891259 AAGAATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 9 0.22
24 7 0.17
26 4 0.10
27 1 0.03
28 11 0.28
29 8 0.20
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (25 bp):
TTACTTAGATAATTTATTTTTAAAA
Found at i:25891248 original size:12 final size:13
Alignment explanation
Indices: 25891196--25891258 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 13
25891186 GTTTACTTAT
25891196 GATAATTTATTTA
1 GATAATTTATTTA
*
25891209 -A-AA-TTACTTA
1 GATAATTTATTTA
25891219 GATAATTTATTGTTTA
1 GATAATTTA---TTTA
25891235 GATAA-TTATTTA
1 GATAATTTATTTA
25891247 GATAAATTTATT
1 GAT-AATTTATT
25891259 AAGAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 10 0.25
13 5 0.12
14 5 0.12
15 3 0.08
16 8 0.20
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (13 bp):
GATAATTTATTTA
Found at i:25891864 original size:18 final size:18
Alignment explanation
Indices: 25891820--25891865 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
25891810 TGTAATTTGA
* *
25891820 AAATAATATATTTATTAC
1 AAATTATATTTTTATTAC
*
25891838 AAA-TATATTTTTATTTC
1 AAATTATATTTTTATTAC
25891855 AAATTATATTT
1 AAATTATATTT
25891866 GCTTTGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATTATATTTTTATTAC
Found at i:25901224 original size:106 final size:106
Alignment explanation
Indices: 25901052--25901260 Score: 325
Period size: 106 Copynumber: 2.0 Consensus size: 106
25901042 CATAGCATTG
* * *
25901052 AAGAAGACCATATCGTGTAAGATAGTAACTGATGGGTTATGACATCATATGTGAAGAAGTCTATA
1 AAGAAGACCATATCGTGTAAGATAGTAACTGATAGGTTATGACATCATATGTGAAGAAGACCATA
**
25901117 TCATGTAAGACTATAACTGGTGGGTTATGGCATCATATATA
66 TCATGTAAGACTATAACTGGTGGGTTATGAAATCATATATA
25901158 AAGAAGACCATATCGTGTAAGACT-GTAACT-AGTAGGTTATGACATCATATG-GAAAGAAGACC
1 AAGAAGACCATATCGTGTAAGA-TAGTAACTGA-TAGGTTATGACATCATATGTG-AAGAAGACC
25901220 ATATCATGTAAGACTATAACTGGTGGGTTATGAAATCATAT
63 ATATCATGTAAGACTATAACTGGTGGGTTATGAAATCATAT
25901261 GGGGAAGTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
105 2 0.02
106 92 0.97
107 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (106 bp):
AAGAAGACCATATCGTGTAAGATAGTAACTGATAGGTTATGACATCATATGTGAAGAAGACCATA
TCATGTAAGACTATAACTGGTGGGTTATGAAATCATATATA
Found at i:25901262 original size:53 final size:53
Alignment explanation
Indices: 25901052--25901262 Score: 282
Period size: 53 Copynumber: 4.0 Consensus size: 53
25901042 CATAGCATTG
* *
25901052 AAGAAGACCATATCGTGTAAGA-TAGTAACTGATGGGTTATGACATCATATGTG-
1 AAGAAGACCATATCATGTAAGACTA-TAACTGGTGGGTTATGACATCATATG-GA
* * * **
25901105 AAGAAGTCTATATCATGTAAGACTATAACTGGTGGGTTATGGCATCATATATA
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
* * * *
25901158 AAGAAGACCATATCGTGTAAGACTGTAACTAGTAGGTTATGACATCATATGGA
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
*
25901211 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGAAATCATATGG
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGG
25901263 GGAAGTTTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 133 0.99
54 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (53 bp):
AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
Found at i:25902564 original size:20 final size:20
Alignment explanation
Indices: 25902539--25902578 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25902529 AACCTAATAA
*
25902539 AAGGTATTGATACTTTTTGT
1 AAGGTACTGATACTTTTTGT
*
25902559 AAGGTACTGATATTTTTTGT
1 AAGGTACTGATACTTTTTGT
25902579 GAAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (20 bp):
AAGGTACTGATACTTTTTGT
Found at i:25904684 original size:3 final size:3
Alignment explanation
Indices: 25904676--25904728 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
25904666 TGGCCCAAAC
* * *
25904676 TAT TAT TAT TAT TAT CAT TAC TAC TAT TAT TAAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
25904722 TAT TAT T
1 TAT TAT T
25904729 TTTTTTACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:25905411 original size:99 final size:97
Alignment explanation
Indices: 25905222--25905403 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 97
25905212 AAAAAAAGAG
* * *
25905222 AGTTTTGATTTTTAAAAATAAAAATATGTTTTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTT
1 AGTTTAGACTTTTAAAAATAAAAATA--TTATTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTT
*
25905287 AAAACAATGTAGTGATTTTTTAAATAAAAGGGAA
64 AAAACAAAGTAGTGATTTTTTAAATAAAAGGGAA
*
25905321 AGTTTAGACTTTTAAAAATAAAAATA-TATTTTTAGTCATTTTAAAGGAAAGTTT-AAATGTTTA
1 AGTTTAGACTTTTAAAAATAAAAATATTATTTTTAGTCATTCTAAAGGAAAGTTTAAAAT-TTTA
**
25905384 AAACAAAGTTTTGATTTTTT
65 AAACAAAGTAGTGATTTTTT
25905404 TTAAAATATT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 4 0.05
96 47 0.63
99 24 0.32
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (97 bp):
AGTTTAGACTTTTAAAAATAAAAATATTATTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTTAA
AACAAAGTAGTGATTTTTTAAATAAAAGGGAA
Found at i:25905577 original size:158 final size:154
Alignment explanation
Indices: 25905312--25905617 Score: 454
Period size: 158 Copynumber: 2.0 Consensus size: 154
25905302 TTTTTTAAAT
*
