Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 92 of 438
Found at i:25498260 original size:154 final size:154
Alignment explanation
Indices: 25497976--25498290 Score: 495
Period size: 154 Copynumber: 2.0 Consensus size: 154
25497966 AATGTGTAAG
* *
25497976 ACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTAGAAAGATACCATGACAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACC
* * *
25498041 ATGGTAATCTGATACGAAATGTGTAAGACCATGGTTGACAGATACCATGGAAACCTGATACGAAA
66 ATGGCAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATACGAAA
**
25498106 TGTGTAAGACCATGGTAGAAAGAT
131 TGAATAAGACCATGGTAGAAAGAT
* *
25498130 ACCATGGTAGAAAGATACCATGGCAACCTGGTACGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTAGAAAGATACCATGACAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACC
* * * *
25498195 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAA
66 ATGGCAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATACGAAA
* *
25498260 TGAATAATACCATGGTTGAAAGAT
131 TGAATAAGACCATGGTAGAAAGAT
25498284 ACCATGG
1 ACCATGG
25498291 CAACATAGCA
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 146 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (154 bp):
ACCATGGTAGAAAGATACCATGACAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATACGAAA
TGAATAAGACCATGGTAGAAAGAT
Found at i:25498307 original size:46 final size:45
Alignment explanation
Indices: 25498130--25498323 Score: 230
Period size: 46 Copynumber: 4.2 Consensus size: 45
25498120 GTAGAAAGAT
* *
25498130 ACCATGGTAGAAAGATACCATGGCAACCTG-GTACGAAATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGAG-A-GAAATGAGTAAG
* *
25498176 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGAGA-GAAATGAGTAAG
* * * *
25498222 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAT
1 ACCATGGTTGAAAGATACCATGGCAACCTGAGA-GAAATGAGTAAG
*
25498268 ACCATGGTTGAAAGATACCATGGCAACAT-AGCAGAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGAG-AG-AAATGAGTAAG
*
25498314 ACCATAGTTG
1 ACCATGGTTG
25498324 GCATCATGTC
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
45 2 0.02
46 131 0.98
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (45 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGAGAGAAATGAGTAAG
Found at i:25498307 original size:92 final size:91
Alignment explanation
Indices: 25498130--25498323 Score: 255
Period size: 92 Copynumber: 2.1 Consensus size: 91
25498120 GTAGAAAGAT
* * **
25498130 ACCATGGTAGAAAGATACCATGGCAACCTGGTACGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATACGAAATGAATAAGACCATGGTTGAAAGATACC
* * *
25498195 ATGGCAACCTGATATGAAATGTGTAAG
66 ATGGCAACATGAGA-GAAATGAGTAAG
* * *
25498222 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAATACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATACGAAATGAATAAGACCATGGTTGAAAGATACC
25498287 ATGGCAACAT-AGCAGAAAATGAGTAAG
66 ATGGCAACATGAG-AG-AAATGAGTAAG
*
25498314 ACCATAGTTG
1 ACCATGGTTG
25498324 GCATCATGTC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
91 2 0.02
92 87 0.98
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (91 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGATACGAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAACATGAGAGAAATGAGTAAG
Found at i:25519500 original size:23 final size:23
Alignment explanation
Indices: 25519474--25519517 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25519464 TAAAAATAGA
*
25519474 ATTTTATATATAGATA-TGATTTT
1 ATTTTAAATAT-GATAGTGATTTT
25519497 ATTTTAAATATGATAGTGATT
1 ATTTTAAATATGATAGTGATT
25519518 AATAATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (23 bp):
ATTTTAAATATGATAGTGATTTT
Found at i:25525115 original size:30 final size:31
Alignment explanation
Indices: 25525081--25525138 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
25525071 TTTACGAGCC
25525081 TAAGGGAAAAACT-GTAATTTTGT-GAAAGTT
1 TAAGGGAAAAA-TAGTAATTTTGTCGAAAGTT
* *
25525111 TAAGGGCAAAATAGTCATTTTGTCGAAA
1 TAAGGGAAAAATAGTAATTTTGTCGAAA
25525139 TAAGAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 19 0.79
31 4 0.17
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (31 bp):
TAAGGGAAAAATAGTAATTTTGTCGAAAGTT
Found at i:25525541 original size:48 final size:48
Alignment explanation
Indices: 25525456--25525836 Score: 408
Period size: 48 Copynumber: 8.0 Consensus size: 48
25525446 ATATTAGGGT
* * * * *
25525456 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAAATCTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGA
* * * ** *
25525504 TATAAGAGCTAATTTAAGACCATGTCTGGGGCATGGCATCGACCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGA
* * *
25525552 TATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGACCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGA
* * **
25525600 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGA
* *
25525648 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCTTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCT-GGAACATGGCATCGACATCGA
* * * **
25525696 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGA
* * * *
25525744 TATAAGAGCTAGTGTAAGACCATGTCT-TAGACA-GGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGA-ACATGGCATCGACATCGA
* * * * * *
25525791 CATGGGGGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCATC
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATC
25525837 TTAACCTTTT
Statistics
Matches: 275, Mismatches: 53, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
47 38 0.14
48 235 0.85
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGA
Found at i:25525620 original size:96 final size:96
Alignment explanation
Indices: 25525456--25525831 Score: 461
Period size: 96 Copynumber: 3.9 Consensus size: 96
25525446 ATATTAGGGT
* * * ** * ** * *
25525456 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAAATCTATATAAGAGCTAATTTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACCTCGATATGTGAGCTAGTGTAA
* ** * **
25525521 GACCATGTCTGGGGCATGGCATCGACCTCGA
66 GACCATGTTTGGAACATGGCATCGACATTTA
* *
25525552 TATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGACCTCGATATGTGAGCTAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACCTCGATATGTGAGCTAGTGTAA
25525617 GACCATGTTTGGAACATGGCATCGACATTTA
66 GACCATGTTTGGAACATGGCATCGACATTTA
* * *
25525648 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCTTCGATATGTGAGCCAGTGTA
1 TATGAGAGCTAGTGTAAGACCATGTCT-GGAACATGGCATCGACCTCGATATGTGAGCTAGTGTA
25525712 AGACCATGTTTGGAACATGGCATCGACATTTA
65 AGACCATGTTTGGAACATGGCATCGACATTTA
* * * * * *
25525744 TATAAGAGCTAGTGTAAGACCATGTCT-TAGACA-GGCATCGGCCTCGACATGGGGGCTAGTGTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGA-ACATGGCATCGACCTCGATATGTGAGCTAGTGTA
*
25525807 AGACCATGTTTGGAACATGACATCG
65 AGACCATGTTTGGAACATGGCATCG
25525832 GCATCTTAAC
Statistics
Matches: 248, Mismatches: 29, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
95 49 0.20
96 197 0.79
97 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (96 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACCTCGATATGTGAGCTAGTGTAA
GACCATGTTTGGAACATGGCATCGACATTTA
Found at i:25525716 original size:144 final size:144
Alignment explanation
Indices: 25525456--25525833 Score: 474
Period size: 144 Copynumber: 2.6 Consensus size: 144
25525446 ATATTAGGGT
* * * * *
25525456 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAAATCTATATAAGAGCTAATTTAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCTATATGAGAGCTAGTGTAA
* * * *
25525521 GACCATGTCTGGGGCATGGCATCGACCTCGATATGTGAGCTAGTGTAAGACCATGTCTGGAACAT
66 GACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCATGTCTGGAACAT
* *
25525586 GGCATTGACCTCGA
131 GGCATCGACATCGA
*
25525600 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCTATATGAGAGCTAGTGTAA
* *
25525665 GACCATGTCTAGGACATGGCATCGGCTTCGATATGTGAGCCAGTGTAAGACCATGTTTGGAACAT
66 GACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCATGTCTGGAACAT
**
25525730 GGCATCGACATTTA
131 GGCATCGACATCGA
** * * * * * * *
25525744 TATAAGAGCTAGTGTAAGACCATGTCTTAG-ACA-GGCATCGGCCTCGACATGGGGGCTAGTGTA
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGACATCTATATGAGAGCTAGTGTA
* *
25525807 AGACCATGT-TTGGAACATGACATCGGC
65 AGACCATGTCTAGG-ACATGGCATCGGC
25525834 ATCTTAACCT
Statistics
Matches: 204, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
142 3 0.01
143 44 0.22
144 154 0.75
145 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (144 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCTATATGAGAGCTAGTGTAA
GACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCATGTCTGGAACAT
GGCATCGACATCGA
Found at i:25531434 original size:42 final size:42
Alignment explanation
Indices: 25531365--25531493 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 42
25531355 GAAATCAACT
*
25531365 TCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCGTA
1 TCTGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTA
* * * *
25531408 TCTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATG
1 TCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-TA
* * * *
25531451 TTTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTA
25531493 T
1 T
25531494 ATGCTTTCTG
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 31 0.43
43 41 0.57
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
TCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTA
Found at i:25538924 original size:43 final size:42
Alignment explanation
Indices: 25538821--25538938 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
25538811 CTGTTTTGTG
* * *
25538821 TGTAAGACCATGTCTAGGG-CATTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCT-GGGACAGTGGCATCGTATTTGATTACA
* *
25538863 TGTAAGACTC-TGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGAC-CATGTCTGGGACAGTGGCATCG-TATTTGATTACA
*
25538906 TGTAAGACCATGTCTGGGAC-GTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTAT
25538939 ATGTTTTTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 3 0.05
42 26 0.41
43 34 0.54
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:25541128 original size:24 final size:25
Alignment explanation
Indices: 25541095--25541145 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
25541085 ACAACCCACA
*
25541095 TTTTGGCTTTTC-ACCTTT-TCGATT
1 TTTTGACTTTTCAACCTTTGTC-ATT
25541119 TTTTGACTTTTCAACCTTTGTCATT
1 TTTTGACTTTTCAACCTTTGTCATT
25541144 TT
1 TT
25541146 ACATCTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 11 0.46
25 11 0.46
26 2 0.08
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (25 bp):
TTTTGACTTTTCAACCTTTGTCATT
Found at i:25552300 original size:40 final size:40
Alignment explanation
Indices: 25552255--25552422 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
25552245 CGGAATATAA
25552255 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25552295 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25552335 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
25552375 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25552415 CCGGATAT
1 CCGGATAT
25552423 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25558861 original size:40 final size:40
Alignment explanation
Indices: 25558816--25558983 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
25558806 CGGAATATAA
25558816 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25558856 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25558896 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
25558936 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25558976 CCGGATAT
1 CCGGATAT
25558984 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25562073 original size:66 final size:68
Alignment explanation
Indices: 25561997--25562183 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
25561987 TAGTACCACT
*
25561997 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
25562059 CACG
65 CACG
25562063 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
25562128 ATCACG
63 ATCACG
25562134 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
25562184 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:25562108 original size:71 final size:71
Alignment explanation
Indices: 25562020--25562183 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
25562010 CGATTTGTCT
25562020 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
25562085 CTTTCA
66 CTTTCA
25562091 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
25562156 CTTTCA
66 CTTTCA
25562162 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
25562184 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:25562221 original size:71 final size:69
Alignment explanation
Indices: 25562020--25562217 Score: 265
Period size: 71 Copynumber: 2.8 Consensus size: 69
25562010 CGATTTGTCT
* * *
25562020 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACATCACAT-G-ATCACGCATGCGACCTAGCTACATTTAT
25562085 CTTTCA
64 CTTTCA
* * *
25562091 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACATCACAT-G-ATCACGCATGCGACCTAGCTACATTTAT
25562156 CTTTCA
64 CTTTCA
* *
25562162 CGTAGCTCTCTTGTCTACATGG-GATACATCTCAT-ATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATCACATGATCACGCATGCGACCTAGCTAC
25562218 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 21 0.17
70 1 0.01
71 99 0.82
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATCACATGATCACGCATGCGACCTAGCTACATTTATCT
TTCA
Found at i:25565545 original size:39 final size:39
Alignment explanation
Indices: 25565491--25565634 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
25565481 GAATGTTCGA
25565491 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
25565530 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
25565569 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
25565608 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
25565635 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:25565581 original size:78 final size:79
Alignment explanation
Indices: 25565492--25565674 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
25565482 AATGTTCGAG
25565492 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
25565556 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
25565570 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
25565635 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
25565649 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
25565675 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:25573400 original size:38 final size:39
Alignment explanation
Indices: 25573349--25573491 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
25573339 GAATGTTCGA
25573349 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
25573387 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
25573426 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
25573465 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
25573492 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 34 0.35
39 54 0.56
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:25573437 original size:77 final size:79
Alignment explanation
Indices: 25573350--25573531 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
25573340 AATGTTCGAG
25573350 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
25573413 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
25573427 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
25573492 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
25573506 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
25573532 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 33 0.35
78 20 0.21
79 32 0.34
80 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:25589307 original size:40 final size:40
Alignment explanation
Indices: 25589252--25589419 Score: 248
Period size: 40 Copynumber: 4.2 Consensus size: 40
25589242 CAATTGAATG
*
25589252 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
25589292 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
25589332 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
** *
25589372 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
25589412 ATATCCGG
1 ATATCCGG
25589420 TTGTATCCGA
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.03
40 115 0.97
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:25596203 original size:48 final size:48
Alignment explanation
Indices: 25596150--25596295 Score: 238
Period size: 48 Copynumber: 3.0 Consensus size: 48
25596140 ATATATATAT
*
25596150 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25596198 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** ** *
25596246 CCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25596294 AT
1 AT
25596296 GTGTATATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25598293 original size:40 final size:40
Alignment explanation
Indices: 25598238--25598356 Score: 195
Period size: 40 Copynumber: 3.0 Consensus size: 40
25598228 AAGTTCAGTA
25598238 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
25598278 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * * *
25598318 TGATGTATCCGGGCTAAGCCCCAAAG-GCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
25598357 GACAAAATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.17
40 62 0.83
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:25599285 original size:23 final size:23
Alignment explanation
Indices: 25599259--25599302 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25599249 CGTAAAAATA
* *
25599259 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
25599282 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
