Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 65 of 211
Found at i:19867832 original size:24 final size:24
Alignment explanation
Indices: 19867805--19867857 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
19867795 TAGAAAAAAA
* * *
19867805 ATATAAATATATATACATATACAT
1 ATATAAAAAAATAGACATATACAT
*
19867829 ATATAAAAAAATAGATATATACAT
1 ATATAAAAAAATAGACATATACAT
19867853 ATATA
1 ATATA
19867858 TATAGATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (24 bp):
ATATAAAAAAATAGACATATACAT
Found at i:19867837 original size:34 final size:33
Alignment explanation
Indices: 19867799--19867876 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 33
19867789 ATTCGTTAGA
*
19867799 AAAAAAATATAAATATATATACATATACATATAT
1 AAAAAAATATAAATACATATACATATACAT-TAT
* * *
19867833 AAAAAAATAGATATATACATATATATATAGATTAT
1 AAAAAAAT--ATAAATACATATACATATACATTAT
19867868 AAAAAAATA
1 AAAAAAATA
19867877 ATTACATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 1 0.03
34 8 0.21
35 11 0.29
36 18 0.47
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAAAAATATAAATACATATACATATACATTAT
Found at i:19867942 original size:18 final size:19
Alignment explanation
Indices: 19867894--19867943 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
19867884 ATATAAATTA
19867894 TAAAAATA-GAAATAATAAT
1 TAAAAATATGAAAT-ATAAT
*
19867913 T-AAATTATTGAAAT-TAAT
1 TAAAAATA-TGAAATATAAT
19867931 TAAAAATATGAAA
1 TAAAAATATGAAA
19867944 AGGACTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 15 0.58
19 6 0.23
20 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (19 bp):
TAAAAATATGAAATATAAT
Found at i:19869138 original size:33 final size:32
Alignment explanation
Indices: 19869077--19869139 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
19869067 AACAAAAATC
* * *
19869077 GGGTCTGGGTTTGGGCCTATTTTGTTGTAATT
1 GGGTCTGGGTTTAGGCCCATTTTATTGTAATT
*
19869109 GGGTTTGGGTTTTAGGCCCATTTTATTGTAA
1 GGGTCTGGG-TTTAGGCCCATTTTATTGTAA
19869140 AAGGACTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.13, C:0.10, G:0.32, T:0.46
Consensus pattern (32 bp):
GGGTCTGGGTTTAGGCCCATTTTATTGTAATT
Found at i:19871879 original size:50 final size:50
Alignment explanation
Indices: 19871804--19871948 Score: 211
Period size: 50 Copynumber: 2.9 Consensus size: 50
19871794 GTGAAGTTGC
19871804 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGAA
* * * *
19871854 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGAA
* *
19871904 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
19871949 GGAATCATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
49 4 0.05
50 42 0.50
51 38 0.45
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGAA
Found at i:19874089 original size:15 final size:15
Alignment explanation
Indices: 19874038--19874094 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
19874028 CCCTTTTTTA
*
19874038 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
19874052 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
19874068 CTATTATTATTAATG
1 TTATTATTATTAATG
19874083 TTATTATTATTA
1 TTATTATTATTA
19874095 TTATTGTTTC
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:19877756 original size:100 final size:99
Alignment explanation
Indices: 19877595--19878266 Score: 603
Period size: 100 Copynumber: 6.8 Consensus size: 99
19877585 GCAATTAAAA
** * * * * ** * *
19877595 AGATTGAAGCTACAATAGCGGATCTTGCTTTCCT-AGCATTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGCGAATCTTGCGTCCCTGA-CATTGCAATTCAAAAGATTGAAGCCACA
* * * * *
19877659 ACAGCGGATTTTACTTTCCTAGCGTTGCAGTGGAAT
65 ACGGCGAATCTTACTTTCC-AGCGTTGCAGCGGAAC
* * * * *
19877695 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAGAAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAA-AAGATTGAAGCCACA
* * *
19877759 ACAGCGGATCTTACTCTCCTAGCGTTGCAGCGGAAC
65 ACGGCGAATCTTACTTTCC-AGCGTTGCAGCGGAAC
* * *
19877795 AGATTGAAG-TCACAACGGCGAATCCTGCGTCCCTGACATTGTAATTCAGAAGATTGAAGCCACA
1 AGATTGAAGCT-ACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACA
*
19877859 ACGGCGAATCTTACTTT-CAG-GTGATGCCGCGGAAC
65 ACGGCGAATCTTACTTTCCAGCGT--TGCAGCGGAAC
*
19877894 AGATTGAAGGC-ACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACA
1 AGATTGAA-GCTACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACA
* * *
19877958 ACGGTGAATCTTACTTTTCAGGCGATGCAGCGGAAC
65 ACGGCGAATCTTACTTTCCA-GCGTTGCAGCGGAAC
* * ** * *
19877994 AGATTAAAGCTACAACGGCAAATCTCAC-TTCCTAACATTGCAATTCAAAAGATTGAAGCCACAA
1 AGATTGAAGCTACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAA
* * * *
19878058 TGGCGAATCTTAC-TTCCAAGTGATGCAGCGGAAT
66 CGGCGAATCTTACTTTCC-AGCGTTGCAGCGGAAC
* *
19878092 AGATTGAAG-TCACGACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAGGCCACA
1 AGATTGAAGCT-ACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACA
* * * * *
19878156 GCGGTGAATCTCA-TTTCCCTAGCAG-TGTAGTGGAAC
65 ACGGCGAATCTTACTTT-CC-AGC-GTTGCAGCGGAAC
* * * * ** ** *
19878192 AGATTGAAGCTACGATGGCGAATCTCGCTTCCCCAACATTGC-GGTCAAATAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA-AGATTGAAGCCACA
*
19878256 ACAGCGAATCT
65 ACGGCGAATCT
19878267 CACCTCATTG
Statistics
Matches: 482, Mismatches: 70, Indels: 40
0.81 0.12 0.07
Matches are distributed among these distances:
97 3 0.01
98 39 0.08
99 182 0.38
100 252 0.52
101 5 0.01
102 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (99 bp):
AGATTGAAGCTACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAA
CGGCGAATCTTACTTTCCAGCGTTGCAGCGGAAC
Found at i:19877810 original size:50 final size:50
Alignment explanation
Indices: 19877595--19877803 Score: 278
Period size: 50 Copynumber: 4.2 Consensus size: 50
19877585 GCAATTAAAA
* *
19877595 AGATTGAAGCTACAATAGCGGATCTTGCTTTCCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
19877645 AGATTGAAGCTACAACAGCGGATTTTACTTTCCTAGCGTTGCAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * *
19877695 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
* * *
19877745 AGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCGTTGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
19877795 AGATTGAAG
1 AGATTGAAG
19877804 TCACAACGGC
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
49 3 0.02
50 131 0.96
51 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:19877854 original size:150 final size:150
Alignment explanation
Indices: 19877583--19877874 Score: 347
Period size: 150 Copynumber: 1.9 Consensus size: 150
19877573 AAACCATAGT
* * * *
19877583 TTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTGCTTTCCTAGCATTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCATTGCAGCGGAACAGA
* ** * * * * * *
19877648 TTGAAGCTACAACAGCGGATTTTACTTTCCTAGCGTTGCAGTGGAATAGATTGAAGCTACAACAG
66 TTGAAGCTACAACAGCGAATCCTACGTCCCTAGCATTGCAATGCAATAGATTGAAGCCACAACAG
*
19877713 CGGATCTTACTTCCCTGACA
131 CGAATCTTACTTCCCTGACA
* *
19877733 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCGTTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCATTGCAGCGGAACAGA
* * * *
19877798 TTGAAG-TCACAACGGCGAATCCTGCGTCCCT-GACATTGTAATTCAGA-AGATTGAAGCCACAA
66 TTGAAGCT-ACAACAGCGAATCCTACGTCCCTAG-CATTGCAATGCA-ATAGATTGAAGCCACAA
*
19877860 CGGCGAATCTTACTT
128 CAGCGAATCTTACTT
19877875 TCAGGTGATG
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
149 2 0.02
150 115 0.97
151 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (150 bp):
TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCATTGCAGCGGAACAGA
TTGAAGCTACAACAGCGAATCCTACGTCCCTAGCATTGCAATGCAATAGATTGAAGCCACAACAG
CGAATCTTACTTCCCTGACA
Found at i:19877926 original size:99 final size:99
Alignment explanation
Indices: 19877645--19878166 Score: 565
Period size: 99 Copynumber: 5.3 Consensus size: 99
19877635 GCAGTGGAAC
* * * * * *
19877645 AGATTGAAGCTACAACAGCGGATTTTACTTTCCTAGCGT--TGCAGTGGAATAGATTGAA-GCTA
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCC-AG-GTGATGCAGCGGAACAGATTGAAGGC-A
* * * *
19877707 CAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAGA
62 CAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAA-A
* * * *
19877745 AGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCGT--TGCAGCGGAACAGATTGAAGTCAC
1 AGATTGAAGCCACAACGGCGAATCTTACT-TCC-AG-GTGATGCAGCGGAACAGATTGAAGGCAC
* * *
19877808 AACGGCGAATCCTGCGTCCCTGACATTGTAATTCAGA
63 AACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* *
19877845 AGATTGAAGCCACAACGGCGAATCTTACTTTCAGGTGATGCCGCGGAACAGATTGAAGGCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGTGATGCAGCGGAACAGATTGAAGGCACAAC
19877910 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
66 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * * * *
19877944 AGATTAAAGCCACAACGGTGAATCTTACTTTTCAGGCGATGCAGCGGAACAGATT-AAAGCTACA
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCAGGTGATGCAGCGGAACAGATTGAAGGC-ACA
* ** * *
19878008 ACGGCAAATCTCAC-TTCCTAACATTGCAATTCAAA
64 ACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * * * *
19878043 AGATTGAAGCCACAATGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAGTCACGAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGTGATGCAGCGGAACAGATTGAAGGCACAAC
19878108 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
66 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * *
19878142 AGATTGAGGCCACAGCGGTGAATCT
1 AGATTGAAGCCACAACGGCGAATCT
19878167 CATTTCCCTA
Statistics
Matches: 364, Mismatches: 49, Indels: 19
0.84 0.11 0.04