25905312 AAAAGGGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAGGAAAGTTTAA
1 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAGGAAAGTTTAA
* *
25905377 ATGTTTAAAACAAAGTTTTGATTTTTTTTAAAATATTTCGAAATAAAAGCTTTAA-TCTTTAAGA
66 ATGTTTAAAACAAAATTTTGATTTTTTCT-AAATATTTCGAAATAAAA-CTTTAATTCTTTAAGA
25905441 AAAGTAGTGAATTTTTTAAAAGAAGAA
129 AAAGTAGTG-ATTTTTTAAAAGAAGAA
* *
25905468 AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGTAAAGTT
1 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAATA--TATTTTTAGTCATTTTAAAGG-AAAGTT
* * * *
25905533 TAAATTTTTAAAACAAAATTTTGATCTTTTTCT-ACTATTTCGAAATAAAACTTTAATTTTTTTA
63 TAAATGTTTAAAACAAAATTTTGAT-TTTTTCTAAATATTTCGAAATAAAACTTTAATTCTTTAA
25905597 GAAAAGTAGTGATTTTTTAAA
127 GAAAAGTAGTGATTTTTTAAA
25905618 GGAAATTTTG
Statistics
Matches: 136, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
156 33 0.24
157 16 0.12
158 52 0.38
159 29 0.21
160 6 0.04
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (154 bp):
AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAGGAAAGTTTAA
ATGTTTAAAACAAAATTTTGATTTTTTCTAAATATTTCGAAATAAAACTTTAATTCTTTAAGAAA
AGTAGTGATTTTTTAAAAGAAGAA
Found at i:25907639 original size:23 final size:24
Alignment explanation
Indices: 25907601--25907646 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
25907591 GTTTGAGAGC
*
25907601 TAGATTTTTTAGTATTTGTGCATAT
1 TAGATTTTTTA-TATTCGTGCATAT
25907626 TAGATTTTTT-TATTCGTGCAT
1 TAGATTTTTTATATTCGTGCAT
25907647 TAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.57
Consensus pattern (24 bp):
TAGATTTTTTATATTCGTGCATAT
Found at i:25908848 original size:34 final size:35
Alignment explanation
Indices: 25908805--25908889 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 35
25908795 ATTTTATTTG
*
25908805 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
* *
25908838 TTTATATTATAGAATTTATGATAATTAAATTATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
* *
25908873 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
25908890 ATAAATCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 4 0.09
34 34 0.79
35 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:25910205 original size:6 final size:6
Alignment explanation
Indices: 25910188--25910238 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
25910178 ATGTGAGGTA
* * * * *
25910188 AGTATT AATATT AGTATT AGTAAT AGTATT ATTATT ATTATT ATTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
25910236 AGT
1 AGT
25910239 GGGAATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:25910205 original size:12 final size:12
Alignment explanation
Indices: 25910188--25910238 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
25910178 ATGTGAGGTA
*
25910188 AGTATTAATATT
1 AGTATTATTATT
* *
25910200 AGTATTAGTAAT
1 AGTATTATTATT
25910212 AGTATTATTATT
1 AGTATTATTATT
*
25910224 ATTATTATTATT
1 AGTATTATTATT
25910236 AGT
1 AGT
25910239 GGGAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (12 bp):
AGTATTATTATT
Found at i:25910566 original size:23 final size:23
Alignment explanation
Indices: 25910547--25910593 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25910537 ATTATCAAAC
25910547 CATCAAAAAAATTAACATCATAA
1 CATCAAAAAAATTAACATCATAA
* * *
25910570 CATTAAATAAATTAATCATAATAA
1 CATCAAAAAAATTAA-CATCATAA
25910594 AAACCAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.28
Consensus pattern (23 bp):
CATCAAAAAAATTAACATCATAA
Found at i:25913985 original size:46 final size:46
Alignment explanation
Indices: 25913834--25913996 Score: 134
Period size: 46 Copynumber: 3.5 Consensus size: 46
25913824 TCTGTATAGT
* **
25913834 TTGCAGACTCAAGAATATAGGAATAGGTTGTGAGCTCTTGCATATG
1 TTGCAGACTCGAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
* * * * * * * *
25913880 TTGC-GAACTCGAGAACACAAGAATAGGTTTCGAGCTCCTACATCTA
1 TTGCAG-ACTCGAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
** * *
25913926 TTGTGGAC-CTGAGAATTTAGGTATAGGTTCCGAGCTCTTGCATATG
1 TTGCAGACTC-GAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
*
25913972 TTGCAGACTTGAGAATACT-GGAATA
1 TTGCAGACTCGAGAATA-TAGGAATA
25913997 TTAAGCCCTA
Statistics
Matches: 86, Mismatches: 26, Indels: 10
0.70 0.21 0.08
Matches are distributed among these distances:
45 2 0.02
46 82 0.95
47 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGCAGACTCGAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
Found at i:25914843 original size:27 final size:27
Alignment explanation
Indices: 25914789--25914844 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
25914779 ATCATCATAT
* *
25914789 ATATACACACATAACATAGCATTTATC
1 ATATACACACATAACATAGCACTCATC
*
25914816 ATATATACACATAACATAGCACTCATC
1 ATATACACACATAACATAGCACTCATC
25914843 AT
1 AT
25914845 TAACATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.29
Consensus pattern (27 bp):
ATATACACACATAACATAGCACTCATC
Found at i:25916028 original size:13 final size:13
Alignment explanation
Indices: 25915998--25916022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25915988 TATTTGGTTA
25915998 TTCAAATGACCAC
1 TTCAAATGACCAC
25916011 TTCAAATGACCA
1 TTCAAATGACCA
