Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 405 of 770
Found at i:124423293 original size:37 final size:37
Alignment explanation
Indices: 124423234--124423379 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
124423224 AGCTCAGATG
* *
124423234 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
124423271 AAATCTCCACACGTAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
124423308 TAGTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
124423345 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
124423380 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:124423579 original size:48 final size:48
Alignment explanation
Indices: 124423525--124423917 Score: 669
Period size: 48 Copynumber: 8.1 Consensus size: 48
124423515 ACACATCGCC
*
124423525 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
124423573 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
124423623 TATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
124423671 TACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
124423719 TACATATTTCACATCAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
124423767 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
124423815 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
124423865 TATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
124423913 TACAT
1 TACAT
124423918 CAATTTCCTC
Statistics
Matches: 327, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
48 234 0.72
50 93 0.28
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:124423650 original size:98 final size:96
Alignment explanation
Indices: 124423528--124423914 Score: 666
Period size: 98 Copynumber: 4.0 Consensus size: 96
124423518 CATCGCCTAC
*
124423528 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
124423593 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTC--ATAT
* *
124423626 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATACTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
124423691 TTCGGCTTTACCACATATACATATCTCATAC
66 TTCGGCTTTACCACATATACATATCTCATAT
* *
124423722 ATATTTCACATCAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
124423787 TTCGGCTTTACCACATATACATATCTCATAT
66 TTCGGCTTTACCACATATACATATCTCATAT
*
124423818 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
124423883 CATTCGACTTTACCACATATACATATCTCATA
64 CATTCGGCTTTACCACATATACATATCTCATA
124423915 CATCAATTTC
Statistics
Matches: 274, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
96 136 0.50
98 138 0.50
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (96 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATAT
Found at i:124423753 original size:194 final size:193
Alignment explanation
Indices: 124423525--124423917 Score: 691
Period size: 194 Copynumber: 2.0 Consensus size: 193
124423515 ACACATCGCC
124423525 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
124423590 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTC--ATATATATTTCACATTAACCATTCGGCTTTACC
*
124423655 ACATATACATATCTC-ATACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
129 ACATATACATATCTCAATACATACTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
*
124423719 TACATATTTCACA-TCAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTA
1 TACATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
*
124423783 GCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCA
65 GCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAACCATTCGGCTTTACCA
* *
124423848 CATATACATATCTCATATATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
130 CATATACATATCTCA-ATACATACTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
124423913 TACAT
1 TACAT
124423918 CAATTTCCTC
Statistics
Matches: 191, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
192 47 0.25
193 1 0.01
194 143 0.75
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (193 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAACCATTCGGCTTTACCAC
ATATACATATCTCAATACATACTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
Found at i:124431759 original size:15 final size:17
Alignment explanation
Indices: 124431741--124431779 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
124431731 ATCACAAAAT
*
124431741 ACACCAAACTTCCATAC
1 ACACTAAACTTCCATAC
*
124431758 ACACTTAACTTCCATAC
1 ACACTAAACTTCCATAC
124431775 ACACT
1 ACACT
124431780 TGCTTAGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (17 bp):
ACACTAAACTTCCATAC
Found at i:124431785 original size:21 final size:17
Alignment explanation
Indices: 124431747--124431780 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
124431737 AAATACACCA
124431747 AACTTCCATACACACTT
1 AACTTCCATACACACTT
124431764 AACTTCCATACACACTT
1 AACTTCCATACACACTT
124431781 GCTTAGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (17 bp):
AACTTCCATACACACTT
Found at i:124433477 original size:31 final size:31
Alignment explanation
Indices: 124433430--124433510 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
124433420 TTTAACGATT
124433430 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
124433461 ACTGAGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
124433492 ACTGGGCCGAAGCCTTTTC
1 ACTGGGCCGAAGCCTTTTC
124433511 TGTAAACGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:124433610 original size:42 final size:42
Alignment explanation
Indices: 124433533--124433623 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
124433523 GGCCCATAGG
* *** *
124433533 CCCATTTCAATATCACATGTAATGTTAATGGATGTAAGCAAA
1 CCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAAA
* *
124433575 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAAA
124433617 CCCATTT
1 CCCATTT
124433624 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAAA
Found at i:124433813 original size:26 final size:26
Alignment explanation
Indices: 124433768--124433918 Score: 214
Period size: 26 Copynumber: 5.8 Consensus size: 26
124433758 CCTCTTTAAT
* *
124433768 AACTGGGGCA-AAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
124433793 AGCTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTTCGATA
* *
124433820 AACTAGGGCATAAGCCCTTTTTGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
124433846 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
124433872 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
124433898 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
124433919 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
25 9 0.08
26 80 0.72
27 22 0.20
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:124436002 original size:40 final size:40
Alignment explanation
Indices: 124435957--124436086 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
124435947 CGGAATGCAA
*
124435957 CCGGATATAACCA-TGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACGAATGCCTTCGGGTCTTAGC
* ** *
124435997 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
124436037 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
124436077 CCGGATATAA
1 CCGGATATAA
124436087 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:124436101 original size:40 final size:40
Alignment explanation
Indices: 124435980--124436124 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
124435970 TGTGCACGAA
* *
124435980 TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATATAATCAC-CAGCAC-AAT
* ** *
124436020 TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* ** *
124436060 TGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* *
124436100 TGTCTTCGGGGCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
124436125 CATTCAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 2 0.02
40 84 0.98
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
Found at i:124443975 original size:40 final size:40
Alignment explanation
Indices: 124443930--124444096 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
124443920 CGGAATATAA
*
124443930 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
124443970 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
124444010 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
124444050 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
124444089 CCGGATAT
1 CCGGATAT