Matches are distributed among these distances:
97 2 0.01
98 37 0.10
99 176 0.48
100 147 0.40
101 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (99 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGTGATGCAGCGGAACAGATTGAAGGCACAAC
GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
Found at i:19877967 original size:50 final size:50
Alignment explanation
Indices: 19877695--19878166 Score: 256
Period size: 50 Copynumber: 9.5 Consensus size: 50
19877685 GCAGTGGAAT
* * * *
19877695 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAGA
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAA-A
* * * * **** *
19877745 AGATTGAAGCTACAACAGCGGATCTTAC-TCTCCT-AGCGTTGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACGTC-CCTGA-CATTGCAATTCAAA
* * * * *
19877795 AGATTGAAGTCACAACGGCGAATCCTGCGTCCCTGACATTGTAATTCAGA
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
* * ** ** ***** *
19877845 AGATTGAAGCCACAACGGCGAATCTTACTTTCAGGTGA-TGCCGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
* *
19877894 AGATTGAAGGCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
* * * ** * * **** *
19877944 AGATTAAAGCCACAACGGTGAATCTTACTTTTCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGAC-ATTGCAATTCAAA
* * * * * *
19877994 AGATTAAAGCTACAACGGCAAATCTCAC-TTCCTAACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
* * ** ** **** *
19878043 AGATTGAAGCCACAATGGCGAATCTTACTTCCAAGTGA-TGCAGCGGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
* * *
19878092 AGATTGAAGTCACGACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
* * *
19878142 AGATTGAGGCCACAGCGGTGAATCT
1 AGATTGAAGCCACAACGGCGAATCT
19878167 CATTTCCCTA
Statistics
Matches: 300, Mismatches: 112, Indels: 20
0.69 0.26 0.05
Matches are distributed among these distances:
48 1 0.00
49 104 0.35
50 189 0.63
51 6 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACGTCCCTGACATTGCAATTCAAA
Found at i:19878067 original size:49 final size:49
Alignment explanation
Indices: 19877583--19878269 Score: 195
Period size: 50 Copynumber: 13.8 Consensus size: 49
19877573 AAACCATAGT
* * * ** * ** *
19877583 TTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTGCTTTCCTAGCA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCAC-TTCCTAACA
** * * * * * * * *
19877633 TTGCAGTGGAACAGATTGAAGCTACAACAGCGGATTTTACTTTCCTAGCG
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCAC-TTCCTAACA
** * * * * * *
19877683 TTGCAGTGGAATAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTT-CCTAACA
* * * * * * *
19877733 TTGCAATT-AAGAAGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCG
1 TTGCAGTTCAA-AAGATTGAAGCCACAACGGCGAATCTCACT-TCCTAACA
*** * * * * *
19877783 TTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCCTGC-GTCCCTGACA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAAT-CT-CACTTCCTAACA
* * * * * **
19877833 TTGTAATTCAGAAGATTGAAGCCACAACGGCGAATCTTACTT--TCAGG
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCTAACA
* *** * * ** * *
19877880 TGATGCCGCGGAACAGATTGAAGGCACAACGGCGAATCTTGCGTCCCTGACA
1 T--TGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCAC-TTCCTAACA
* * * * * *
19877932 TTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTTACTT-TTCAGGCGA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCT-A-AC-A
*** * * * *
19877983 -TGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCTAACA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCTAACA
* * * *
19878031 TTGCAATTCAAAAGATTGAAGCCACAATGGCGAATCTTACTTCC-AA-G
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCTAACA
*** * * * ** * *
19878078 TGATGCAGCGGAATAGATTGAAGTCACGACGGCGAATCTTGCGTCCCTGACA
1 T--TGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCAC-TTCCTAACA
* * * * * *
19878130 TTGCAATTCAAAAGATTGAGGCCACAGCGGTGAATCTCATTTCCCTAGCA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTT-CCTAACA
* * ** * * * * * *
19878180 GTGTAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCAACA
1 TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTT-CCTAACA
* * *
19878230 TTGC-GGTCAAATAGATTGAAGCTACAACAGCGAATCTCAC
1 TTGCAGTTCAAA-AGATTGAAGCCACAACGGCGAATCTCAC
19878270 CTCATTGGCG
Statistics
Matches: 462, Mismatches: 151, Indels: 48
0.70 0.23 0.07
Matches are distributed among these distances:
47 4 0.01
48 4 0.01
49 105 0.23
50 336 0.73
51 9 0.02
52 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (49 bp):
TTGCAGTTCAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCTAACA
Found at i:19878112 original size:198 final size:198
Alignment explanation
Indices: 19877645--19878166 Score: 622
Period size: 198 Copynumber: 2.6 Consensus size: 198
19877635 GCAGTGGAAC
* * * * * * * *