25916023 TATCAACTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCAAATGACCAC
Found at i:25917321 original size:25 final size:25
Alignment explanation
Indices: 25917292--25917356 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
25917282 TCTTGTACAT
*
25917292 GTATGCTCATATGAGCTATGAACCG
1 GTATGCTCATATGAGCTATAAACCG
* **
25917317 GTATGCTC-TCACGAGCTATAAATTG
1 GTATGCTCAT-ATGAGCTATAAACCG
*
25917342 GTAAGCTCATATGAG
1 GTATGCTCATATGAG
25917357 TTGAGAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTCATATGAGCTATAAACCG
Found at i:25917390 original size:24 final size:24
Alignment explanation
Indices: 25917362--25917412 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25917352 ATGAGTTGAG
*
25917362 AATCGGTAAACTTTAACGAGCTGA
1 AATCGGTAAACTCTAACGAGCTGA
* *
25917386 AATCGGTAAGCTCTCACGAGCTGA
1 AATCGGTAAACTCTAACGAGCTGA
25917410 AAT
1 AAT
25917413 AAAAAATCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (24 bp):
AATCGGTAAACTCTAACGAGCTGA
Found at i:25919403 original size:44 final size:44
Alignment explanation
Indices: 25919344--25919432 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
25919334 ATTCCCATAC
*
25919344 TTAAAGATAAACTCAAATGTATATAACTCAATTTACTTTTCAAA
1 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
* *
25919388 TTAAATATAAGCTCAAATGCATATAACTCAATTTACTTTTCAAA
1 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
25919432 T
1 T
25919433 GAATAACTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (44 bp):
TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
Found at i:25923430 original size:14 final size:14
Alignment explanation
Indices: 25923411--25923440 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25923401 AGTGAGAGAG
*
25923411 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
25923425 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
25923439 GA
1 GA
25923441 ATGCGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:25924015 original size:20 final size:22
Alignment explanation
Indices: 25923990--25924037 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
25923980 CGAATCTGTA
25923990 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
25924010 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
25924032 AAAAAT
1 AAAAAT
25924038 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:25924090 original size:18 final size:20
Alignment explanation
Indices: 25924061--25924100 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
25924051 TTTTTAATAC
25924061 AATTTAATTATTTTAT-AAA
1 AATTTAATTATTTTATGAAA
25924080 AATTT-ATTATTTTATGAAA
1 AATTTAATTATTTTATGAAA
25924099 AA
1 AA
25924101 AATTCTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTAATTATTTTATGAAA
Found at i:25929363 original size:62 final size:62
Alignment explanation
Indices: 25929266--25929389 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
25929256 AGTATAAGAG
25929266 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
1 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
25929328 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
1 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
25929390 TTTCGATATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (62 bp):
AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
Found at i:25933765 original size:5 final size:5
Alignment explanation
Indices: 25933755--25933802 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
25933745 AAAAAAAAGG
25933755 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
25933803 GTTCTAATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:25934780 original size:14 final size:14
Alignment explanation
Indices: 25934761--25934790 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25934751 AGTGAGAGAG
*
25934761 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
25934775 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
25934789 GA
1 GA
25934791 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:25935191 original size:20 final size:22
Alignment explanation
Indices: 25935166--25935215 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
25935156 CGAATCTGTC
25935166 AAAAATAA-T-AAAAATTCACT
1 AAAAATAATTGAAAAATTCACT
* *
25935186 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGAAAAATTCACT
25935208 AAAAATAA
1 AAAAATAA
25935216 CATGTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
22 17 0.65
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAATAATTGAAAAATTCACT
Found at i:25936791 original size:12 final size:12
Alignment explanation
Indices: 25936774--25936799 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25936764 TTGGAGCAAA
25936774 TGCCCAATTATG
1 TGCCCAATTATG
25936786 TGCCCAATTATG
1 TGCCCAATTATG
25936798 TG
1 TG
25936800 TAATCCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (12 bp):
TGCCCAATTATG
Found at i:25945613 original size:40 final size:40
Alignment explanation
Indices: 25945576--25946605 Score: 1059
Period size: 40 Copynumber: 25.8 Consensus size: 40
25945566 CGAGTACCAG
* * * * * *
25945576 AGTACTAACAAGGGCACATATGTGCTTTCAGGGGTACCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* *