124444097 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:124446827 original size:40 final size:39
Alignment explanation
Indices: 124446716--124446866 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
124446706 TATAACATGT
* ** *
124446716 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
124446756 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
124446796 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
124446836 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
124446867 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:124446850 original size:80 final size:79
Alignment explanation
Indices: 124446716--124446866 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
124446706 TATAACATGT
*
124446716 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
124446781 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
124446796 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
124446859 CCGGATAT
64 CCGGATAT
124446867 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:124454803 original size:80 final size:79
Alignment explanation
Indices: 124454701--124454890 Score: 213
Period size: 80 Copynumber: 2.4 Consensus size: 79
124454691 ATAAGCATGT
** * *
124454701 GCACAAATGCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAA-TGCCTTCGGGTCTTAGCC
1 GCACAAATGCTTCGGGTCTTAGCCCGGATAGAACCACTAGCAC-AATTGCCTTCGGGTCTTAACC
124454765 CGGATAGAATGACTC
65 CGGATAGAATGACTC
* * *
124454780 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATG-CTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAATTGCCTTCGGGTCTTAACC
* **
124454845 CGGATATAATTTC-C
65 CGGATAGAATGACTC
* * *
124454859 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAAATG-CTTCGGGTCTTAGCCCGGATA
124454891 TCATTCAATT
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
79 11 0.12
80 82 0.88
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (79 bp):
GCACAAATGCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAATTGCCTTCGGGTCTTAACCC
GGATAGAATGACTC
Found at i:124454852 original size:40 final size:40
Alignment explanation
Indices: 124454701--124454850 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
124454691 ATAAGCATGT
*
124454701 GCACAAATG-CTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
124454740 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
* *** *
124454780 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
*
124454820 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
124454851 TAATTTCCAG
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 10 0.10
40 92 0.90
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
Found at i:124454868 original size:40 final size:40
Alignment explanation
Indices: 124454701--124454891 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
124454691 ATAAGCATGT
* * *
124454701 GCACAAATG-CTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* *
124454740 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
124454780 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
124454820 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
124454860 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
124454892 CATTCAATTT
Statistics
Matches: 133, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 8 0.06
40 125 0.94
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:124462165 original size:46 final size:46
Alignment explanation
Indices: 124462098--124462272 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
124462088 AACTCGCCCC
* *
124462098 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
* * * *
124462144 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA
* * * **
124462190 TTTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
124462237 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
124462273 CTCAACCATC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.64
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
Found at i:124462211 original size:93 final size:93
Alignment explanation
Indices: 124462103--124462273 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
124462093 GCCCCTAAGT
* ***
124462103 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
124462168 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
124462196 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
124462261 CGAGTTCGGATGC
66 CGAGTTCGGATGC
124462274 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:124465845 original size:28 final size:28
Alignment explanation
Indices: 124465808--124465886 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
124465798 GCAATCAAAT
* *
124465808 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
124465836 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
124465864 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
124465887 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:124467931 original size:29 final size:29
Alignment explanation
Indices: 124467892--124468104 Score: 191
Period size: 29 Copynumber: 7.4 Consensus size: 29
124467882 CCGTAATCGA
124467892 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * **** *
124467921 GCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
124467949 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* ****
124467978 GCACTGTGTGTGCGAGTTC-GTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
124468005 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * **** *
124468034 GCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
124468062 GCACTGTGTGTGCAAGATCGGTTGTTGGG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
124468091 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
124468105 AAATGAGATC
Statistics
Matches: 138, Mismatches: 40, Indels: 10
0.73 0.21 0.05
Matches are distributed among these distances:
27 18 0.13
28 49 0.36
29 64 0.46
31 7 0.05
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:124467931 original size:57 final size:57
Alignment explanation
Indices: 124467862--124468104 Score: 407
Period size: 57 Copynumber: 4.2 Consensus size: 57
124467852 AAGTGAACAT
* * *
124467862 AGGCACTGTGTGTGTGAGTTCCGTAATCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
124467919 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
*
124467976 AGGCACTGTGTGTGCGAGTT-CGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
*
124468032 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
*
124468089 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
124468105 AAATGAGATC
Statistics
Matches: 176, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
56 55 0.31
57 114 0.65
59 7 0.04
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:124468061 original size:113 final size:114
Alignment explanation
Indices: 124467862--124468104 Score: 425
Period size: 113 Copynumber: 2.1 Consensus size: 114
124467852 AAGTGAACAT
* *
124467862 AGGCACTGTGTGTGTGAGTTCCGTAATCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
*
124467927 TGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
66 TGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
124467976 AGGCACTGTGTGTGCGAGTT-CGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
124468040 TGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
66 TGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
*
124468089 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
124468105 AAATGAGATC
Statistics
Matches: 123, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
113 97 0.79
114 19 0.15
115 7 0.06
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (114 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
TGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
Found at i:124473072 original size:28 final size:28
Alignment explanation
Indices: 124473035--124473113 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
124473025 GCAATCAAAT
* *
124473035 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
124473063 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
124473091 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
124473114 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:124475906 original size:24 final size:24
Alignment explanation