19877645 AGATTGAAGCTACAACAGCGGATTTTACTTTCCTAGCGTTGCAGTGGAATAGATTGAAGCTACAA
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCAAGTGATGCAGCGGAATAGATTGAAGC-ACAA
* * * * * * * *
19877710 CAGCGGATCTTACTTCCCTGACATTGCAATT-AAGAAGATTGAAGCTACAACAGCGGATCTTACT
64 CGGCGAATCTTGCGTCCCTGACATTGCAATTCAA-AAGATTGAAGCCACAACGGTGAATCTTACT
* * * * * *
19877774 CTCCTAGCGTTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCCTGCGTCCCTGACATTGTAA
128 CTCCTAGCGATGCAGCGGAACAGATTAAAGTCACAACGGCAAATCCTGCCTCCCTAACATTGCAA
*
19877839 TTCAGA
193 TTCAAA
* * * *
19877845 AGATTGAAGCCACAACGGCGAATCTTACTTTCAGGTGATGCCGCGGAACAGATTGAAGGCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAA-GCACAAC
* *
19877910 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTTACTTT
65 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTCT
* *
19877975 TC-AGGCGATGCAGCGGAACAGATTAAAG-CTACAACGGCAAAT-CT-CACTTCCTAACATTGCA
130 CCTA-GCGATGCAGCGGAACAGATTAAAGTC-ACAACGGCAAATCCTGC-CTCCCTAACATTGCA
19878036 ATTCAAA
192 ATTCAAA
* *
19878043 AGATTGAAGCCACAATGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAGTCACGAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAG-CACAAC
* *
19878108 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAGGCCACAGCGGTGAATCT
65 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCT
19878167 CATTTCCCTA
Statistics
Matches: 276, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
197 2 0.01
198 134 0.49
199 112 0.41
200 28 0.10
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (198 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAGCACAACG
GCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTCTC
CTAGCGATGCAGCGGAACAGATTAAAGTCACAACGGCAAATCCTGCCTCCCTAACATTGCAATTC
AAA
Found at i:19878193 original size:198 final size:199
Alignment explanation
Indices: 19877645--19878266 Score: 607
Period size: 198 Copynumber: 3.1 Consensus size: 199
19877635 GCAGTGGAAC
* * * * * * * * *
19877645 AGATTGAAGCTACAACAGCGGATTTTACTTTCCTAGCGTTGCAGTGGAATAGATTGAA-GCTACA
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCAAGTGATGCAGCGGAACAGATTGAAGGC-ACA
* * * * * * * * * *
19877709 ACAGCGGATCTTACTTCCCTGACATTGCAATT-AAGAAGATTGAAGCTACAACAGCGGATCTTAC
64 ACGGCGAATCTTGCGTCCCTGACATTGCAATTCAA-AAGATTAAAGCCACAACGGTGAATCTCAC
* * * * * * **
19877773 TCTCCTA-GCGTTGCAGCGGAACAGATTGAAG-TCACAACGGCGAATC-CTGCGTCCCTGACATT
128 TTTCC-AGGCGATGCAGCGGAACAGATTAAAGCT-ACAACGGCAAATCTC-ACTTCCCCAACATT
* *
19877835 GTAATTCAGA
190 GCAATTCAAA
* * *
19877845 AGATTGAAGCCACAACGGCGAATCTTACTTTCAGGTGATGCCGCGGAACAGATTGAAGGCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAACAGATTGAAGGCACAAC
*
19877910 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTTACTTT
66 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTCACTTT
* *
19877975 TCAGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTT-CCTAACATTGCAATT
131 CCAGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCCCAACATTGCAATT
19878039 CAAA
196 CAAA
* * * *
19878043 AGATTGAAGCCACAATGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAGTCACGAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAACAGATTGAAGGCACAAC
* * *
19878108 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAGGCCACAGCGGTGAATCTCA-TTT
66 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTCACTTT
* * * * * * *
19878172 CCCTA-GC-AGTGTAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCAACATTGC-
131 -CC-AGGCGA-TGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCCCAACATTGCA
**
19878234 GGTCAAA
193 ATTCAAA
* *
19878241 TAGATTGAAGCTACAACAGCGAATCT
1 -AGATTGAAGCCACAACGGCGAATCT
19878267 CACCTCATTG
Statistics
Matches: 356, Mismatches: 56, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
197 4 0.01
198 174 0.49
199 148 0.42
200 30 0.08
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (199 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAACAGATTGAAGGCACAAC
GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTCACTTT
CCAGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCCCAACATTGCAATT
CAAA
Found at i:19878346 original size:100 final size:100
Alignment explanation
Indices: 19878183--19878366 Score: 237
Period size: 100 Copynumber: 1.8 Consensus size: 100
19878173 CCTAGCAGTG
* * * *
19878183 TAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCAACATTGCGGTCAAATAGATTG
1 TAGTGGAACAGATTGAAGCTACAATGACGAACCTCGCTTCCCCAACATTGCGCTCAAATAGATTG
*
19878248 AAGCTACAACAGCGAATCTCACCTCATTGGCGATA
66 AAGCCACAACAGCGAATCTCACCTCATTGGCGATA
* * *
19878283 TAGTGGAACAGATTGAAGCTACAAATGACGAACCTTGCTTTCCCAACATTGCAGCT-AGA-AGAT
1 TAGTGGAACAGATTGAAGCTAC-AATGACGAACCTCGCTTCCCCAACATTGC-GCTCAAATAGAT
* * *
19878346 TGATGCCGCAACGGCGAATCT