25945616 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * *
25945656 AGTACAAATAGGGGCACGTATGTTCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * * * * *
25945696 AGTACAAATAAGGGCACATATGTGAATTTAGGGGTATCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
*
25945736 AGTACAAACAGGGGGACGTGTGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* *
25945776 AGTACAAACAGGGGCACTTGTGTGCATTCAGGGGTACCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
*
25945816 AGTATAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
25945856 AGTACAAACAGGGGAACTTGTGTTCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
25945896 AGTACAAACAAGGGCACATGTGTGCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
25945936 AGTACAAATAGGGGCACGTCTGTGCATTCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
25945976 AGTAAAAACAGGGGCAAGTGTGTGCATTCAGGGGTA-CTA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * *
25946015 AGTACAAACCA-GGGCACGTAG-GTGAATTTAGAGGTATCGA
1 AGTACAAA-CAGGGGCACGT-GTGTGCATTCAGGGGTACCGA
* * * * *
25946055 AGTACAAATAGGGGGACGTGTGTGCATTTAGGGGTATCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* *
25946095 AGTACAAACA-GGGCGATGTGTGTGCATTCAGGGGTATCGA
1 AGTACAAACAGGGGC-ACGTGTGTGCATTCAGGGGTACCGA
* *
25946135 AGTACAAAAAGGGGCACGTGTGTGCATTCAGGGGTATCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
25946175 AGTACAAATAGGGGCACATGTGTACATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * *
25946215 AGTACAAACAGGTGCACGTCTGTGCATTTAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * * * *
25946255 AGTACAAATAAGGGCACGTCTTTGCATTTAGAGGGTA-CTA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAG-GGGTACCGA
* * * * **
25946295 AGTACGAACAAGGGCACATCTGTGCATTCAGGGGTATTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * ** * * *
25946335 AGTACAAAAAAGGGCATATGTGTGCATTTAGGGGTATCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* *
25946375 AGTACAAATAGGGGCACGTGTGTGCATTCACGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
** * * *
25946415 AGTAC-AACTATTGGCATGTGTGTGCATTCGGGGGTATCGA
1 AGTACAAAC-AGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * ** *
25946455 AGCAC-AACAGGAGCATGCATGTGCATTCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
25946494 AGTACAAACAGGGGCATGTATGTGGATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * **
25946534 AGTACAAATAAGGGCATGCATGTGCATTCCA-GGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATT-CAGGGGTACCGA
* * * *
25946574 AGTACAGACAAGGGCATGTATGTGCATTCAGG
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGG
25946606 TAATAATTAC
Statistics
Matches: 840, Mismatches: 137, Indels: 26
0.84 0.14 0.03
Matches are distributed among these distances:
39 69 0.08
40 760 0.90
41 11 0.01
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
Found at i:25945648 original size:20 final size:20
Alignment explanation
Indices: 25945625--25945689 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
25945615 AAGTACAAAC
*
25945625 AGGGGCACGTATGTGCATTT
1 AGGGGCACGTATGTACATTT
* * **
25945645 AGGGGTACCG-AAGTACAAAT
1 AGGGGCA-CGTATGTACATTT
* *
25945665 AGGGGCACGTATGTTCATTC
1 AGGGGCACGTATGTACATTT
25945685 AGGGG
1 AGGGG
25945690 TACTGAAGTA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.23
Consensus pattern (20 bp):
AGGGGCACGTATGTACATTT
Found at i:25945787 original size:20 final size:20
Alignment explanation
Indices: 25945764--25945905 Score: 56
Period size: 20 Copynumber: 7.1 Consensus size: 20
25945754 TGTGTGCATT
25945764 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
25945784 CAGGGGCACTTG-TGTGCATT
1 CAGGGGTAC-CGAAGTACAAA
* *
25945804 CAGGGGTACCAAAGTATAAA
1 CAGGGGTACCGAAGTACAAA
* ** * **
25945824 CAGGGGCA-CGTGTGTGCATT
1 CAGGGGTACCG-AAGTACAAA
25945844 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
25945864 CAGGGGAACTTG-TGTTCATT
1 CAGGGGTAC-CGAAGTACAAA
25945884 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
25945904 CA
1 CA
25945906 AGGGCACATG
Statistics
Matches: 76, Mismatches: 40, Indels: 12
0.59 0.31 0.09
Matches are distributed among these distances:
19 2 0.03
20 70 0.92
21 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:25949611 original size:13 final size:13
Alignment explanation
Indices: 25949593--25949618 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25949583 ATTATTGGAT
25949593 GATTTTAATTTAA
1 GATTTTAATTTAA
25949606 GATTTTAATTTAA
1 GATTTTAATTTAA
25949619 ACTTCGTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
GATTTTAATTTAA
Found at i:25961853 original size:40 final size:39
Alignment explanation
Indices: 25961791--25961898 Score: 144
Period size: 39 Copynumber: 2.7 Consensus size: 39
25961781 NNNNNNNNNN
*
25961791 GATTTAGTAACTCGTACAAATGCCTTCGGGACTTAACCCG
1 GATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCG
* ** *
25961831 GATTTAGTAACTCGCACCAATGCCTTTTGGCTTAGCCCG
1 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCG
* *
25961870 GAATTAGTATCTCGCACAAATGCCTTCGG
1 GATTTAGTAACTCGCACAAATGCCTTCGG
25961899 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 32 0.55
40 26 0.45