Indices: 124475855--124476020 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
124475845 GCTTTATCAT
*
124475855 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
124475880 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
124475904 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
124475927 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
124475951 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
124475975 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
124475998 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
124476021 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 45 0.34
24 76 0.57
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:124475955 original size:71 final size:71
Alignment explanation
Indices: 124475855--124476021 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
124475845 GCTTTATCAT
* *
124475855 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
124475919 GCCCTTTA
64 GCCCTTTA
* *
124475927 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
124475992 CCTTTA
66 CCTTTA
124475998 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
124476022 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 78 0.87
72 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:124476021 original size:47 final size:48
Alignment explanation
Indices: 124475855--124476020 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
124475845 GCTTTATCAT
* *
124475855 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
124475904 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
124475951 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
124475998 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
124476021 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
47 71 0.65
48 27 0.25
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:124476092 original size:9 final size:9
Alignment explanation
Indices: 124476078--124476134 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
124476068 ATCTCATGTG
124476078 CATATCATA
1 CATATCATA
*
124476087 CATATCATGTG
1 CATATCA--TA
124476098 CATATCATA
1 CATATCATA
* *
124476107 CATGTCATGTG
1 CATATCA--TA
124476118 CATATCATA
1 CATATCATA
124476127 CATATCAT
1 CATATCAT
124476135 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:124476094 original size:20 final size:20
Alignment explanation
Indices: 124476066--124476136 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
124476056 GCATTTATGA
*
124476066 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
124476086 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
124476106 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
124476126 ACATATCATGT
1 ACATATCATGT
124476137 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:124476101 original size:11 final size:11
Alignment explanation
Indices: 124476071--124476125 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
124476061 TATGAACATC
124476071 TCATGTGCATA
1 TCATGTGCATA
*
124476082 TCA--TACATA
1 TCATGTGCATA
124476091 TCATGTGCATA
1 TCATGTGCATA
* *
124476102 TCA--TACATG
1 TCATGTGCATA
124476111 TCATGTGCATA
1 TCATGTGCATA
124476122 TCAT
1 TCAT
124476126 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:124476201 original size:25 final size:25
Alignment explanation
Indices: 124476173--124476220 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
124476163 ATATATAAAC
* *
124476173 CCTAAGGGTATAATGGTCATTTTGA
1 CCTAAGGGCAAAATGGTCATTTTGA
*
124476198 CCTAGGGGCAAAATGGTCATTTT
1 CCTAAGGGCAAAATGGTCATTTT
124476221 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAATGGTCATTTTGA
Found at i:124477375 original size:27 final size:27
Alignment explanation
Indices: 124477345--124477565 Score: 302
Period size: 27 Copynumber: 8.2 Consensus size: 27
124477335 TGTAAATTAG
124477345 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
124477372 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
*
124477399 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
124477426 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
124477453 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
124477480 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
*
124477507 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
124477534 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
124477561 GGGTA
1 GGGTA
124477566 TTTCAATAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 168 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:124477575 original size:27 final size:27
Alignment explanation
Indices: 124477544--124477739 Score: 186
Period size: 27 Copynumber: 7.3 Consensus size: 27
124477534 GGGTAAAACG
* *
124477544 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCTAGGGTATTTTA
* ** * *
124477571 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCTAGGGTATTTTA
* *
124477598 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCTA-GGGTATTTTA
124477625 GTAATTTTACAAA-CTAGGGGTATTTT-
1 GTAATTTTACAAATCTA-GGGTATTTTA
*
124477651 GATAATTTTACAAA-CTAGGGGTATTTTG
1 G-TAATTTTACAAATCTA-GGGTATTTTA
* * *
124477679 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCTAGGGTATTTTA
* *
124477706 GTAATTTTACAAAGC-AGGGTATTTTG
1 GTAATTTTACAAATCTAGGGTATTTTA
124477732 GTAATTTT
1 GTAATTTT
124477740 GTAAACCAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.14
27 124 0.84
28 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCTAGGGTATTTTA
Found at i:124477753 original size:26 final size:26
Alignment explanation
Indices: 124477616--124477756 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
124477606 ACAAATTAGG
* * *
124477616 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
124477643 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
124477670 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
124477696 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
124477723 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
124477749 AGTATTTT
1 GGTATTTT
124477757 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:124480488 original size:13 final size:13
Alignment explanation
Indices: 124480470--124480495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124480460 ATATTATAAT
124480470 TATTTTATGTTAA
1 TATTTTATGTTAA
124480483 TATTTTATGTTAA
1 TATTTTATGTTAA
124480496 AAATAAAATA
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:124488515 original size:13 final size:13
Alignment explanation
Indices: 124488497--124488522 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124488487 ATATTATAAT
124488497 TATTTTATGTTAA
1 TATTTTATGTTAA
124488510 TATTTTATGTTAA
1 TATTTTATGTTAA
124488523 AAATAAAATA
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:124490122 original size:40 final size:40
Alignment explanation
Indices: 124490099--124490219 Score: 206
Period size: 40 Copynumber: 3.0 Consensus size: 40
124490089 TTGTGCTAGC
*
124490099 TATTATAACCGGGTTAAGTTCCGAAGGCATTCGTGCGGGT
1 TATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGT
*
124490139 TATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGAGGGT
1 TATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGT
* *
124490179 TATTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 TATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGT
124490219 T
1 T
124490220 GTTACATCCG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGT
Found at i:124495616 original size:93 final size:93
Alignment explanation
Indices: 124495503--124495673 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
124495493 GCCCCTAAGT
*
124495503 GAACTCGGTCTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
124495567 ACGAGTTCGAATGCCTAGTTACATTTCAC
65 ACGAGTTCGAATGCCTAGTTACATTTCAC
*
124495596 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
124495661 CGAGTTCGGATGC
66 CGAGTTCGAATGC
124495674 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATTTCAC
Found at i:124495668 original size:46 final size:46
Alignment explanation
Indices: 124495498--124495670 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
124495488 AACCTGCCCC
* *
124495498 TAAGTGAACTCGGTCTCAACTCAACGAGCTCAGG-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* *