64 TGAAGCCACAACAGCGAATCT
19878367 TATTTCCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
100 43 0.61
101 26 0.37
102 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (100 bp):
TAGTGGAACAGATTGAAGCTACAATGACGAACCTCGCTTCCCCAACATTGCGCTCAAATAGATTG
AAGCCACAACAGCGAATCTCACCTCATTGGCGATA
Found at i:19892495 original size:50 final size:50
Alignment explanation
Indices: 19892432--19892640 Score: 251
Period size: 50 Copynumber: 4.2 Consensus size: 50
19892422 GCAATTAAAA
* * *
19892432 AGATTGAAGCTACAATAGCGGATCTTGCTTTCCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTACAGTGGAAC
* *
19892482 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTACAGTGGAAC
* * * * * *
19892532 ATATTGAAGCTACAACAGTGGATCTTACTTCCCT-GACATTACAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTACAGTGGAA-C
* * **
19892582 AGATTGAAGCTACAACAGCGGATCTTAATTTCCTAGCGTTACAGCAGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTACAGTGGAAC
19892632 AGATTGAAG
1 AGATTGAAG
19892641 TCACAACGGT
Statistics
Matches: 135, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.02
50 129 0.96
51 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTACAGTGGAAC
Found at i:19892686 original size:50 final size:50
Alignment explanation
Indices: 19892632--19893003 Score: 190
Period size: 50 Copynumber: 7.5 Consensus size: 50
19892622 ACAGCAGAAC
* * * *
19892632 AGATTGAAGTCACAACGGTGAATCTTGCGTGCCTGACATTGCAATTCAGA
1 AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAGA
* * ** * * * *
19892682 AGATTGAAGCCACAACGGCGAATCTTAC-TTTCAGGCGA-TGC-A-GCGGAA
1 AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGAC-ATTGCAATTCAG-A
* *
19892730 CAGATTAAAGTCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
1 -AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAGA
* * * ** * * * *
19892781 AGATTAAAGCCACAACGGTGAATCTTACTTTTCAGGCGA-TGC-A-GCGGAA
1 AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGAC-ATTGCAATTCAG-A
* * ** * *
19892830 CAGATTAAAGCTACAACGGCAAATCTCAC-TTCCTGACATTGCAATTCAAA
1 -AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAGA
* * * ** ** * *
19892880 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGA-TGC-A-GCGGAA
1 AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAG-A
* * *
19892928 TAGATTGAAGTCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
1 -AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAGA
* * * *
19892979 AGATTGAGGCCACAGCGGTGAATCT
1 AGATTAAAGCCACAACGGCGAATCT
19893004 CATTTCCCTA
Statistics
Matches: 237, Mismatches: 66, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
47 3 0.01
48 6 0.03
49 101 0.43
50 119 0.50
51 6 0.03
52 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAGA
Found at i:19892697 original size:150 final size:150
Alignment explanation
Indices: 19892423--19892711 Score: 323
Period size: 150 Copynumber: 1.9 Consensus size: 150
19892413 CCATAGTTTG
* ** * **
19892423 CAATTAAAAAGATTGAAGCTACAATAGCGGATCTTGCTTTCCTAGCATTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCTACAACAGCGGATCTTAATTTCCTAGCATTACAGCAGAACAGATTG
* * * * * * * * * *
19892488 AAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACATATTGAAGCTACAACAGTGG
66 AAGCTACAACAGCGAATCTTACGTGCCTAGCATTGCAATGCAACAGATTGAAGCCACAACAGCGA
19892553 ATCTTACTTCCCTGACATTA
131 ATCTTACTTCCCTGACATTA
* *
19892573 CAATTAAGAAGATTGAAGCTACAACAGCGGATCTTAATTTCCTAGCGTTACAGCAGAACAGATTG
1 CAATTAAAAAGATTGAAGCTACAACAGCGGATCTTAATTTCCTAGCATTACAGCAGAACAGATTG
* * * * *
19892638 AAG-TCACAACGGTGAATCTTGCGTGCCT-GACATTGCAATTCAGA-AGATTGAAGCCACAACGG
66 AAGCT-ACAACAGCGAATCTTACGTGCCTAG-CATTGCAATGCA-ACAGATTGAAGCCACAACAG
19892700 CGAATCTTACTT
128 CGAATCTTACTT
19892712 TCAGGCGATG
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
149 2 0.02
150 110 0.97
151 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (150 bp):
CAATTAAAAAGATTGAAGCTACAACAGCGGATCTTAATTTCCTAGCATTACAGCAGAACAGATTG
AAGCTACAACAGCGAATCTTACGTGCCTAGCATTGCAATGCAACAGATTGAAGCCACAACAGCGA
ATCTTACTTCCCTGACATTA
Found at i:19892749 original size:49 final size:49
Alignment explanation
Indices: 19892681--19892954 Score: 228
Period size: 49 Copynumber: 5.6 Consensus size: 49
19892671 TGCAATTCAG
* *
19892681 AAGATTGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAA
1 AAGATTAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAA
* * * * * * ****
19892730 CAGATTAAAGTCACAACGGCGAATCTTGCGTCCCTGAC-ATTGCAATTCAA
1 AAGATTAAAGCCACAACGGCGAATCTTAC-TTCCAGGCGA-TGCAGCGGAA
* *
19892780 AAGATTAAAGCCACAACGGTGAATCTTACTTTTCAGGCGATGCAGCGGAA
1 AAGATTAAAGCCACAACGGCGAATCTTAC-TTCCAGGCGATGCAGCGGAA
* * * * * * ****
19892830 CAGATTAAAGCTACAACGGCAAATCTCACTTCCTGAC-ATTGCAATTCAA
1 AAGATTAAAGCCACAACGGCGAATCTTACTTCCAGGCGA-TGCAGCGGAA