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCG
Found at i:25967291 original size:12 final size:12
Alignment explanation
Indices: 25967276--25967300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25967266 GATCCTTATG
25967276 AAGAAAGTGATC
1 AAGAAAGTGATC
25967288 AAGAAAGTGATC
1 AAGAAAGTGATC
25967300 A
1 A
25967301 TTCATCTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGAAAGTGATC
Found at i:25976877 original size:247 final size:247
Alignment explanation
Indices: 25976441--25976937 Score: 985
Period size: 247 Copynumber: 2.0 Consensus size: 247
25976431 TACAAATAAA
25976441 CCTAAGCTACAATAGAAACTAACTTAAATAACACTAAGAATGCAAAGAAACATAATAAAACTAGC
1 CCTAAGCTACAATAGAAACTAACTTAAATAACACTAAGAATGCAAAGAAACATAATAAAACTAGC
*
25976506 AGAAAATTAAAACCCTAAAATATGGAGAAAAAAAGATGAAACCTGAAAAATTTGAGAGGAAAACT
66 AGAAAATTAAAACCCTAAAATATGGAGAAAAAAAGATGAAACCTGAAAAATTTGAGAGAAAAACT
25976571 AAGAAGATAAGTAAAAATTGTCTAATGTCTCTAATGTATGTCCCCTCTCCCTTTCTCTGCCAAAT
131 AAGAAGATAAGTAAAAATTGTCTAATGTCTCTAATGTATGTCCCCTCTCCCTTTCTCTGCCAAAT
25976636 TATTTTTTCCTTTTTTGGCAACTATTTCACCATTTTTTCTTGATCAAAATGC
196 TATTTTTTCCTTTTTTGGCAACTATTTCACCATTTTTTCTTGATCAAAATGC
25976688 CCTAAGCTACAATAGAAACTAACTTAAATAACACTAAGAATGCAAAGAAACATAATAAAACTAGC
1 CCTAAGCTACAATAGAAACTAACTTAAATAACACTAAGAATGCAAAGAAACATAATAAAACTAGC
25976753 AGAAAATTAAAACCCTAAAATATGGAGAAAAAAAGATGAAACCTGAAAAATTTGAGAGAAAAACT
66 AGAAAATTAAAACCCTAAAATATGGAGAAAAAAAGATGAAACCTGAAAAATTTGAGAGAAAAACT
25976818 AAGAAGATAAGTAAAAATTGTCTAATGTCTCTAATGTATGTCCCCTCTCCCTTTCTCTGCCAAAT
131 AAGAAGATAAGTAAAAATTGTCTAATGTCTCTAATGTATGTCCCCTCTCCCTTTCTCTGCCAAAT
25976883 TATTTTTTCCTTTTTTGGCAACTATTTCACCATTTTTTCTTGATCAAAATGC
196 TATTTTTTCCTTTTTTGGCAACTATTTCACCATTTTTTCTTGATCAAAATGC
25976935 CCT
1 CCT
25976938 TCAACATGTT
Statistics
Matches: 249, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
247 249 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (247 bp):
CCTAAGCTACAATAGAAACTAACTTAAATAACACTAAGAATGCAAAGAAACATAATAAAACTAGC
AGAAAATTAAAACCCTAAAATATGGAGAAAAAAAGATGAAACCTGAAAAATTTGAGAGAAAAACT
AAGAAGATAAGTAAAAATTGTCTAATGTCTCTAATGTATGTCCCCTCTCCCTTTCTCTGCCAAAT
TATTTTTTCCTTTTTTGGCAACTATTTCACCATTTTTTCTTGATCAAAATGC
Found at i:25977740 original size:15 final size:15
Alignment explanation
Indices: 25977720--25977750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25977710 GTAGGATGGG
25977720 GGATTGGGTTGAGGA
1 GGATTGGGTTGAGGA
*
25977735 GGATTGGGTTGGGGA
1 GGATTGGGTTGAGGA
25977750 G
1 G
25977751 AGGAAGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.26
Consensus pattern (15 bp):
GGATTGGGTTGAGGA
Found at i:25984092 original size:18 final size:18
Alignment explanation
Indices: 25984069--25984105 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25984059 AATATTTACA
25984069 AATAATATATGGTGTAAC
1 AATAATATATGGTGTAAC
25984087 AATAATATATGGTGTAAC
1 AATAATATATGGTGTAAC
25984105 A
1 A
25984106 GTGGTTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (18 bp):
AATAATATATGGTGTAAC
Found at i:25986256 original size:20 final size:20
Alignment explanation
Indices: 25986180--25986255 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
25986170 AAGCTTATGC
25986180 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
25986200 TAAGTAAAT-GAAGTAGAAAG
1 TAAGTAAATGGAA-TGGAAAG
* *
25986220 TAAGTAAATAGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
25986240 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
25986256 TTCATCATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:25988590 original size:16 final size:16
Alignment explanation
Indices: 25988569--25988600 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25988559 TTTAAATCCC
25988569 TAATCCAAAAATCAAT
1 TAATCCAAAAATCAAT
25988585 TAATCCAAAAATCAAT
1 TAATCCAAAAATCAAT
25988601 CAGTAGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
TAATCCAAAAATCAAT
Found at i:25990425 original size:43 final size:45
Alignment explanation
Indices: 25990320--25990426 Score: 128
Period size: 43 Copynumber: 2.4 Consensus size: 45
25990310 AAGAATTGGT
25990320 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
* * * * * **
25990365 TCTTCAACCTATTCCACTGCTA-ATCAAGGAGATATGA-TTACTG
1 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
*
25990408 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
25990427 TAACCACAGG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 19 0.37
44 14 0.27
45 18 0.35
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (45 bp):
GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
Found at i:25990585 original size:132 final size:132
Alignment explanation
Indices: 25990401--25991125 Score: 1243
Period size: 132 Copynumber: 5.5 Consensus size: 132
25990391 AGGAGATATG
* * *
25990401 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCAATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
25990466 CCACTACTGCATAGGGAGATAAGATCTGAAATCTTCAGTCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
25990531 GA
131 GA
25990533 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
25990598 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