124495544 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
124495590 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
124495637 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
124495671 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 2 0.02
46 61 0.57
47 29 0.27
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:124496125 original size:30 final size:30
Alignment explanation
Indices: 124496091--124496150 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
124496081 ATTTAATACG
124496091 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
124496121 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
124496151 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:124504538 original size:29 final size:29
Alignment explanation
Indices: 124504505--124504578 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
124504495 GTGACGAGAT
124504505 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
124504534 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
124504563 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
124504579 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:124504594 original size:29 final size:29
Alignment explanation
Indices: 124504562--124504637 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
124504552 CTGGAAATAT
* *
124504562 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
124504591 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
124504620 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
124504638 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:124504605 original size:58 final size:58
Alignment explanation
Indices: 124504505--124504637 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
124504495 GTGACGAGAT
* * * * * *
124504505 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
124504563 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
124504621 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
124504638 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:124517163 original size:29 final size:28
Alignment explanation
Indices: 124517131--124517233 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
124517121 GTGACGAGAT
* *
124517131 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* * *
124517160 TGGCACTAAGTGTGCAAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
124517189 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
124517218 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
124517234 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:124522828 original size:13 final size:13
Alignment explanation
Indices: 124522789--124522852 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 13
124522779 GATTTTTCCA
*
124522789 AAATATTATCACT
1 AAATATAATCACT
124522802 -AA-ATAATC-CT
1 AAATATAATCACT
124522812 AAATATAATCACT
1 AAATATAATCACT
*
124522825 -AA-ATAAT-TCT
1 AAATATAATCACT
*
124522835 AAATATTATCACT
1 AAATATAATCACT
124522848 AAATA
1 AAATA
124522853 ATTCAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 4 0.10
11 14 0.34
12 14 0.34
13 9 0.22
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATAATCACT
Found at i:124522855 original size:23 final size:23
Alignment explanation
Indices: 124522789--124522861 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
124522779 GATTTTTCCA
*
124522789 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATTCT
*
124522812 AAATATAATCACTAAATAATTCT
1 AAATATTATCACTAAATAATTCT
*
124522835 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCT
124522858 AAAT
1 AAAT
124522862 TTAAAAATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCT
Found at i:124529491 original size:42 final size:42
Alignment explanation
Indices: 124529424--124529569 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 42
124529414 ATGTGTAGGG
* *
124529424 CCATATCT-GGATATGGAATCTATATGAGACTTCATGTAAGA
1 CCATATCTGGGATATGGCATCGATATGAGACTTCATGTAAGA
* ** *
124529465 CCGTATCTGGGATATGGCATCGATATGAGACTTTGTGTAGGA
1 CCATATCTGGGATATGGCATCGATATGAGACTTCATGTAAGA
* * * *
124529507 CCATAACTGGGATATTGGCATCGACACGAGA-TCCCATGTAAGA
1 CCATATCTGGGATA-TGGCATCGATATGAGACT-TCATGTAAGA
* **
124529550 CTATAAATGGGATATGGCAT
1 CCATATCTGGGATATGGCAT
124529570 TAGTCTGGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 7 0.08
42 47 0.55
43 32 0.37
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
CCATATCTGGGATATGGCATCGATATGAGACTTCATGTAAGA
Found at i:124537028 original size:42 final size:42
Alignment explanation
Indices: 124536975--124537124 Score: 176
Period size: 42 Copynumber: 3.5 Consensus size: 42
124536965 TAAGACTATG
* * * *
124536975 TGTAAGGCCATATATGGGATATGGCATCTATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCA
*
124537017 TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCA
* * * * * *
124537059 TGTAAGACCATAGCTGGGCTATTGACATCGAGACGAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGACATCAATATGAGACT-TCA
124537102 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
124537125 GCATTGGTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCA
Found at i:124541080 original size:14 final size:14
Alignment explanation
Indices: 124541061--124541092 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
124541051 TGGAAAAATA
*
124541061 AATAAATCTATAAT
1 AATAAATCTATAAC
124541075 AATAAATCTATAAC
1 AATAAATCTATAAC
124541089 AATA
1 AATA
124541093 CTTAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAATCTATAAC
Found at i:124542575 original size:2 final size:2
Alignment explanation
Indices: 124542568--124542610 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
124542558 TTTCTTTTGC
124542568 TA TA TA TA TA TA 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 TA TA TA TA TA TA
124542610 T
1 T
124542611 TTTAAATTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124542801 original size:2 final size:2
Alignment explanation
Indices: 124542794--124542830 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
124542784 TGTTTTGTGT
124542794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124542831 TTGTGAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124543047 original size:22 final size:22
Alignment explanation
Indices: 124543009--124543055 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
124542999 GATTTACTAA
124543009 TTTAATTATAAATAATT-TTAAT
1 TTTAATTATAAATAATTATT-AT
*
124543031 TTTAATTAT-ATTAAATTATTAT
1 TTTAATTATAAAT-AATTATTAT
124543053 TTT
1 TTT
124543056 CACATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.09
22 18 0.82
23 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTAATTATAAATAATTATTAT
Found at i:124544005 original size:13 final size:14
Alignment explanation
Indices: 124543989--124544024 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
124543979 CAATCTCATA
124543989 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
124544002 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
124544015 TCTC-ATTTCA
1 TCTCAATTTCA
124544025 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:124544007 original size:26 final size:25
Alignment explanation
Indices: 124543969--124544031 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
124543959 AACCTTTTGG
*
124543969 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
124543996 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
124544021 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
124544032 AGCTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:124544014 original size:18 final size:19
Alignment explanation
Indices: 124543976--124544016 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
124543966 TGGTTCATAT
124543976 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
124543995 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
124544013 TTTC
1 TTTC
124544017 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:124544206 original size:39 final size:40
Alignment explanation
Indices: 124544163--124544274 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
124544153 TCGGATAGTT
* *
124544163 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
124544202 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