25599303 GGAAATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:25600569 original size:48 final size:48
Alignment explanation
Indices: 25600516--25600661 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
25600506 CAAGATATAT
*
25600516 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25600564 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** ** *
25600612 CCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25600660 AT
1 AT
25600662 GTGTATATAT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25605487 original size:40 final size:40
Alignment explanation
Indices: 25605432--25605550 Score: 186
Period size: 40 Copynumber: 3.0 Consensus size: 40
25605422 AAGTTCAGTA
25605432 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
25605472 TGTTATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * * *
25605512 TGATGTATCCGGGCTAAGCCCCAAAG-GCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
25605551 GACAAAATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.18
40 60 0.82
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:25607780 original size:48 final size:48
Alignment explanation
Indices: 25607714--25607859 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
25607704 GTACAAATAT
* *
25607714 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAACATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25607762 ATATATATATGTGTTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** ** * *
25607810 CCATGCATATGTGGTAAAGCCAAATGGTTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25607858 AT
1 AT
25607860 GTGTATATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25612064 original size:24 final size:23
Alignment explanation
Indices: 25612032--25612107 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
25612022 GAACTCACCG
25612032 CAGCTCGTAAGAGCTTACTATTCT
1 CAGCTCGTAAGAGCTTACTATT-T
*
25612056 CAGCTCGTATGAGCTTACTGATTT
1 CAGCTCGTAAGAGCTTACT-ATTT
* * *
25612080 -AGCTTGTCAGAGCTTACTGTTT
1 CAGCTCGTAAGAGCTTACTATTT
25612102 CAGCTC
1 CAGCTC
25612108 AATAGAGCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 3 0.07
23 19 0.43
24 19 0.43
25 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (23 bp):
CAGCTCGTAAGAGCTTACTATTT
Found at i:25612092 original size:23 final size:23
Alignment explanation
Indices: 25612032--25612118 Score: 90
Period size: 23 Copynumber: 3.7 Consensus size: 23
25612022 GAACTCACCG
25612032 CAGCTCGTAAGAGCTTACT-ATTCT
1 CAGCTCGT-AGAGCTTACTGATT-T
25612056 CAGCTCGTATGAGCTTACTGATTT
1 CAGCTCGTA-GAGCTTACTGATTT
*
25612080 -AGCTTGTCAGAGCTTACTG-TTT
1 CAGCTCGT-AGAGCTTACTGATTT
*
25612102 CAGCTCAATAGAGCTTA
1 CAGCTC-GTAGAGCTTA
25612119 TTGTCTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
22 3 0.05
23 29 0.53
24 20 0.36
25 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (23 bp):
CAGCTCGTAGAGCTTACTGATTT
Found at i:25612137 original size:23 final size:23
Alignment explanation
Indices: 25612041--25612149 Score: 80
Period size: 23 Copynumber: 4.6 Consensus size: 23
25612031 GCAGCTCGTA
* *
25612041 AGAGCTTACTATTCTCAGCTC-GT
1 AGAGCTTACTGTT-TCAGCTCAAT
**
25612064 ATGAGCTTACTGATTT-AGCT-TGT
1 A-GAGCTTACTG-TTTCAGCTCAAT
25612087 CAGAGCTTACTGTTTCAGCTCAAT
1 -AGAGCTTACTGTTTCAGCTCAAT
* *
25612111 AGAGCTTATTGTCTATCAGCTCAAG
1 AGAGCTTACTGT-T-TCAGCTCAAT
25612136 AGGAGCTTACTGTT
1 A-GAGCTTACTGTT
25612150 CATAGCTCGA
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
22 3 0.04
23 32 0.45
24 13 0.18
25 13 0.18
26 10 0.14
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:25612156 original size:25 final size:25
Alignment explanation
Indices: 25612088--25612165 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
25612078 TTAGCTTGTC
*
25612088 AGAGCTTACTGTT--TCAGCTCAAT
1 AGAGCTTACTGTTCATCAGCTCAAG
*
25612111 AGAGCTTATTG-TCTATCAGCTCAAG
1 AGAGCTTACTGTTC-ATCAGCTCAAG
25612136 AGGAGCTTACTGTTCAT-AGCTCGAA-
1 A-GAGCTTACTGTTCATCAGCTC-AAG
25612161 AGAGC
1 AGAGC
25612166 AGAAAATGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 1 0.02
23 10 0.22
24 4 0.09
25 16 0.35
26 13 0.28
27 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
AGAGCTTACTGTTCATCAGCTCAAG
Found at i:25613688 original size:46 final size:46
Alignment explanation
Indices: 25613534--25613701 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
25613524 GTAACCGCCC
* *
25613534 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* *
25613580 TAAGTGAACTCGG-----ACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
25613623 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25613668 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25613702 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
40 2 0.02
41 12 0.12
42 10 0.10
43 6 0.06
44 2 0.02
45 5 0.05
46 44 0.45
47 16 0.16
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25613720 original size:46 final size:45
Alignment explanation
Indices: 25613627--25613712 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
25613617 TACATTTCAC
* *
25613627 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
25613673 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
25613713 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:25620685 original size:92 final size:92
Alignment explanation
Indices: 25620571--25620740 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
25620561 CGCCCTAAGT
* *
25620571 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25620636 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
25620663 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25620728 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25620741 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:25620737 original size:46 final size:46
Alignment explanation
Indices: 25620566--25620737 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
25620556 TAACCCGCCC
* * *
25620566 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
25620612 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
25620658 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25620704 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25620738 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25620756 original size:46 final size:46
Alignment explanation
Indices: 25620568--25620756 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
25620558 ACCCGCCCTA
* ** * *
25620568 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
25620613 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
25620661 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
25620706 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
25620752 AGTGA
1 AGTGA
25620757 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:25625914 original size:43 final size:42
Alignment explanation
Indices: 25625759--25625915 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
25625749 ATGTGATTTT
*
25625759 GTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTT-TTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TTGATTAC
* * * ** **
25625802 GTGTATGACCATGTCTGGGACATCGGCATCG-TATCAGATTTT
1 GTGTAAGACCACGTCTGGGACATTGGCATCGAT-TTTGATTAC
* * * * *
25625844 GTGTAAAACC-CTATCTAGGATAGTGGCATCGATGTTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TTTGATTAC
*
25625887 ATGTAAGACCACGTCTGGGACATTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
25625916 TGTATATGTT
Statistics
Matches: 82, Mismatches: 27, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 55 0.67
44 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATTTTGATTAC
Found at i:25626209 original size:23 final size:23
Alignment explanation
Indices: 25626183--25626229 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25626173 TATTTGTTTA
25626183 TGGCTTACTAAGCTTTTGAAACT
1 TGGCTTACTAAGCTTTTGAAACT
25626206 TGGCTTACTAAGCTTTTGAAACT
1 TGGCTTACTAAGCTTTTGAAACT
25626229 T
1 T
25626230 ACTTTGTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (23 bp):
TGGCTTACTAAGCTTTTGAAACT
Found at i:25628717 original size:28 final size:28
Alignment explanation
Indices: 25628648--25628748 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25628638 GACAAGATTG
* * * *
25628648 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
25628678 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25628706 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
25628735 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25628749 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25636640 original size:28 final size:28
Alignment explanation
Indices: 25636571--25636671 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25636561 GACAAGATTG
* * * *
25636571 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