* * *
19892879 AAGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAA
1 AAGATTAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAA
* * *
19892928 TAGATTGAAGTCACAACGGCGAATCTT
1 AAGATTAAAGCCACAACGGCGAATCTT
19892955 GCGTCCCTGA
Statistics
Matches: 168, Mismatches: 52, Indels: 10
0.73 0.23 0.04
Matches are distributed among these distances:
48 1 0.01
49 96 0.57
50 70 0.42
51 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (49 bp):
AAGATTAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAA
Found at i:19892767 original size:99 final size:98
Alignment explanation
Indices: 19892482--19893209 Score: 607
Period size: 100 Copynumber: 7.3 Consensus size: 98
19892472 GCAGTGGAAC
* * * * * *
19892482 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACATATTGAAG-CTACA
1 AGATTGAAGCCACAACGGCGAATCTTACTTT-C-AGCGATGCAGCGGAACAGATTGAAGTC-ACA
* * * * * *
19892546 ACAGTGGATCTTACTTCCCTGACATTACAATT-AAGA
63 ACGGCGAATCTTGCGTCCCTGACATTGCAATTCAA-A
* * * * * * *
19892582 AGATTGAAGCTACAACAGCGGATCTTAATTTCCTAGCGTTACAGCAGAACAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTT-C-AGCGATGCAGCGGAACAGATTGAAGTCACAA
* * *
19892647 CGGTGAATCTTGCGTGCCTGACATTGCAATTCAGA
64 CGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
*
19892682 AGATTGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTAAAGTCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCA-GCGATGCAGCGGAACAGATTGAAGTCACAAC
19892747 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
65 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * *
19892781 AGATTAAAGCCACAACGGTGAATCTTACTTTTCAGGCGATGCAGCGGAACAGATTAAAG-CTACA
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTTCA-GCGATGCAGCGGAACAGATTGAAGTC-ACA
* ** *
19892845 ACGGCAAATCTCAC-TTCCTGACATTGCAATTCAAA
63 ACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * *
19892880 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAGTCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTC-AGCGATGCAGCGGAACAGATTGAAGTCACAAC
19892945 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
65 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * * * * * *
19892979 AGATTGAGGCCACAGCGGTGAATCTCA-TTTCCCTAGCGGTGTAGTGGAACAGATTGAAG-CTAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTT--C-AGCGATGCAGCGGAACAGATTGAAGTC-AC
* * * * ** * **
19893042 GATGGCGAATCTCGCTTCCCCAATATTGC-GGTCAAA
62 AACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAA
* * * * * *
19893078 TAGATTGAAGCTACAACAGCGAATCTCACCTCATT-GGCGATACAGTGGAACAGATTGAAG-CTA
1 -AGATTGAAGCCACAACGGCGAATCTTA-CT--TTCAGCGATGCAGCGGAACAGATTGAAGTC-A
* * * * ** *
19893141 CAAATGGCGAACCTTGCTTTCCC-AACATTGCAGCT-AGA
61 C-AACGGCGAATCTTGC-GTCCCTGACATTGCAATTCAAA
*
19893179 AGATTGAAGCCGCAACGGCGAATCTTA-TTTC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTC
19893210 CTCAACGGGA
Statistics
Matches: 530, Mismatches: 78, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
96 2 0.00
98 42 0.08
99 183 0.35
100 270 0.51
101 23 0.04
102 8 0.02
104 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (98 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTTCAGCGATGCAGCGGAACAGATTGAAGTCACAACG
GCGAATCTTGCGTCCCTGACATTGCAATTCAAA
Found at i:19893030 original size:198 final size:198
Alignment explanation
Indices: 19892482--19893060 Score: 603
Period size: 198 Copynumber: 2.9 Consensus size: 198
19892472 GCAGTGGAAC
* * * * * * * *
19892482 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACATATTGAAG-CTACA
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCAAGCGATGCAGCGGAACAGATTAAAGTC-ACA
* * * * * * * * * * * * *
19892546 ACAGTGGATCTTACTTCCCTGACATTACAATT-AAGAAGATTGAAGCTACAACAGCGGATCTTAA
64 ACGGCGAATCTTGCGTCCCTGACATTGCAATTCAA-AAGATTAAAGCCACAACGGTGAATCTCAC
* * * * ** ** *
19892610 TTTCCTA-GCGTTACAGCAGAACAGATTGAAG-TCACAACGGTGAATCTTGCGTGCCTGACATTG
128 TTTCC-AGGCGATGCAGCGGAACAGATTAAAGCT-ACAACGGCAAATCTCAC-TTCCTGACATTG
*
19892673 CAATTCAGA
190 CAATTCAAA
* *
19892682 AGATTGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTAAAGTCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCGGAACAGATTAAAGTCACAAC
*
19892747 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTTACTTT
66 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTCACTTT
*
19892812 TCAGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCTGACATTGCAATTC
131 CCAGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCTGACATTGCAATTC
19892877 AAA
196 AAA
* * *
19892880 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGTGATGCAGCGGAATAGATTGAAGTCACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCGGAACAGATTAAAGTCACAAC
* * *
19892945 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAGGCCACAGCGGTGAATCTCA-TTT