124544241 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
124544275 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:124544539 original size:18 final size:19
Alignment explanation
Indices: 124544513--124544551 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
124544503 TTTCAATTCA
124544513 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
124544532 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
124544550 AT
1 AT
124544552 ATCTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:124545872 original size:5 final size:5
Alignment explanation
Indices: 124545862--124545913 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
124545852 TTACTTATTT
* *
124545862 ATATA ATATAA TATATA ATATA ATA-A CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
124545909 ATATA
1 ATATA
124545914 TATTTTAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 3 0.08
5 25 0.64
6 7 0.18
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:124545878 original size:14 final size:13
Alignment explanation
Indices: 124545862--124545903 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
124545852 TTACTTATTT
124545862 ATATAATATAAT-
1 ATATAATATAATA
124545874 ATATAATATAATA
1 ATATAATATAATA
124545887 ACTATAATATAATA
1 A-TATAATATAATA
124545901 ATA
1 ATA
124545904 ATTTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 3 0.11
14 13 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:124550401 original size:13 final size:14
Alignment explanation
Indices: 124550385--124550420 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
124550375 CAATCTCATA
124550385 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
124550398 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
124550411 TCTC-ATTTCA
1 TCTCAATTTCA
124550421 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:124550410 original size:18 final size:19
Alignment explanation
Indices: 124550372--124550412 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
124550362 TGGTTCATGT
124550372 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
124550391 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
124550409 TTTC
1 TTTC
124550413 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:124550602 original size:39 final size:38
Alignment explanation
Indices: 124550535--124550669 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
124550525 ACCAATATGG
* * *
124550535 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
124550574 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
124550612 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
124550653 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
124550670 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:124550935 original size:18 final size:19
Alignment explanation
Indices: 124550909--124550947 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
124550899 TTTCAATTCA
124550909 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
124550928 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
124550946 AT
1 AT
124550948 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:124552290 original size:8 final size:8
Alignment explanation
Indices: 124552270--124552298 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
124552260 TTTATATAAT
124552270 ATAATAT-
1 ATAATATA
124552277 ATAATATA
1 ATAATATA
124552285 ATAATATA
1 ATAATATA
124552293 ATAATA
1 ATAATA
124552299 ATTTAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:124556792 original size:13 final size:14
Alignment explanation
Indices: 124556776--124556811 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
124556766 CAATCTCATA
124556776 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
124556789 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
124556802 TCTC-ATTTCA
1 TCTCAATTTCA
124556812 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:124556801 original size:18 final size:19
Alignment explanation
Indices: 124556763--124556803 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
124556753 TGGTTCATGT
124556763 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
124556782 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
124556800 TTTC
1 TTTC
124556804 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:124556992 original size:39 final size:40
Alignment explanation
Indices: 124556949--124557060 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
124556939 TCGGATAGTT
* *
124556949 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
124556988 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
124557027 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
124557061 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:124557325 original size:18 final size:19
Alignment explanation
Indices: 124557299--124557337 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
124557289 TTTCAATTCA
124557299 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
124557318 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
124557336 AT
1 AT
124557338 ATCTATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:124558663 original size:5 final size:5
Alignment explanation
Indices: 124558653--124558704 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
124558643 TTACTTATTT
* *
124558653 ATATA ATATAA TATATA ATATA ATA-A CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
124558700 ATATA
1 ATATA
124558705 TATTTTAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 3 0.08
5 25 0.64
6 7 0.18
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:124558669 original size:14 final size:13
Alignment explanation
Indices: 124558653--124558694 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
124558643 TTACTTATTT
124558653 ATATAATATAAT-
1 ATATAATATAATA
124558665 ATATAATATAATA
1 ATATAATATAATA
124558678 ACTATAATATAATA
1 A-TATAATATAATA
124558692 ATA
1 ATA
124558695 ATTTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 3 0.11
14 13 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:124563185 original size:13 final size:14
Alignment explanation
Indices: 124563169--124563204 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
124563159 CAATCTCATA
124563169 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
124563182 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
124563195 TCTC-ATTTCA
1 TCTCAATTTCA
124563205 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:124563194 original size:18 final size:19
Alignment explanation
Indices: 124563156--124563196 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
124563146 TGGTTCATGT
124563156 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
124563175 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
124563193 TTTC
1 TTTC
124563197 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:124563386 original size:39 final size:38
Alignment explanation
Indices: 124563319--124563453 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
124563309 ACCAATATGG
* * *
124563319 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
124563358 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
124563396 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
124563437 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
124563454 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:124563719 original size:18 final size:19
Alignment explanation
Indices: 124563693--124563731 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
124563683 TTTCAATTCA
124563693 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
124563712 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
124563730 AT
1 AT
124563732 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:124565059 original size:5 final size:5
Alignment explanation
Indices: 124565049--124565097 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
124565039 TTACTTATTT
*
124565049 ATATA ATATAA TATATA ATATA ACTATA ATATA ATAATA ATTTA ATATA
1 ATATA ATAT-A -ATATA ATATA A-TATA ATATA AT-ATA ATATA ATATA
124565098 TATTTTAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 22 0.58
6 12 0.32
7 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:124565082 original size:16 final size:16