25636601 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25636629 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
25636658 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25636672 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25644377 original size:44 final size:43
Alignment explanation
Indices: 25644321--25644443 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
25644311 ATCTGATATG
* *
25644321 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TC
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC-AATGTC
* * * * * * * *
25644364 TGTTTTACGTGTAACACCATGTTTGGGACATCGACATCAATGTT
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATGTC
* *
25644408 TGATTACATGTAAGACCACGTCTGGGTCGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
25644444 TGTATATGTT
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
43 29 0.49
44 30 0.51
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATGTC
Found at i:25650489 original size:30 final size:30
Alignment explanation
Indices: 25650453--25650520 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
25650443 TAAGATTTAT
*
25650453 TACATATTCATGAAAAAGATATAATTCACA
1 TACATATTCATGAAAAAAATATAATTCACA
25650483 TACATATTCATGAAAAAAATATAATTCACA
1 TACATATTCATGAAAAAAATATAATTCACA
25650513 TACATATT
1 TACATATT
25650521 ATTCAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.32
Consensus pattern (30 bp):
TACATATTCATGAAAAAAATATAATTCACA
Found at i:25650711 original size:21 final size:21
Alignment explanation
Indices: 25650672--25650711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25650662 TGCATTTAAC
*
25650672 TTCAATTTAATCCATTTCATA
1 TTCAATTTAATCCAATTCATA
*
25650693 TTCAATTTAATTCAATTCA
1 TTCAATTTAATCCAATTCA
25650712 CATCCTAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCAATTTAATCCAATTCATA
Found at i:25652044 original size:26 final size:26
Alignment explanation
Indices: 25652015--25652068 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
25652005 ACTTTCAAGA
* * *
25652015 ATACCTTGTGTCTGACTTGAAATTCT
1 ATACCTTGTCTCCGACCTGAAATTCT
25652041 ATACCTTGTCTCCGACCTGAAATTCT
1 ATACCTTGTCTCCGACCTGAAATTCT
25652067 AT
1 AT
25652069 CTCCTTTCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (26 bp):
ATACCTTGTCTCCGACCTGAAATTCT
Found at i:25655846 original size:17 final size:17
Alignment explanation
Indices: 25655811--25655846 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25655801 TAAACTATTT
* *
25655811 ATTTGATTTTAGTCTAA
1 ATTTGATTTTAATCCAA
25655828 ATTTGATTTTAATCCAA
1 ATTTGATTTTAATCCAA
25655845 AT
1 AT
25655847 GACGGTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (17 bp):
ATTTGATTTTAATCCAA
Found at i:25670312 original size:43 final size:47
Alignment explanation
Indices: 25670251--25670371 Score: 133
Period size: 51 Copynumber: 2.6 Consensus size: 47
25670241 ATGTAGCATC
*
25670251 TTGAGAGGTCCGAGTTCATTATGGATGC-A-A-G-CATCCGAGCTCG
1 TTGAGAGGTCCAAGTTCATTATGGATGCGATATGACATCCGAGCTCG
* * * *
25670294 TTGAGTGGTCTAAGTTCATGATGGATGCGATTCATGTAACTTCCGAGCTCG
1 TTGAGAGGTCCAAGTTCATTATGGATGCGA-T-ATG--ACATCCGAGCTCG
25670345 TTGAGAGGTCCAAGTTCATTATGGATG
1 TTGAGAGGTCCAAGTTCATTATGGATG
25670372 TATACATGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
43 24 0.39
44 1 0.02
47 1 0.02
48 1 0.02
51 35 0.56
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
TTGAGAGGTCCAAGTTCATTATGGATGCGATATGACATCCGAGCTCG
Found at i:25678134 original size:170 final size:170
Alignment explanation
Indices: 25677852--25678192 Score: 673
Period size: 170 Copynumber: 2.0 Consensus size: 170
25677842 ATGTTATTTC
25677852 TTTGTATGTAAGATTCATGTTTAGAGTAGGTATAAATGAGATGGTTATGACCAACTGTATATGTT
1 TTTGTATGTAAGATTCATGTTTAGAGTAGGTATAAATGAGATGGTTATGACCAACTGTATATGTT
25677917 TATATAGCTATATAAGCACATAATAAATTGACTTGACTTGTGGTTTAGCACTTGTCCTTATTAAT
66 TATATAGCTATATAAGCACATAATAAATTGACTTGACTTGTGGTTTAGCACTTGTCCTTATTAAT
25677982 ATTCTAGTATAATGTGATTTTGAAATATGCATGTATGTGA
131 ATTCTAGTATAATGTGATTTTGAAATATGCATGTATGTGA
*
25678022 TTTGTATGTAAGATTCATGTTTGGAGTAGGTATAAATGAGATGGTTATGACCAACTGTATATGTT
1 TTTGTATGTAAGATTCATGTTTAGAGTAGGTATAAATGAGATGGTTATGACCAACTGTATATGTT
25678087 TATATAGCTATATAAGCACATAATAAATTGACTTGACTTGTGGTTTAGCACTTGTCCTTATTAAT
66 TATATAGCTATATAAGCACATAATAAATTGACTTGACTTGTGGTTTAGCACTTGTCCTTATTAAT
25678152 ATTCTAGTATAATGTGATTTTGAAATATGCATGTATGTGA
131 ATTCTAGTATAATGTGATTTTGAAATATGCATGTATGTGA
25678192 T
1 T
25678193 CCTAGGAAAT
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (170 bp):
TTTGTATGTAAGATTCATGTTTAGAGTAGGTATAAATGAGATGGTTATGACCAACTGTATATGTT
TATATAGCTATATAAGCACATAATAAATTGACTTGACTTGTGGTTTAGCACTTGTCCTTATTAAT
ATTCTAGTATAATGTGATTTTGAAATATGCATGTATGTGA
Found at i:25678314 original size:2 final size:2
Alignment explanation
Indices: 25678307--25678336 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25678297 TTGTGGATGC
25678307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25678337 CATTGTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25681269 original size:21 final size:21
Alignment explanation
Indices: 25681245--25681284 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25681235 ATTTAACGTT
*
25681245 AATTTAATCCATTTCATATTC
1 AATTTAATCCAATTCATATTC
*
25681266 AATTTAATTCAATTCATAT
1 AATTTAATCCAATTCATAT
25681285 ACTAGGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTAATCCAATTCATATTC
Found at i:25683822 original size:39 final size:39
Alignment explanation
Indices: 25683740--25683863 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
25683730 TATGGTAACC
** * *
25683740 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
25683780 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
*
25683819 CGCACAATTGCCTTCGGGCTTAGCCCTGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
25683858 CGCACA
1 CGCACA
25683864 TTCATTCACA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 63 0.80
40 16 0.20
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:25686799 original size:23 final size:23
Alignment explanation
Indices: 25686769--25686814 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25686759 CGAGACAGGT
25686769 GTAGGGTGTTACAGAAAAAACTA
1 GTAGGGTGTTACAGAAAAAACTA
25686792 GTAGGGTGTTACAGAAAAAACTA
1 GTAGGGTGTTACAGAAAAAACTA
25686815 AGTGAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.22
Consensus pattern (23 bp):
GTAGGGTGTTACAGAAAAAACTA
Found at i:25689043 original size:13 final size:13
Alignment explanation
Indices: 25689015--25689068 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
25689005 TATTACCCAA
*
25689015 AATAAATATTATTT
1 AATAAAT-TAATTT
*
25689029 AATCAATTAATTT
1 AATAAATTAATTT
25689042 AATAAATTAAATTT
1 AATAAATT-AATTT
*
25689056 ACTAAATTAATTT
1 AATAAATTAATTT
25689069 CTCAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 17 0.49
14 18 0.51
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (13 bp):
AATAAATTAATTT
Found at i:25692956 original size:20 final size:20
Alignment explanation
Indices: 25692928--25692966 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25692918 TAAAATGTAA
*
25692928 AATTGTGAAATTTGATGAAC
1 AATTCTGAAATTTGATGAAC
* *
25692948 AATTCTGAATTTTTATGAA
1 AATTCTGAAATTTGATGAA
25692967 TACATGTGCT
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:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
AATTCTGAAATTTGATGAAC
Found at i:25695554 original size:79 final size:81
Alignment explanation
Indices: 25695444--25695625 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
25695434 TACTCGTTCA
* *
25695444 AATGCCTTCGGGACATT-GCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 AATGCCTTCGGGAC-TTAGCCCGGGATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCG
* *
25695506 GATTTAGTAAC-TCGCACC
64 GATATAGTAACTTAGCA-C
**
25695524 AATGCCTTCGGG-CTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGA
*
25695587 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
25695603 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
25695626 ACATCATTCG
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 4 0.04
79 56 0.63
80 29 0.33
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:25695626 original size:40 final size:40
Alignment explanation
Indices: 25695423--25695626 Score: 231
Period size: 40 Copynumber: 5.1 Consensus size: 40
25695413 CAGAATTTAA
**
25695423 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATT-GC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC-TTAGC
* *
25695463 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25695503 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25695542 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
25695582 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25695622 CCGGA
1 CCGGA
25695627 CATCATTCGA
Statistics