25990663 GA
131 GA
*
25990665 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
25990730 CCACTACTGCTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGTCCAGGGAAATA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
25990795 GA
131 GA
* * * *
25990797 ATTACTGGCTTCAATGTACTCCACTATAACCACAAGGACGTAAAATTCGTCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * * *
25990862 CCACTACTGGTTAGGGAGATAAGATATGAAATCTTCAATCTATTCCACTGTTGTTCAGAGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
25990927 GA
131 GA
*
25990929 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
25990994 CCACAACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
25991059 GA
131 GA
* * *
25991061 ATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATTCGTCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
25991126 TCGCTGTCAA
Statistics
Matches: 557, Mismatches: 36, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 557 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
GA
Found at i:25990645 original size:44 final size:44
Alignment explanation
Indices: 25990433--25990778 Score: 126
Period size: 44 Copynumber: 7.9 Consensus size: 44
25990423 ACTGTAACCA
* * ** *
25990433 CAGGGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTACTGCAT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTACTGC-T
* * **
25990478 -AGGGAGATAAGATCTGAAATCTTCAGTCTATTCCACTGTTG-T
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTACTGCT
* * * *
25990520 CCAGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTA-TAACCA
1 -CAGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTACT--GCT
* * * ** * *
25990565 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTACTGCT
* * ** *
25990609 TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTACTGCT
* * * *
25990653 CAGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTA-TAACCA
1 CAGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTACT--GCT
* * * ** *
25990697 CAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTACTGCT
* * *
25990741 TAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACT
25990779 GTTGTCCAGG
Statistics
Matches: 213, Mismatches: 61, Indels: 55
0.65 0.19 0.17
Matches are distributed among these distances:
42 7 0.03
43 37 0.17
44 126 0.59
45 35 0.16
46 8 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTACTGCT
Found at i:25998002 original size:22 final size:21
Alignment explanation
Indices: 25997967--25998062 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
25997957 AAAGGGTATC
* *
25997967 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
25997988 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
25998011 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
25998030 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
25998049 TGCATATCATATCT
1 TACAAATCATATCT
25998063 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:25998010 original size:23 final size:22
Alignment explanation
Indices: 25997967--25998024 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25997957 AAAGGGTATC
* *
25997967 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25997988 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
25998011 TGCATATCATATCT
1 TACAAATCATATCT
25998025 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25998027 original size:19 final size:19
Alignment explanation
Indices: 25998003--25998075 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
25997993 AATCATATCT
25998003 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
25998022 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
25998041 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25998060 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
25998076 CCTAAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25998352 original size:23 final size:24
Alignment explanation
Indices: 25998312--25998368 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
25998302 CAATAATATT
*
25998312 ATTAATAAATTAATATCAATAGAAAC
1 ATTAA-AAATTAATATCAATA-AAAA
25998338 ATTAAAAATT-A-ATCAATAAAAA
1 ATTAAAAATTAATATCAATAAAAA
*
25998360 ACTAAAAAT
1 ATTAAAAAT
25998369 GAAACCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.38
23 7 0.24
24 1 0.03
25 5 0.17
26 5 0.17
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
ATTAAAAATTAATATCAATAAAAA
Found at i:25999056 original size:13 final size:13
Alignment explanation
Indices: 25999038--25999070 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
25999028 GAGGCCTGTG
25999038 CATTATGGGTAAT
1 CATTATGGGTAAT
25999051 CATTATGGGTAAT
1 CATTATGGGTAAT
25999064 CATTATG
1 CATTATG
25999071 CAAAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (13 bp):
CATTATGGGTAAT
Found at i:26007173 original size:33 final size:33
Alignment explanation
Indices: 26007127--26007282 Score: 90
Period size: 33 Copynumber: 4.6 Consensus size: 33
26007117 CATATAAAGG
**
26007127 GGTTGCTGTGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
26007160 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGC
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T----GGT
*
26007203 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
** * *
26007230 GGTTGCTGTGTGTTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
26007263 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
26007283 ACCGCATCTG
Statistics
Matches: 95, Mismatches: 12, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
27 19 0.20
28 2 0.02
31 2 0.02
32 2 0.02
33 36 0.38
34 4 0.04
35 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 22 0.23
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:26007246 original size:27 final size:28
Alignment explanation
Indices: 26007198--26007251 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
26007188 TTAAATGTGA
26007198 AAGGCGGTTGCTAAGTGCTGATTCCCCC
1 AAGGCGGTTGCTAAGTGCTGATTCCCCC
** *
26007226 AAGG-GGTTGCTGTGTGTTGATTCCCC
1 AAGGCGGTTGCTAAGTGCTGATTCCCC
26007252 TATTCATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (28 bp):
AAGGCGGTTGCTAAGTGCTGATTCCCCC
Found at i:26007359 original size:102 final size:103
Alignment explanation
Indices: 26007123--26007388 Score: 417
Period size: 102 Copynumber: 2.6 Consensus size: 103
26007113 ATTGCATATA
* *
26007123 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
26007188 TTAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
* * *
26007226 AAGGGGTTGCTGTGTGTTGATTCCCCTATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* *
26007291 TGAAATGTG-AAGGGGGTTGCTAAGTGTTGATTCCCCC
66 TGAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
** * *
26007328 AAGGGGTTGCTGTGTGCTGATTTTCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
26007389 ATAACGGTTA
Statistics
Matches: 148, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 80 0.54
103 68 0.46
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (103 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
Found at i:26014310 original size:17 final size:17
Alignment explanation
Indices: 26014258--26014310 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
26014248 ATTTTTCCGG
*
26014258 ACTCGAATTTATTATAA
1 ACTCAAATTTATTATAA
* *
26014275 ACTCAAGCTTT-CT-TAA
1 ACTCAA-ATTTATTATAA
26014291 ACTCAAATTTATTATAA
1 ACTCAAATTTATTATAA
26014308 ACT
1 ACT
26014311 TGGGTTATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 12 0.43
18 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (17 bp):
ACTCAAATTTATTATAA
Found at i:26030905 original size:12 final size:12
Alignment explanation
Indices: 26030888--26030912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26030878 GCTTCAATAG
26030888 ATGATGATGATA
1 ATGATGATGATA
26030900 ATGATGATGATA
1 ATGATGATGATA
26030912 A
1 A
26030913 AGCCGATGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGATGATGATA
Found at i:26039317 original size:85 final size:85
Alignment explanation
Indices: 26039168--26039407 Score: 311
Period size: 85 Copynumber: 2.8 Consensus size: 85
26039158 ATCCGTTACT
* * * *
26039168 CGGTGGATTCAGCACTTAGCAAGCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
**
26039232 CCCTTTCACGGTAAAAAATA
66 CCCTTTCACAATAAAAAATA
* * * *
26039252 TGGTGGATTCAACACTTAGCAACCACCTTTATATTCAGTAATACAGGGAATCAGCACATATCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
* *
26039317 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATAAAAAATA
* * * * * *
26039337 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAATCAGCACTTAGCAAT
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
26039402 CCCTTT
66 CCCTTT
26039408 TTATTCAATG
Statistics
Matches: 133, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 24 0.18
85 109 0.82
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (85 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
CCCTTTCACAATAAAAAATA
Found at i:26039345 original size:43 final size:43
Alignment explanation
Indices: 26039206--26039366 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 43
26039196 TAAATTCAGT
** *
26039206 GATACGGGGAATCAACACATAGCAACC-CCTTTCACGGTAAAA
1 GATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAA
* * * * * * *
26039248 AATATGGTGGATTCAACACTTAGCAACCACCTTT-ATATTCAGTA
1 GATACGG-GGAATCAACACATAGCAACCACCTTTCACAATCA-AA
* * *
26039292 -ATACAGGGAATCAGCACATATCAACC-CCTTTCACAATCAAA
1 GATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAA
* *
26039333 GATACGGTGGAATCAGCACTTAGCAACCACCTTT
1 GATACGG-GGAATCAACACATAGCAACCACCTTT
26039367 AAAGTCAATA
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
41 6 0.07
42 31 0.34
43 43 0.47
44 11 0.12
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
GATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAA
Found at i:26039394 original size:42 final size:41
Alignment explanation
Indices: 26039176--26039400 Score: 152
Period size: 42 Copynumber: 5.3 Consensus size: 41
26039166 CTCGGTGGAT
* * * *
26039176 TCAGCACTTAGCAAGCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAA-TCAATAATACAGGGAA
* * ** * * ** *
26039217 TCAACACATAGCAACC-CCTTTCACGGTAAAAAATATGGTGGAT
1 TCAGCACTTAGCAACCACCTTT-A-AATCAATAATACAG-GGAA
* * *
26039260 TCAACACTTAGCAACCACCTTTATATTCAGTAATACAGGGAA