Alignment explanation
Indices: 124565049--124565095 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
124565039 TTACTTATTT
124565049 ATATAATATAATATATA
1 ATATAATATAATA-ATA
124565066 ATATAACTATAAT-ATA
1 ATATAA-TATAATAATA
*
124565082 ATAATAATTTAATA
1 AT-ATAATATAATA
124565096 TATATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.38
17 10 0.38
18 6 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATATAATAATA
Found at i:124565088 original size:11 final size:11
Alignment explanation
Indices: 124565051--124565095 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
124565041 ACTTATTTAT
124565051 ATAATATAATA
1 ATAATATAATA
124565062 TATAATATAACT-
1 -ATAATATAA-TA
124565074 ATAATATAATA
1 ATAATATAATA
*
124565085 ATAATTTAATA
1 ATAATATAATA
124565096 TATATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.03
11 19 0.63
12 9 0.30
13 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAATA
Found at i:124565099 original size:23 final size:24
Alignment explanation
Indices: 124565048--124565099 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
124565038 TTTACTTATT
124565048 TATATAATATAATATATAATATAA
1 TATATAATATAATATATAATATAA
* *
124565072 -CTATAATATAATA-ATAATTTAA
1 TATATAATATAATATATAATATAA
124565094 TATATA
1 TATATA
124565100 TTTTAACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATAATATAATATATAATATAA
Found at i:124569579 original size:13 final size:14
Alignment explanation
Indices: 124569563--124569598 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
124569553 CAATCTCATA
124569563 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
124569576 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
124569589 TCTC-ATTTCA
1 TCTCAATTTCA
124569599 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:124569588 original size:18 final size:19
Alignment explanation
Indices: 124569550--124569590 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
124569540 TGGTTCATGT
124569550 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
124569569 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
124569587 TTTC
1 TTTC
124569591 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:124569780 original size:39 final size:38
Alignment explanation
Indices: 124569713--124569847 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
124569703 ACCAATATGG
* * *
124569713 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
124569752 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
124569790 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
124569831 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
124569848 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:124570113 original size:18 final size:19
Alignment explanation
Indices: 124570087--124570125 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
124570077 TTTCAATTCA
124570087 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
124570106 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
124570124 AT
1 AT
124570126 ATCTATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:124571446 original size:5 final size:5
Alignment explanation
Indices: 124571436--124571488 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
124571426 TTACTTATTT
* *
124571436 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
124571484 ATATA
1 ATATA
124571489 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:124571452 original size:12 final size:12
Alignment explanation
Indices: 124571435--124571490 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
124571425 TTTACTTATT
124571435 TATATAATATAA
1 TATATAATATAA
124571447 TATATAATATAATA
1 TATATAATAT-A-A
124571461 TACTATAATATAA
1 TA-TATAATATAA
*
124571474 TA-ATAATTTAA
1 TATATAATATAA
124571485 TATATA
1 TATATA
124571491 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:124572096 original size:13 final size:13
Alignment explanation
Indices: 124572078--124572102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124572068 AAGGGTTGAT
124572078 TTAGGTTAGATCG
1 TTAGGTTAGATCG
124572091 TTAGGTTAGATC
1 TTAGGTTAGATC
124572103 ATACCAACTC
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TTAGGTTAGATCG
Found at i:124576550 original size:13 final size:13
Alignment explanation
Indices: 124576532--124576563 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
124576522 AAATTGAAGT
124576532 CACACGGCCAAGC
1 CACACGGCCAAGC
124576545 CACACGGCCAAGC
1 CACACGGCCAAGC
124576558 CACACG
1 CACACG
124576564 CCCGTGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.47, G:0.22, T:0.00
Consensus pattern (13 bp):
CACACGGCCAAGC
Found at i:124584554 original size:39 final size:40
Alignment explanation
Indices: 124584460--124584609 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
124584450 AATTGAATGA
* * * **
124584460 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
124584500 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-CATAC
*
124584540 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
124584579 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
124584610 AAATCGTGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 4 0.04
39 31 0.34
40 53 0.59
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:124584594 original size:40 final size:38
Alignment explanation
Indices: 124584503--124584609 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 38
124584493 GAAATTATAA
* *
124584503 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGCTACAT
*
124584542 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-CATTCTAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGC-TAC-AT
124584582 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCA-TTGTGC
124584610 AAATCGTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
38 4 0.07
39 28 0.46
40 27 0.44
41 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.21
Consensus pattern (38 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCGAGTGCTACAT
Found at i:124584623 original size:40 final size:38
Alignment explanation
Indices: 124584455--124584641 Score: 137
Period size: 40 Copynumber: 4.8 Consensus size: 38
124584445 TGAGAAATTG
* * *
124584455 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * * *
124584495 AAT-TATAACCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
124584532 AGTGCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA
1 AATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A
* *
124584572 GTCAT-TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 --AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
124584611 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
124584642 CTTGGTGCGG
Statistics
Matches: 114, Mismatches: 24, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
37 6 0.05
38 2 0.02
39 32 0.28
40 73 0.64
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:124600242 original size:2 final size:2
Alignment explanation
Indices: 124600235--124600266 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
124600225 AAAAATATGC
124600235 AT 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 AT
124600267 GAAGAGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124602453 original size:40 final size:40
Alignment explanation
Indices: 124602408--124602537 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
124602398 CGGAATACAA
124602408 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
124602448 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
124602488 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*
124602528 CCAGATATAA
1 CCGGATATAA
124602538 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:124604669 original size:27 final size:27
Alignment explanation
Indices: 124604637--124604771 Score: 139
Period size: 27 Copynumber: 5.0 Consensus size: 27
124604627 AAACATACAT
* **
124604637 CACATAGGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
124604664 CACATAAGGGCAACATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
124604691 CTCGTAAGGGCAAAATC-GTCATTTTAC
1 CACATAAGGGCAAAA-CAGTCATTTTAC
*
124604718 CACATAAGGGCAAAACCA-TCATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* *