Matches: 141, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 36 0.26
40 94 0.67
41 10 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25702176 original size:14 final size:14
Alignment explanation
Indices: 25702157--25702190 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25702147 TTATATGGTG
25702157 TAAGACAATAGCTA
1 TAAGACAATAGCTA
25702171 TAAGACAATAGCTA
1 TAAGACAATAGCTA
*
25702185 GAAGAC
1 TAAGAC
25702191 GTTATGGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (14 bp):
TAAGACAATAGCTA
Found at i:25704172 original size:16 final size:15
Alignment explanation
Indices: 25704143--25704182 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
25704133 TTATTTATTA
25704143 AATTAA-TTTTAATT
1 AATTAATTTTTAATT
25704157 AATTAATTTCTTAATT
1 AATTAATTT-TTAATT
*
25704173 AAATAATTTT
1 AATTAATTTT
25704183 CTAAACCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 3 0.13
16 14 0.61
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTTTTAATT
Found at i:25706173 original size:46 final size:46
Alignment explanation
Indices: 25706106--25706199 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
25706096 AGGGATCGCT
25706106 AAGTTAGTGAAAATTATTATTAAATTAATTAATCTCAAAAAAAATA
1 AAGTTAGTGAAAATTATTATTAAATTAATTAATCTCAAAAAAAATA
25706152 AAGTTAGTGAAAATTATTATTAAATTAATTAATCTCAAAAAAAATA
1 AAGTTAGTGAAAATTATTATTAAATTAATTAATCTCAAAAAAAATA
25706198 AA
1 AA
25706200 CTAATCTAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (46 bp):
AAGTTAGTGAAAATTATTATTAAATTAATTAATCTCAAAAAAAATA
Found at i:25713104 original size:20 final size:20
Alignment explanation
Indices: 25713075--25713144 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
25713065 AAAAATTCAA
25713075 ATAT-TAAAAATTAAAAAAT
1 ATATATAAAAATTAAAAAAT
25713094 ATATATAAAAATTGTAAAAAAT
1 ATATATAAAAA-T-TAAAAAAT
*
25713116 ATA-A-AAAAATTATAAAAT
1 ATATATAAAAATTAAAAAAT
*
25713134 -TTTATAAAAAT
1 ATATATAAAAAT
25713145 AGTAAAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.02
18 8 0.18
19 11 0.25
20 11 0.25
21 2 0.05
22 11 0.25
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (20 bp):
ATATATAAAAATTAAAAAAT
Found at i:25713105 original size:29 final size:29
Alignment explanation
Indices: 25713080--25713151 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
25713070 TTCAAATATT
25713080 AAAAAT-TAAAAAATATATATAAAAATTGTA
1 AAAAATATAAAAAA-AT-TATAAAAATTGTA
*
25713110 AAAAATATAAAAAAATTAT-AAAATTTTA
1 AAAAATATAAAAAAATTATAAAAATTGTA
25713138 TAAAAATAGTAAAA
1 -AAAAATA-TAAAA
25713152 TGTATAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 8 0.21
29 10 0.26
30 13 0.34
31 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAATATAAAAAAATTATAAAAATTGTA
Found at i:25713115 original size:10 final size:10
Alignment explanation
Indices: 25713086--25713143 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
25713076 TATTAAAAAT
25713086 TAAAAAATATA
1 TAAAAAAT-TA
*
25713097 TATAAAAATTG
1 TA-AAAAATTA
25713108 TAAAAAA-TA
1 TAAAAAATTA
25713117 TAAAAAAATTA
1 T-AAAAAATTA
**
25713128 TAAAATTTTA
1 TAAAAAATTA
25713138 TAAAAA
1 TAAAAA
25713144 TAGTAAAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 2 0.05
10 23 0.59
11 8 0.21
12 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:25713140 original size:39 final size:40
Alignment explanation
Indices: 25713080--25713160 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
25713070 TTCAAATATT
*
25713080 AAAAATTAAAAAATATATATAAAAATTGTAAAAAATATAA
1 AAAAATTAAAAAATATATATAAAAATAGTAAAAAATATAA
* * **
25713120 AAAAATTATAAAAT-TTTATAAAAATAGTAAAATGTATAA
1 AAAAATTAAAAAATATATATAAAAATAGTAAAAAATATAA
25713159 AA
1 AA
25713161 TATATAGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 23 0.64
40 13 0.36
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (40 bp):
AAAAATTAAAAAATATATATAAAAATAGTAAAAAATATAA
Found at i:25713179 original size:8 final size:8
Alignment explanation
Indices: 25713121--25713179 Score: 55
Period size: 9 Copynumber: 6.8 Consensus size: 8
25713111 AAAATATAAA
25713121 AAAATTAT
1 AAAATTAT
25713129 AAAATTTTAT
1 AAAA--TTAT
*
25713139 AAAAATAGT
1 AAAATTA-T
25713148 AAAATGTAT
1 AAAAT-TAT
25713157 AAAATATAT
1 AAAAT-TAT
*
25713166 AGAATTAT
1 AAAATTAT
25713174 AAAATT
1 AAAATT
25713180 TTATAAAGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 14 0.33
9 18 0.43
10 10 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:25713374 original size:19 final size:19
Alignment explanation
Indices: 25713350--25713388 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25713340 GGACATGTGA
* *
25713350 TGACTTTGATTGAAAAAAT
1 TGACTTTAACTGAAAAAAT
25713369 TGACTTTAACTGAAAAAAT
1 TGACTTTAACTGAAAAAAT
25713388 T
1 T
25713389 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (19 bp):
TGACTTTAACTGAAAAAAT
Found at i:25713446 original size:20 final size:20
Alignment explanation
Indices: 25713401--25713452 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
25713391 ATTTTTTATG
*
25713401 ATTTTTATTAAAAAAATTGCA
1 ATTTTTA-TAAAAAAATTACA
*
25713422 ATTTTTATAAAAAAATTA-T
1 ATTTTTATAAAAAAATTACA
25713441 ATTTTTAATAAA
1 ATTTTT-ATAAA
25713453 TTTTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 15 0.54
21 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTTATAAAAAAATTACA
Found at i:25713481 original size:27 final size:27
Alignment explanation
Indices: 25713437--25713500 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
25713427 TATAAAAAAA
*
25713437 TTATATTTTTAATAAATTTTAA-ATTTT
1 TTATATTTTTAATAAA-TTTAATAGTTT
*
25713464 TTATA-TTTTATTATAATTTAATAGTTT
1 TTATATTTTTAATA-AATTTAATAGTTT
*
25713491 TTCTATTTTT
1 TTATATTTTT
25713501 TTTTACTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 12 0.39
27 15 0.48
28 4 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
TTATATTTTTAATAAATTTAATAGTTT
Found at i:25714140 original size:32 final size:32
Alignment explanation
Indices: 25714104--25714183 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
25714094 TCAAATCTCT
* *
25714104 AAATCTTGAAATCCTTAAAACTTTTACGAATC-
1 AAATCTTGAAATCCCTAAAACTATTACGAA-CG
*
25714136 AAATCGTTG-AATCCCTAAAACTATTAGGAACG
1 AAATC-TTGAAATCCCTAAAACTATTACGAACG
*
25714168 AAATCATGAAATCCCT
1 AAATCTTGAAATCCCT
25714184 TAGAACCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 3 0.07
32 35 0.85
33 3 0.07
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (32 bp):
AAATCTTGAAATCCCTAAAACTATTACGAACG
Found at i:25717567 original size:37 final size:39
Alignment explanation
Indices: 25717473--25717569 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 39
25717463 CACACCAGAA
***
25717473 TGGCGACCAACGCCTCATCGGATAGTTCGAAGTAAATAAG
1 TGGCGACCAACGCCTCATCGGATAAACCGAAG-AAATAAG
** * * *
25717513 TAACGACCAATGTCTCATCGGCTAAACCGAAG-AA-AAG
1 TGGCGACCAACGCCTCATCGGATAAACCGAAGAAATAAG
25717550 TGGCGACCAACGCCTCATCG
1 TGGCGACCAACGCCTCATCG
25717570 AATCTATCTG
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
37 19 0.42
38 2 0.04
40 24 0.53
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.18
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAAACCGAAGAAATAAG
Found at i:25717798 original size:28 final size:28
Alignment explanation
Indices: 25717767--25717821 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
25717757 AATCGCAATA
*
25717767 ACAATTCAAT-TACAATTTCAAATTCACC
1 ACAAATCAATATACAA-TTCAAATTCACC
* *
25717795 ACAAATCATTATACAATTCAATTTCAC
1 ACAAATCAATATACAATTCAAATTCAC
25717822 ACATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.33
Consensus pattern (28 bp):
ACAAATCAATATACAATTCAAATTCACC
Found at i:25718639 original size:3 final size:3
Alignment explanation
Indices: 25718625--25718670 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
25718615 TTATCTCAAT
25718625 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25718671 GTAAATATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25723903 original size:19 final size:20
Alignment explanation
Indices: 25723872--25723909 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25723862 CCAGTTTAGT
25723872 CATTTTCTATT-AAATTCAC
1 CATTTTCTATTAAAATTCAC
25723891 CATTTTC-ACTTAAAATTCA
1 CATTTTCTA-TTAAAATTCA
25723910 TGAAATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.06
19 9 0.53
20 7 0.41
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (20 bp):
CATTTTCTATTAAAATTCAC
Found at i:25726231 original size:46 final size:44
Alignment explanation
Indices: 25726172--25726286 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
25726162 ACAGGACAGA
* *
25726172 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
25726218 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
25726262 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
25726287 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:25726267 original size:44 final size:45