1 TCAGCACTTAGCAACCACCTTTA-AATCAATAATACAGGGAA
* * *
26039302 TCAGCACATATCAACC-CCTTTCACAATCAA-AGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-A-AATCAATA-ATACAG-GGAA
*
26039345 TCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAA-TCAATAATACAGGGAA
26039387 TCAGCACTTAGCAA
1 TCAGCACTTAGCAA
26039401 TCCCTTTTTA
Statistics
Matches: 141, Mismatches: 32, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 21 0.15
42 54 0.38
43 53 0.38
44 11 0.08
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
TCAGCACTTAGCAACCACCTTTAAATCAATAATACAGGGAA
Found at i:26046907 original size:54 final size:54
Alignment explanation
Indices: 26046837--26046946 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
26046827 CTAACCTAAG
*
26046837 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
1 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
*
26046891 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
1 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
26046945 TA
1 TA
26046947 ATCACAATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (54 bp):
TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
Found at i:26052526 original size:27 final size:27
Alignment explanation
Indices: 26052480--26052632 Score: 155
Period size: 27 Copynumber: 5.7 Consensus size: 27
26052470 ACATGCTAGA
*** *
26052480 AAAAGGAAGCCTTCACGGTGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
26052507 AAGAGGAAGCCTTTGTGGTGATCTATA
1 AAAAGGAAGCCTTTGTGGCGATCTATG
** *
26052534 AAAAGGAAGCCTTCATAGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
26052561 -AAAGGAAATCCTTTGTGGCAATTTATG
1 AAAAGG-AAGCCTTTGTGGCGATCTATG
* *
26052588 AAAAAGAAGCCTTCGTGGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
26052615 AAAAGGAAGCCTTTGTGG
1 AAAAGGAAGCCTTTGTGG
26052633 AAATTGATGA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
26 5 0.05
27 91 0.91
28 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:26052561 original size:54 final size:54
Alignment explanation
Indices: 26052478--26052632 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 54
26052468 GAACATGCTA
* * **
26052478 GAAAAAGGAAGCCTTCACGGTGATCTATGAAGAGGAAGCCTTTGTGGTGATCTAT
1 GAAAAAGGAAGCCTTCATGGCGATCTATGAA-AGGAAGCCTTTGTGGCAATCTAT
* * *
26052533 -AAAAAGGAAGCCTTCATAGCGATCTATGAAAGGAAATCCTTTGTGGCAATTTAT
1 GAAAAAGGAAGCCTTCATGGCGATCTATGAAAGG-AAGCCTTTGTGGCAATCTAT
*
26052587 GAAAAA-GAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGG
1 GAAAAAGGAAGCCTTCATGGCGATCTATG-AAAGGAAGCCTTTGTGG
26052633 AAATTGATGA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
53 3 0.03
54 74 0.85
55 10 0.11
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (54 bp):
GAAAAAGGAAGCCTTCATGGCGATCTATGAAAGGAAGCCTTTGTGGCAATCTAT
Found at i:26052642 original size:27 final size:26
Alignment explanation
Indices: 26052503--26052662 Score: 106
Period size: 27 Copynumber: 5.9 Consensus size: 26
26052493 CACGGTGATC
* **
26052503 TATGAAGAGGAAGCCTTTGTGGTGAT
1 TATGAAAAGGAAGCCTTTGTGGCAAT
* ** * *
26052529 CTATAAAAAGGAAGCCTTCATAGCGAT
1 -TATGAAAAGGAAGCCTTTGTGGCAAT
*
26052556 CTATG-AAAGGAAATCCTTTGTGGCAATT
1 -TATGAAAAGG-AAGCCTTTGTGGCAA-T
* * *
26052584 TATGAAAAAGAAGCCTTCGTGGCGAT
1 TATGAAAAGGAAGCCTTTGTGGCAAT
*
26052610 CTATGAAAAGGAAGCCTTTGTGGAAAT
1 -TATGAAAAGGAAGCCTTTGTGGCAAT
* * *
26052637 TGATGATAAAGAAATCCTATGTGGCA
1 T-ATGA-AAAGGAAGCCTTTGTGGCA
26052663 CTCTCTAAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.07
27 76 0.74
28 20 0.19
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (26 bp):
TATGAAAAGGAAGCCTTTGTGGCAAT
Found at i:26052673 original size:81 final size:81
Alignment explanation
Indices: 26052500--26052662 Score: 184
Period size: 81 Copynumber: 2.0 Consensus size: 81
26052490 CTTCACGGTG
* * * * ** *
26052500 ATCTATGAAGAGGAAGCCTTTGTGGTGATCTATAAAAAGGAAGCCTTCATAGCGATCTATGAAAG
1 ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCTATGAAAA
*
26052565 GAAATCCTTTGTGGCA
66 GAAATCCTATGTGGCA
* * ** *
26052581 ATTTATGAAAAAGAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGGAAAT-TGATGATA
1 ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCT-ATGA-A
26052645 AAGAAATCCTATGTGGCA
64 AAGAAATCCTATGTGGCA
26052663 CTCTCTAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 49 0.73
82 17 0.25
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (81 bp):
ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCTATGAAAA
GAAATCCTATGTGGCA
Found at i:26064654 original size:42 final size:42
Alignment explanation
Indices: 26064505--26064634 Score: 226
Period size: 42 Copynumber: 3.1 Consensus size: 42
26064495 ACCAGCACTT
* *
26064505 AGCCTGCTAAACATATAGTCTGAAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
26064547 AGCC-GCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
*
26064588 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACTGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
26064630 AGCCT
1 AGCCT
26064635 ACTAAGCGCT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
41 39 0.46
42 45 0.54
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
Done.