124604745 CACATAAGGGAAAAAATAGTCATTTTA
1 CACATAAGGG-CAAAACAGTCATTTTA
124604772 ACTTACTGGG
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
27 77 0.87
28 12 0.13
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:124604798 original size:27 final size:26
Alignment explanation
Indices: 124604762--124604904 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 26
124604752 GGGAAAAAAT
* * *
124604762 AGTCATTTTAACTTACTGGGGTATTAC
1 AGTCATTTTACCCTA-TGGGGTATTTC
*
124604789 AGTCATTTTACCTTATAGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
* *
124604816 AGCCATTTTACCCTATAGGGTATTTC
1 AGTCATTTTACCCTATGGGGTATTTC
124604842 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
*
124604869 GGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
*
124604896 GGTCATTTT
1 AGTCATTTT
124604905 TAAGTAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 26 0.25
27 79 0.75
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGTATTTC
Found at i:124604845 original size:53 final size:54
Alignment explanation
Indices: 124604780--124604904 Score: 189
Period size: 53 Copynumber: 2.3 Consensus size: 54
124604770 TAACTTACTG
* *
124604780 GGGTATTACAGTCATTTTACCTTATAGGGGTATTTCAGCCATTTTACCCTAT-A
1 GGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGCCATTTTACCCTATGA
* * *
124604833 GGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGA
1 GGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGCCATTTTACCCTATGA
*
124604887 GGGTATTTCGGTCATTTT
1 GGGTATTTCAGTCATTTT
124604905 TAAGTAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
53 47 0.72
54 18 0.28
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGCCATTTTACCCTATGA
Found at i:124612029 original size:46 final size:46
Alignment explanation
Indices: 124611979--124612154 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
124611969 TGGTTGAGCA
124611979 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
124612025 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
124612070 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
124612118 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
124612155 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:124612135 original size:93 final size:93
Alignment explanation
Indices: 124611976--124612147 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
124611966 GGATGGTTGA
* * *
124611976 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
124612041 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
124612069 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
*
124612134 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
124612148 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:124615738 original size:40 final size:40
Alignment explanation
Indices: 124615655--124615807 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
124615645 TCGAATGATG
* *
124615655 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
124615695 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
124615735 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
124615776 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
124615808 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:124623756 original size:40 final size:40
Alignment explanation
Indices: 124623673--124623825 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
124623663 TCGAATGATG
* *
124623673 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
124623713 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* * **
124623753 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
124623794 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
124623826 CGCTATATCG
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 79 0.86
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:124630854 original size:46 final size:46
Alignment explanation
Indices: 124630801--124630976 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
124630791 TGGTTGAGCA
124630801 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
124630847 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
124630892 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
124630940 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
124630977 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:124630957 original size:93 final size:93
Alignment explanation
Indices: 124630798--124630969 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
124630788 GGATGGTTGA
* * * *
124630798 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
124630863 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
124630891 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
124630956 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
124630970 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:124633833 original size:40 final size:40
Alignment explanation
Indices: 124633774--124633915 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
124633764 AAATTGAATG
* * *
124633774 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
124633814 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
124633854 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
124633894 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
124633916 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:124633916 original size:40 final size:39
Alignment explanation
Indices: 124633813--124633941 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
124633803 TGCTGGAAAT
* * *
124633813 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
124633853 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
124633893 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
124633933 TATATCCGG
1 TATATCCGG
124633942 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:124641809 original size:40 final size:40
Alignment explanation
Indices: 124641743--124641909 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
124641733 AAATTGAATG
* * *
124641743 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
124641782 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
124641822 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
124641862 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
124641902 ATATCCGG
1 ATATCCGG
124641910 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:124645793 original size:36 final size:36
Alignment explanation
Indices: 124645709--124645778 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
124645699 GTCTATGTTG
124645709 AGGCCAATTTTACACTTAATACCACACAAAAAAAAC
1 AGGCCAATTTTACACTTAATACCACACAAAAAAAAC
124645745 AGGCCAATTTTACACTTAATACCACACAAAAAAA
1 AGGCCAATTTTACACTTAATACCACACAAAAAAA
124645779 CAGCATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.20
Consensus pattern (36 bp):
AGGCCAATTTTACACTTAATACCACACAAAAAAAAC
Found at i:124648164 original size:40 final size:39
Alignment explanation
Indices: 124648005--124648166 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
124647995 TGTGAATGAA
*
124648005 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
124648044 TGTGC-AATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
124648082 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
124648121 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
124648161 TGTGCG
1 TGTGCG
124648167 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 38 0.33
39 59 0.52
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:124648182 original size:40 final size:39
Alignment explanation
Indices: 124648005--124648197 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
124647995 TGTGAATGAA
* *
124648005 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
124648044 TGTGC-AATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
124648082 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
124648121 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
124648161 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
124648198 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 38 0.28
39 59 0.43
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:124648224 original size:79 final size:78
Alignment explanation
Indices: 124648022--124648235 Score: 209