Alignment explanation
Indices: 25726172--25726305 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
25726162 ACAGGACAGA
* *
25726172 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
25726218 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
25726262 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
25726306 TAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:25727727 original size:68 final size:68
Alignment explanation
Indices: 25727635--25727765 Score: 199
Period size: 68 Copynumber: 1.9 Consensus size: 68
25727625 TGACGCATAT
* * * *
25727635 ATAGTCCATCCTCCATTTAAGATTAAGGTATGCCACACTATGAACATCACAAGTAATTAAATCAA
1 ATAGTCCATCATCCACTCAAGATTAAGGTATGCCACACAATGAACATCACAAGTAATTAAATCAA
25727700 TAC
66 TAC
* * *
25727703 ATAGTTCATCATCCACTCAAGATTAATGTATGCCACACAATGAACATTACAAGTAATTAAATC
1 ATAGTCCATCATCCACTCAAGATTAAGGTATGCCACACAATGAACATCACAAGTAATTAAATC
25727766 CATAAACCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (68 bp):
ATAGTCCATCATCCACTCAAGATTAAGGTATGCCACACAATGAACATCACAAGTAATTAAATCAA
TAC
Found at i:25730774 original size:5 final size:5
Alignment explanation
Indices: 25730764--25730788 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25730754 TCATGGCAGC
25730764 TGCAA TGCAA TGCAA TGCAA TGCAA
1 TGCAA TGCAA TGCAA TGCAA TGCAA
25730789 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
TGCAA
Found at i:25730981 original size:41 final size:41
Alignment explanation
Indices: 25730924--25731005 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
25730914 TCAATCCATG
25730924 CAACAGTTCCAAACCCTCCAATGAAATATATATCACTGAAA
1 CAACAGTTCCAAACCCTCCAATGAAATATATATCACTGAAA
**
25730965 CAACAGTTTTAAACCCTCCAATGAAATATATATCACTGAAA
1 CAACAGTTCCAAACCCTCCAATGAAATATATATCACTGAAA
25731006 TGAATTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.24
Consensus pattern (41 bp):
CAACAGTTCCAAACCCTCCAATGAAATATATATCACTGAAA
Found at i:25734629 original size:24 final size:25
Alignment explanation
Indices: 25734583--25734630 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
25734573 AACTGGGTAC
*
25734583 AGTTTCATTTGAGTTTTTTACTTTAT
1 AGTTACATTTGAG-TTTTTACTTTAT
25734609 AGTTACATTTGA-TTTTTACTTT
1 AGTTACATTTGAGTTTTTACTTT
25734631 TCGCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.60
Consensus pattern (25 bp):
AGTTACATTTGAGTTTTTACTTTAT
Found at i:25736829 original size:28 final size:29
Alignment explanation
Indices: 25736790--25736845 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
25736780 AATATAATAT
* * *
25736790 AATAATATAAAG-TAAAAGAAATAAAAGA
1 AATAATAAAAAGAAAAAAGAAACAAAAGA
25736818 AATAATAAAAAGAAAAAAGAAACAAAAG
1 AATAATAAAAAGAAAAAAGAAACAAAAG
25736846 TAAGAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.12
Consensus pattern (29 bp):
AATAATAAAAAGAAAAAAGAAACAAAAGA
Found at i:25737806 original size:6 final size:6
Alignment explanation
Indices: 25737795--25737826 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25737785 TGTGTACCGC
*
25737795 TACTGT TACTGT TACTGT TATTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TACTGT TA
25737827 TCATTACGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (6 bp):
TACTGT
Found at i:25744392 original size:6 final size:6
Alignment explanation
Indices: 25744381--25744415 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
25744371 CCGATTCGTT
25744381 CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTT
1 CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTT
25744416 CCGGATTCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.51
Consensus pattern (6 bp):
CTGTTA
Found at i:25747423 original size:71 final size:71
Alignment explanation
Indices: 25747339--25747508 Score: 234
Period size: 71 Copynumber: 2.4 Consensus size: 71
25747329 GGGTATTGAC
* * *
25747339 TTTGTGTATAAACCTGTGAGTAACTCGTTGAGCAAGCATATCATGTTAATGTTTTGGGGTCTGAG
1 TTTGTGTATAAACCCGTGAGTAACTCATTGAGCAAGCATATCATGTTAATGCTTTGGGGTCTGAG
25747404 TACTGA
66 TACTGA
* *
25747410 TTTGTGTATAAACCCGTGAGTAACTCATTGAGCGAGCATATCATGTTAATGCTTTGGGGTC-CAG
1 TTTGTGTATAAACCCGTGAGTAACTCATTGAGCAAGCATATCATGTTAATGCTTTGGGGTCTGA-
*
25747474 GTGCTGA
65 GTACTGA
* * *
25747481 CTTTGTGTACAGACCCGTGAGTAGCTCA
1 -TTTGTGTATAAACCCGTGAGTAACTCA
25747509 AATGCGGGCA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.01
71 63 0.72
72 24 0.27
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (71 bp):
TTTGTGTATAAACCCGTGAGTAACTCATTGAGCAAGCATATCATGTTAATGCTTTGGGGTCTGAG
TACTGA
Found at i:25754957 original size:29 final size:30
Alignment explanation
Indices: 25754900--25754957 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
25754890 CTTTTGAAAA
* * *
25754900 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
*
25754930 TATTTGCAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
25754958 AAAATAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:25759198 original size:49 final size:48
Alignment explanation
Indices: 25759145--25759416 Score: 388
Period size: 49 Copynumber: 5.7 Consensus size: 48
25759135 GATTTTACGC
* *
25759145 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT-AATATGTGATAAGGCCTAATGGCCGATGT
25759194 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
25759243 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
* * * *
25759292 GATGAATGTGAAGGTGTAT-ATATGTGAGAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
25759339 GATGAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
*
25759386 GATGGATGTGAAAGTGTATAA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAATATGTGATAAG
25759417 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
47 94 0.45
48 2 0.01
49 112 0.54
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (48 bp):
GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
Found at i:25759331 original size:47 final size:47
Alignment explanation
Indices: 25759145--25759416 Score: 346
Period size: 47 Copynumber: 5.7 Consensus size: 47
25759135 GATTTTACGC
* *
25759145 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGT
*
25759194 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
25759243 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
25759292 GATGAATGTGAAGGTGTATATATGTGAGAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
25759339 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
25759386 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
25759417 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
47 100 0.49
48 3 0.01
49 96 0.47
50 2 0.01
51 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:25761584 original size:40 final size:40
Alignment explanation
Indices: 25761540--25761744 Score: 365
Period size: 40 Copynumber: 5.1 Consensus size: 40
25761530 GAGAATTGAG
25761540 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
25761580 AGTGATGTATCCGGACTGAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
25761620 AGTGATGTATCCGGACTAAGTTCAGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
25761660 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
25761700 AGTGATGTATCCGGACTAGGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
25761740 GGTGA
1 AGTGA
25761745 CGTGTATTCG
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 158 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:25762053 original size:14 final size:14
Alignment explanation
Indices: 25762034--25762062 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25762024 AATTCATGTA
25762034 AGACCTCGTCTGGG
1 AGACCTCGTCTGGG
25762048 AGACCTCGTCTGGG
1 AGACCTCGTCTGGG
25762062 A
1 A
25762063 CGAAGGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (14 bp):
AGACCTCGTCTGGG
Found at i:25765408 original size:93 final size:93
Alignment explanation
Indices: 25765296--25765467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25765286 CGCCCATAAG
* *
25765296 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25765361 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
25765389 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25765454 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
25765468 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:25765464 original size:46 final size:46
Alignment explanation
Indices: 25765289--25765464 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
25765279 TGTAACCCGC
* * *
25765289 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
25765335 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
25765385 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
25765428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
25765465 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25772838 original size:93 final size:93
Alignment explanation
Indices: 25772726--25772897 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25772716 CGCCCATAAG
* *
25772726 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25772791 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
25772819 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25772884 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
25772898 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:25772894 original size:46 final size:46
Alignment explanation
Indices: 25772719--25772894 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
25772709 TGTAACCCGC
* * *
25772719 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
25772765 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
25772815 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
25772858 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
25772895 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25775338 original size:28 final size:28
Alignment explanation
Indices: 25775306--25775362 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25775296 TTTGCCATGA
25775306 TGGGTTATAAAGATTGGATTGCAGTCCT
1 TGGGTTATAAAGATTGGATTGCAGTCCT
25775334 TGGGTTATAAAGATTGGATTGCAGTCCT
1 TGGGTTATAAAGATTGGATTGCAGTCCT
25775362 T
1 T
25775363 ACCTTCCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.37
Consensus pattern (28 bp):
TGGGTTATAAAGATTGGATTGCAGTCCT
Found at i:25779986 original size:22 final size:24
Alignment explanation
Indices: 25779970--25780020 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
25779960 TAGCTCGTAT
25779970 GAGCTTCCC-ATT-CAGCTCAATA
1 GAGCTTCCCAATTCCAGCTCAATA
*
25779992 GAGCTTCCCAATTCCAGCTCAATT
1 GAGCTTCCCAATTCCAGCTCAATA
25780016 GAGCT
1 GAGCT
25780021 CACTGTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
23 3 0.12
24 14 0.54
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (24 bp):
GAGCTTCCCAATTCCAGCTCAATA
Found at i:25781961 original size:18 final size:18
Alignment explanation
Indices: 25781938--25781976 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25781928 AAAGCGTAAA
* *
25781938 TGAGGAAGAAGATGCAGC
1 TGAGGAAAAAGAGGCAGC
*
25781956 TGAGGAAAAAGGGGCAGC
1 TGAGGAAAAAGAGGCAGC
25781974 TGA
1 TGA
25781977 TGTAGTTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.41, T:0.10
Consensus pattern (18 bp):
TGAGGAAAAAGAGGCAGC
Found at i:25787065 original size:45 final size:46
Alignment explanation
Indices: 25786946--25787065 Score: 172
Period size: 45 Copynumber: 2.7 Consensus size: 46
25786936 ATCCATAATA
*
25786946 AACTCGGACCAACTCAACGAGCTCGGA-TGCTTCACATATATCACG
1 AACTCGGACCAACTCAACGAGCTCGGATTTCTTCACATATATCACG
* * * * *
25786991 AACTTGGACCAACTAAACAAGTTCAGATTTC-TCACATATATCACG
1 AACTCGGACCAACTCAACGAGCTCGGATTTCTTCACATATATCACG
25787036 AACTCGGACCAACTCAACGAGCTCGGATTT
1 AACTCGGACCAACTCAACGAGCTCGGATTT
25787066 TCTAAATTCC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 61 0.97
46 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (46 bp):
AACTCGGACCAACTCAACGAGCTCGGATTTCTTCACATATATCACG
Found at i:25790596 original size:40 final size:41
Alignment explanation
Indices: 25790502--25790610 Score: 168
Period size: 40 Copynumber: 2.7 Consensus size: 41
25790492 TACTCGAATG
*
25790502 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
25790543 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
25790583 ATATCCGGGCTAAGTCCCGAAGGCATTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT
25790611 ATCATATCCG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 31 0.51
41 28 0.46
42 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:25793625 original size:45 final size:44
Alignment explanation
Indices: 25793572--25793660 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 44
25793562 ATGTTTGATG
*
25793572 GAAGATTATGAATCCTTGTTGTTAAATAAACAAGTTTTGTAAATA
1 GAAGATTATGAATCCTTGTTGTTAAATAAACAAGTTGT-TAAATA
25793617 GAAGATTATGAATCCTTGTTGTTAAATAAACAAGTTGTTAAATA
1 GAAGATTATGAATCCTTGTTGTTAAATAAACAAGTTGTTAAATA
25793661 AACAAGTAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 6 0.14
45 37 0.86
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (44 bp):
GAAGATTATGAATCCTTGTTGTTAAATAAACAAGTTGTTAAATA
Found at i:25793655 original size:16 final size:16
Alignment explanation
Indices: 25793634--25793667 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
25793624 ATGAATCCTT
25793634 GTTGTTAAATAAACAA
1 GTTGTTAAATAAACAA
25793650 GTTGTTAAATAAACAA
1 GTTGTTAAATAAACAA
25793666 GT
1 GT
25793668 AGTAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (16 bp):
GTTGTTAAATAAACAA
Found at i:25793675 original size:16 final size:16
Alignment explanation
Indices: 25793640--25793675 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25793630 CCTTGTTGTT
* *
25793640 AAATAAACAAGTTGTT
1 AAATAAACAAGTAGTA
25793656 AAATAAACAAGTAGTA
1 AAATAAACAAGTAGTA
25793672 AAAT
1 AAAT
25793676 TCCATGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (16 bp):
AAATAAACAAGTAGTA
Found at i:25811296 original size:29 final size:30
Alignment explanation
Indices: 25811264--25811424 Score: 134
Period size: 29 Copynumber: 5.5 Consensus size: 30
25811254 GATTTAAGCC
* *
25811264 CGCACACATAGTGCCATACCCTTCGAGC-T
1 CGCACACATAGTGCCATACACTTCCAGCAT
** * *
25811293 CGCACACCCAGTGCCGTATACTTCCAGCAT
1 CGCACACATAGTGCCATACACTTCCAGCAT
* * *
25811323 -GCACACTTAGTGCCATATATTTCCAGCAT
1 CGCACACATAGTGCCATACACTTCCAGCAT
* * *
25811352 -GCACACTTAGTGCCATATATTTCCAGCAT
1 CGCACACATAGTGCCATACACTTCCAGCAT
* * * *
25811381 -GCACACTTAGTGCCATATATTTCCAACAT
1 CGCACACATAGTGCCATACACTTCCAGCAT
*
25811410 -GCACACTTAGTGCCA
1 CGCACACATAGTGCCA
25811425 ATCTCGTCAC
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
29 119 0.99
30 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (30 bp):
CGCACACATAGTGCCATACACTTCCAGCAT
Found at i:25811327 original size:58 final size:58
Alignment explanation
Indices: 25811265--25811424 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
25811255 ATTTAAGCCC
* * * *
25811265 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATACTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATACTTCCAGCAT
* * ** *
25811323 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATACTTCCAGCAT
* * * **
25811381 GCACACTTAGTGCCATATATTTCCAACATGCACACTTAGTGCCA
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCA
25811425 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 90 0.99
59 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATACTTCCAGCAT
Found at i:25811356 original size:87 final size:87
Alignment explanation
Indices: 25811265--25811424 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
25811255 ATTTAAGCCC
* * * *
25811265 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATACTTCCAGCATGCACAC
1 GCACACATAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATACTTCCAACATGCACAC
25811329 TTAGTGCCATATATTTCCAGCAT
65 TTAGTGCCATATATTTCCAGCAT
* * * ** *
25811352 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAACATGCACACT
1 GCACACATAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATACTTCCAACATGCACACT
25811417 TAGTGCCA
66 TAGTGCCA
25811425 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
87 61 0.98
88 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (87 bp):
GCACACATAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATACTTCCAACATGCACACT
TAGTGCCATATATTTCCAGCAT
Found at i:25819219 original size:40 final size:40
Alignment explanation
Indices: 25819111--25819320 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25819101 CGGGATTTAA
* * * * *
25819111 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25819151 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25819191 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25819231 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25819271 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25819311 CCGGATATAT
1 CCGGATATAT
25819321 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25827486 original size:40 final size:40
Alignment explanation
Indices: 25827441--25827605 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
25827431 CGGAATATAA
25827441 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25827481 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25827521 CCGG--ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25827559 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25827598 CCGGATAT
1 CCGGATAT
25827606 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.29
39 14 0.14
40 59 0.57
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25827589 original size:78 final size:77
Alignment explanation
Indices: 25827457--25827604 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
25827447 ATAATCACGT
*
25827457 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