Period size: 79 Copynumber: 2.7 Consensus size: 78
124648012 ATTGTGATAT
** * * *
124648022 CCGGGCTAAGCCCGAAGGCAATTGTGC-AATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
124648086 CGAGCTATGATAT
66 CGAGCTACCATAA
** * *
124648099 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
124648164 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
124648178 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
124648236 TATGTGATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
77 27 0.23
78 20 0.17
79 45 0.38
80 24 0.21
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:124656005 original size:39 final size:39
Alignment explanation
Indices: 124655945--124656107 Score: 220
Period size: 39 Copynumber: 4.2 Consensus size: 39
124655935 TGTGAATGAA
124655945 TGTGCGAATTGTGATATCCGGGCTAAGCCC-AAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
124655983 TGTTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TG-TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** * * *
124656023 TGTGCGAGCTATGATATCCGGGCTAAGCCTGAAGGCGAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
124656062 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
124656102 TGTGCG
1 TGTGCG
124656108 GGTTATCATA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 2 0.02
39 82 0.75
40 25 0.23
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:124656136 original size:79 final size:78
Alignment explanation
Indices: 124655962--124656138 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 78
124655952 ATTGTGATAT
* * *
124655962 CCGGGCTAAGCCC-AAGGCAATTGTTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCGATTG-TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
* *
124656026 GCGAGCTATGATAT
65 GCGAGCTATCATAA
* * *
124656040 CCGGGCTAAGCCTGAAGGCGATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGT
* *
124656105 GCGGGTTATCATAA
65 GCGAGCTATCATAA
*
124656119 CC-GGCTATGTCCCGAAGGCG
1 CCGGGCTAAG-CCCGAAGGCG
124656139 TTTGAACGAG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 40 0.48
79 44 0.52
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
CGAGCTATCATAA
Found at i:124656149 original size:79 final size:78
Alignment explanation
Indices: 124655992--124656175 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 78
124655982 TTGTTGCAAA
* * * *
124655992 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCTGAAG
1 TTGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTATCATAACCGGGCTAAGCCCGAAG
**
124656057 GCGATTGTGCGAG
66 GCGATTGAACGAG
* * * *
124656070 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACC-GGCTATGTCCCGA
1 TTGTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGCTATCATAACCGGGCTAAG-CCCGA
*
124656134 AGGCGTTTGAACGAG
64 AGGCGATTGAACGAG
* *
124656149 TAGCT-ATATCC-GGTTAAACTCCGAAGG
1 TTG-TGATATCCGGGTTAAGC-CCGAAGG
124656176 TATGTGATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 37 0.42
79 50 0.56
80 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (78 bp):
TTGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTATCATAACCGGGCTAAGCCCGAAG
GCGATTGAACGAG
Found at i:124660856 original size:29 final size:29
Alignment explanation
Indices: 124660822--124660895 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
124660812 AATCAACCAT
* *
124660822 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
124660851 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
124660880 GCACACTTAGTGCCAT
1 GCACACTTAGTGCCAT
124660896 TCTCTCAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:124670738 original size:93 final size:93
Alignment explanation
Indices: 124670629--124670800 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
124670619 GCCCCTAAGT
* * * **
124670629 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
124670694 TGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
* *
124670722 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
124670787 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
124670801 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:124670796 original size:46 final size:46
Alignment explanation
Indices: 124670624--124670796 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
124670614 AACCCGCCCC
* * * *
124670624 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
** * * *
124670670 TAAGTGAACTTGGACTCAACTCAATGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
*** *
124670716 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGT-GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
124670763 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
124670797 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 63 0.61
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:124670815 original size:46 final size:46
Alignment explanation
Indices: 124670672--124670815 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
124670662 CGCATCCATA
* * *
124670672 AGTGAACTTGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
124670721 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
124670765 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
124670811 AGTGA
1 AGTGA
124670816 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 30 0.41
49 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:124672823 original size:22 final size:20
Alignment explanation
Indices: 124672781--124672831 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
124672771 GTGTAATTCT
* *
124672781 ATCAAAAATAACCAAATTTA
1 ATCAAAATTAACCAAAATTA
124672801 ATCAAAATTAACTACAAAATTA
1 ATCAAAATTAAC--CAAAATTA
*
124672823 ATTAAAATT
1 ATCAAAATT
124672832 CATAATGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 11 0.42
22 15 0.58
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
ATCAAAATTAACCAAAATTA
Found at i:124680858 original size:68 final size:66
Alignment explanation
Indices: 124680786--124680957 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
124680776 CATCATGTGT
* * * *
124680786 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
124680849 TGTAG
62 TGTAG
** * *
124680854 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
124680919 AG
65 AG
* * * *
124680921 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
124680958 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:124680891 original size:64 final size:64
Alignment explanation
Indices: 124680810--124680993 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
124680800 AGACATTATG
* * *
124680810 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
124680874 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
124680939 AA
63 AA
* * *
124680941 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
124680994 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:124682082 original size:2 final size:2
Alignment explanation
Indices: 124682075--124682103 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
124682065 TCATGACATG
124682075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124682104 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:124687593 original size:40 final size:40
Alignment explanation
Indices: 124687533--124687695 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
124687523 TGAATGATAC
* * *
124687533 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
124687572 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
124687612 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
124687652 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
124687692 CCGG
1 CCGG
124687696 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 13 0.13
40 84 0.82
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:124695672 original size:40 final size:40
Alignment explanation
Indices: 124695615--124695778 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
124695605 TGAATGATAC
* * * *
124695615 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
124695655 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
124695695 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
124695735 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
124695775 CCGG
1 CCGG
124695779 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Done.