25827522 CGGATAGCCACTA
65 CGGATAGCCACTA
* * ** * *
25827535 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
25827598 CCGGATA
64 CCGGATA
25827605 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 16 0.26
78 45 0.74
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAGCCACTA
Found at i:25850198 original size:9 final size:9
Alignment explanation
Indices: 25850186--25850224 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
25850176 CCATACAAAA
*
25850186 CATGTATTT
1 CATGTATTC
25850195 CATGTATTC
1 CATGTATTC
*
25850204 CATGCATTC
1 CATGTATTC
*
25850213 CATGTGTTC
1 CATGTATTC
25850222 CAT
1 CAT
25850225 ACAAAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (9 bp):
CATGTATTC
Found at i:25850216 original size:18 final size:18
Alignment explanation
Indices: 25850195--25850252 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
25850185 ACATGTATTT
*
25850195 CATGTATTCCATGCATTC
1 CATGTATTCCATGCAATC
* * **
25850213 CATGTGTTCCATACAAAA
1 CATGTATTCCATGCAATC
* *
25850231 CATGTATTTCATGCACTC
1 CATGTATTCCATGCAATC
25850249 CATG
1 CATG
25850253 CGTGCCATAC
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (18 bp):
CATGTATTCCATGCAATC
Found at i:25850267 original size:45 final size:45
Alignment explanation
Indices: 25850159--25850269 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
25850149 CGAGTTTGGG
* * *
25850159 CATGCACT-CCATACATTCCATACAAAACATGTATTTCATGTATTC
1 CATGCA-TGCCATACGTTCCATACAAAACATGTATTTCATGCACTC
* **
25850204 CATGCATTCCATGTGTTCCATACAAAACATGTATTTCATGCACTC
1 CATGCATGCCATACGTTCCATACAAAACATGTATTTCATGCACTC
*
25850249 CATGCGTGCCATACGTTCCAT
1 CATGCATGCCATACGTTCCAT
25850270 GCATTTCATG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (45 bp):
CATGCATGCCATACGTTCCATACAAAACATGTATTTCATGCACTC
Found at i:25855076 original size:93 final size:93
Alignment explanation
Indices: 25854964--25855135 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25854954 GCCCATAAGT
* *
25854964 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25855029 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25855057 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25855122 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25855136 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25855131 original size:46 final size:46
Alignment explanation
Indices: 25854956--25855131 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
25854946 TGTAACCCGC
* * *
25854956 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
25855002 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
25855052 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
25855095 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25855132 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:25857090 original size:30 final size:30
Alignment explanation
Indices: 25857046--25857134 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
25857036 CAAAGATAAC
25857046 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
25857075 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
25857105 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
25857135 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:25857094 original size:15 final size:15
Alignment explanation
Indices: 25857046--25857125 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
25857036 CAAAGATAAC
*
25857046 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
25857060 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
25857075 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
25857090 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
25857105 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
25857120 AAGAAA
1 AAGAAA
25857126 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:25857134 original size:15 final size:15
Alignment explanation
Indices: 25857057--25857134 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
25857047 AGAAAACCGA
25857057 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
25857072 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
25857086 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
25857101 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
25857117 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25857132 ATA
1 ATA
25857135 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25860196 original size:93 final size:93
Alignment explanation
Indices: 25860084--25860255 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25860074 GCCCATAAGT
* *
25860084 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25860149 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25860177 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25860242 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25860256 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25860251 original size:46 final size:46
Alignment explanation
Indices: 25860076--25860251 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
25860066 TGTAACCCGC
* * *
25860076 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
25860122 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
25860172 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
25860215 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25860252 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:25864566 original size:1 final size:1
Alignment explanation
Indices: 25864560--25864584 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
25864550 CATAAAAGCC
25864560 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
25864585 CAATCGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:25865523 original size:18 final size:18
Alignment explanation
Indices: 25865502--25865559 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
25865492 AATTTGGAAT
25865502 TTTTATAAATATTTTT-AA
1 TTTTA-AAATATTTTTGAA
*
25865520 TTTTAAAATTTTTTTGAA
1 TTTTAAAATATTTTTGAA
25865538 TTTTTGAAAAT-TATTTTGAA
1 -TTTT-AAAATAT-TTTTGAA
25865558 TT
1 TT
25865560 ATTTTATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 9 0.26
18 7 0.20
19 7 0.20
20 12 0.34
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTAAAATATTTTTGAA
Found at i:25865528 original size:17 final size:19
Alignment explanation
Indices: 25865502--25865541 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
25865492 AATTTGGAAT
25865502 TTTTATAAATATTTTT-AA
1 TTTTATAAATATTTTTGAA
*
25865520 TTTTA-AAATTTTTTTGAA
1 TTTTATAAATATTTTTGAA
25865538 TTTT
1 TTTT
25865542 TGAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAAATATTTTTGAA
Found at i:25874140 original size:16 final size:17
Alignment explanation
Indices: 25874107--25874158 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
25874097 TTTCCCTTCA
* *
25874107 TTTCCTTTTCTTCTCTT
1 TTTCTTTTTCCTCTCTT
25874124 TTTCTTTTTCCTC-CTT
1 TTTCTTTTTCCTCTCTT
* *
25874140 TCTATTTTTCCTTCTCTT
1 TTTCTTTTTCC-TCTCTT
25874158 T
1 T
25874159 GAATACTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 12 0.41
17 13 0.45
18 4 0.14
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTTTTTCCTCTCTT
Found at i:25874960 original size:2 final size:2
Alignment explanation
Indices: 25874953--25874982 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25874943 CTATCAATAC
25874953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25874983 TTGTAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25879210 original size:169 final size:169
Alignment explanation
Indices: 25878931--25879270 Score: 644
Period size: 169 Copynumber: 2.0 Consensus size: 169
25878921 TGACAAAGTA
*
25878931 TTGTCATTGACATAGGGATGTCAAAATCAATACATGAGTATGTGTTAGAGAACAACATACTGGAC
1 TTGTCATTAACATAGGGATGTCAAAATCAATACATGAGTATGTGTTAGAGAACAACATACTGGAC
* *
25878996 TAAGGGCTTGTTTCGTAGTGCTTAAAAAAACACTTTTGGCCCCAAAAGCATTTTTGAAAGAAAAG
66 TAAGGGCTTGTTACGTAGTGCTTAAAAAAACACTTTTAGCCCCAAAAGCATTTTTGAAAGAAAAG
25879061 TTGTGCTAAACAAACTGCTTTTCATTGAGATTTTTTACT
131 TTGTGCTAAACAAACTGCTTTTCATTGAGATTTTTTACT
25879100 TTGTCATTAACATAGGGATGTCAAAATCAATACATGAGTATGTGTTAGAGAACAACATACTGGAC
1 TTGTCATTAACATAGGGATGTCAAAATCAATACATGAGTATGTGTTAGAGAACAACATACTGGAC
25879165 TAAGGGCTTGTTACGTAGTGCTTAAAAAAACACTTTTAGCCCCAAAAGCATTTTTGAAAGAAAAG
66 TAAGGGCTTGTTACGTAGTGCTTAAAAAAACACTTTTAGCCCCAAAAGCATTTTTGAAAGAAAAG
*
25879230 TTGTGCTAAACAAGCTGCTTTTCATTGAGATTTTTTACT
131 TTGTGCTAAACAAACTGCTTTTCATTGAGATTTTTTACT
25879269 TT
1 TT
25879271 TTAGAAGTAC
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 167 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (169 bp):
TTGTCATTAACATAGGGATGTCAAAATCAATACATGAGTATGTGTTAGAGAACAACATACTGGAC
TAAGGGCTTGTTACGTAGTGCTTAAAAAAACACTTTTAGCCCCAAAAGCATTTTTGAAAGAAAAG
TTGTGCTAAACAAACTGCTTTTCATTGAGATTTTTTACT
Done.