66 GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTCACTTT
* * * * * * * *
19893009 CCCTA-GCGGTGTAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCC
131 -CC-AGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCC
19893061 CCAATATTGC
Statistics
Matches: 322, Mismatches: 51, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
197 3 0.01
198 177 0.55
199 113 0.35
200 29 0.09
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (198 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCGGAACAGATTAAAGTCACAAC
GGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTCACTTT
CCAGGCGATGCAGCGGAACAGATTAAAGCTACAACGGCAAATCTCACTTCCTGACATTGCAATTC
AAA
Found at i:19894584 original size:12 final size:12
Alignment explanation
Indices: 19894542--19894603 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
19894532 AGTCCCTTTT
*
19894542 TTATTATTATTA
1 TTATTATTGTTA
*
19894554 TTTAGTTCATTGTTT
1 -TTA-TT-ATTGTTA
*
19894569 TTATTGTTGTTA
1 TTATTATTGTTA
*
19894581 TTATTAATGTTA
1 TTATTATTGTTA
19894593 TTATTATTGTT
1 TTATTATTGTT
19894604 GTTTCTACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
12 25 0.62
13 5 0.12
14 5 0.12
15 5 0.12
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.66
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:19894606 original size:15 final size:15
Alignment explanation
Indices: 19894542--19894606 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
19894532 AGTCCCTTTT
19894542 TTATTATTATTATTTAG
1 TTATTATTATTA-TT-G
* *
19894559 TTCATTGTTTTTATTG
1 TT-ATTATTATTATTG
* *
19894575 TTGTTATTATTAATG
1 TTATTATTATTATTG
*
19894590 TTATTATTATTGTTG
1 TTATTATTATTATTG
19894605 TT
1 TT
19894607 TCTACATTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
15 23 0.61
16 3 0.08
17 4 0.11
18 8 0.21
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.66
Consensus pattern (15 bp):
TTATTATTATTATTG
Found at i:19900535 original size:51 final size:50
Alignment explanation
Indices: 19900403--19900537 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
19900393 TGAAGTTGTT
* * *
19900403 AGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAATGAT
1 AGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAATGAA
* * *
19900453 AGATCGCATGTATAGTACTATGTGCAGGCTACTACGTGTA-TCGG-ATGAAA
1 AGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGAATG-AA
*
19900503 ATGGTCACATGTGTAGTACTATGTGCATGCTACTA
1 A-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
19900538 TGTAAACCGG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.06
50 39 0.54
51 29 0.40
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAATGAA
Found at i:19903983 original size:75 final size:75
Alignment explanation
Indices: 19903897--19904062 Score: 206
Period size: 75 Copynumber: 2.2 Consensus size: 75
19903887 TGTACCCAAC
* * * *
19903897 GCTAGTTGGATAAACCAAAAAATATATTGGTGTACCCTGCACTAGTCAAATAAACTGACGGAGGT
1 GCTAGTCGGATAAACCAAAAAATATAATAGTGTACCCTGCACTAGTCAAATAAACTGACGAAGGT
* *
19903962 TGCGCCCAGT
66 TGCGCCAAGA
** * * * *
19903972 GCTAGTCGGATAAACTGATAGATATAATAGTGTGCCCTGCACTAGTCAGATAAACTGACGAAGGT
1 GCTAGTCGGATAAACCAAAAAATATAATAGTGTACCCTGCACTAGTCAAATAAACTGACGAAGGT
19904037 TGCGCCAAGA
66 TGCGCCAAGA
* *
19904047 ACTAGTCAGATAAACC
1 GCTAGTCGGATAAACC
19904063 GACGAAGGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (75 bp):
GCTAGTCGGATAAACCAAAAAATATAATAGTGTACCCTGCACTAGTCAAATAAACTGACGAAGGT
TGCGCCAAGA
Found at i:19904095 original size:35 final size:35
Alignment explanation
Indices: 19904012--19904080 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
19904002 TGTGCCCTGC
* *
19904012 ACTAGTCAGATAAACTGACGAAGGTTGCGCCAAGA
1 ACTAGTCAGATAAACCGACGAAGGTTGCCCCAAGA
19904047 ACTAGTCAGATAAACCGACGAAGGTTGCACCCAA
1 ACTAGTCAGATAAACCGACGAAGGTTGC-CCCAA
19904081 TACTAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (35 bp):
ACTAGTCAGATAAACCGACGAAGGTTGCCCCAAGA
Found at i:19906950 original size:24 final size:24
Alignment explanation
Indices: 19906923--19906968 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19906913 TAGTAAACAT
* *
19906923 GTATTCTATAAGTGTCTTTGTGGC
1 GTATTCTATAAGAGCCTTTGTGGC
*
19906947 GTATTCTGTAAGAGCCTTTGTG
1 GTATTCTATAAGAGCCTTTGTG
19906969 TTGGAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (24 bp):
GTATTCTATAAGAGCCTTTGTGGC
Found at i:19910032 original size:14 final size:14
Alignment explanation
Indices: 19910013--19910039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19910003 GGTTTTGATG
19910013 TTAAAATTTCAAAT
1 TTAAAATTTCAAAT
19910027 TTAAAATTTCAAA
1 TTAAAATTTCAAA
19910040 ATAATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAATTTCAAAT
Found at i:19928026 original size:50 final size:50
Alignment explanation
Indices: 19927961--19928189 Score: 219
Period size: 50 Copynumber: 4.6 Consensus size: 50
19927951 GGTCCAATGC
* * * *
19927961 AAGACCATGTTTGGGAAATTGCATTGGCACTGAGATGAGAGGTCCCCCGT
1 AAGACCATGTATGGGACATGGCATTGGCACTGAGATGAGAGGTCCCACGT
* * * ** *
19928011 AAGACCATGTATGGGACATGGCATGGGCACTAATATGAGAACTCCCATGT
1 AAGACCATGTATGGGACATGGCATTGGCACTGAGATGAGAGGTCCCACGT
* * * * * ** *
19928061 AAGACCATATATGGGATATGGCATTGGCAGT-ACA-GAAAACATCCCATGT
1 AAGACCATGTATGGGACATGGCATTGGCACTGAGATG-AGAGGTCCCACGT
* * * *
19928110 AAGACCATGTCTGGGACATGGCATTGGGACCGAGATGAGAGGTCCCCCGT
1 AAGACCATGTATGGGACATGGCATTGGCACTGAGATGAGAGGTCCCACGT
* *
19928160 AAGACCATGTCTGGGACATGGCATGGGCAC
1 AAGACCATGTATGGGACATGGCATTGGCAC
19928190 CGATATAAGA
Statistics
Matches: 144, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
48 1 0.01
49 37 0.26
50 105 0.73
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGACCATGTATGGGACATGGCATTGGCACTGAGATGAGAGGTCCCACGT
Found at i:19928148 original size:99 final size:100
Alignment explanation
Indices: 19928009--19928236 Score: 239
Period size: 99 Copynumber: 2.3 Consensus size: 100
19927999 GAGGTCCCCC
* * * *
19928009 GTAAGACCATGTATGGGACATGGCA-TGGGCACTAATATGAGAACTCCCATGTAAGACCATATAT
1 GTAAGACCATGTCTGGGACATGGCATTGGGCACCAAGATGAGAACTCCCACGTAAGACCATATAT
* *
19928073 GGGATATGGCATTGGCA-G-TACAGAAAACATCCCAT
66 GGGACATGGCATGGGCACGATACA-AAAAC-TCCCAT
* ** * * *
19928108 GTAAGACCATGTCTGGGACATGGCATTGGG-ACCGAGATGAGAGGTCCCCCGTAAGACCATGTCT
1 GTAAGACCATGTCTGGGACATGGCATTGGGCACCAAGATGAGAACTCCCACGTAAGACCATATAT
* * *
19928172 GGGACATGGCATGGGCACCGATATAAGAACTCTCAT
66 GGGACATGGCATGGGCA-CGATACAAAAACTCCCAT
* * *
19928208 GTAAGACCATATCTGGGATATGGAATTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
19928237 TAGTACAGAA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
99 64 0.60
100 35 0.33
101 5 0.05
102 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGGCATTGGGCACCAAGATGAGAACTCCCACGTAAGACCATATAT
GGGACATGGCATGGGCACGATACAAAAACTCCCAT
Found at i:19928212 original size:50 final size:50
Alignment explanation
Indices: 19928009--19928280 Score: 225
Period size: 50 Copynumber: 5.5 Consensus size: 50
19927999 GAGGTCCCCC
* ** *
19928009 GTAAGACCATGTATGGGACATGGCATGGGCACTAATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCAT
* * * * * *
19928059 GTAAGACCATATATGGGATATGGCATTGGCA--G-TACAGAAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATA-AGAAC-TCCCAT
* * ** **
19928108 GTAAGACCATGTCTGGGACATGGCATTGGG-ACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCA-TGGGCACCGATATAAGAACTCCCAT
*
19928158 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCAT
* * * * * * *
19928208 GTAAGACCATATCTGGGATATGGAATTGGTA--G-TACAGAAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATA-AGAAC-TCCCAT
*
19928257 GTAAGACCATGACTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
19928281 TTTGGCATGT
Statistics
Matches: 175, Mismatches: 38, Indels: 19
0.75 0.16 0.08
Matches are distributed among these distances:
47 5 0.03
48 9 0.05
49 58 0.33
50 99 0.57
51 3 0.02
52 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCAT
Found at i:19928236 original size:149 final size:149
Alignment explanation
Indices: 19927961--19928287 Score: 519
Period size: 149 Copynumber: 2.2 Consensus size: 149
19927951 GGTCCAATGC
* * * *
19927961 AAGACCATGTTTGGGAAATTGCATTGGCACTGAGATGAGAGGTCCCCCGTAAGACCATGTATGGG
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGG
* * *
19928026 ACATGGCATGGGCACTAATATGAGAACTCCCATGTAAGACCATATATGGGATATGGCATTGGCAG
66 ACATGGCATGGGCACCAATATAAGAACTCCCATGTAAGACCATATATGGGATATGGAATTGGCAG
19928091 TACAGAAAACATCCCATGT
131 TACAGAAAACATCCCATGT
* *
19928110 AAGACCATGTCTGGGACATGGCATTGGGACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGG
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGG
* * * *
19928175 ACATGGCATGGGCACCGATATAAGAACTCTCATGTAAGACCATATCTGGGATATGGAATTGGTAG
66 ACATGGCATGGGCACCAATATAAGAACTCCCATGTAAGACCATATATGGGATATGGAATTGGCAG
19928240 TACAGAAAACATCCCATGT
131 TACAGAAAACATCCCATGT
* *
19928259 AAGACCATGACTGGGACATGGCTTTGGCA
1 AAGACCATGTCTGGGACATGGCATTGGCA
19928288 TGTTATTATC
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
149 162 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (149 bp):
AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGG
ACATGGCATGGGCACCAATATAAGAACTCCCATGTAAGACCATATATGGGATATGGAATTGGCAG
TACAGAAAACATCCCATGT
Found at i:19939606 original size:27 final size:26
Alignment explanation
Indices: 19939578--19939636 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
19939568 GATCCAATTC
* *
19939578 AAAAAAAAGGAGAAAAAAATCAAAATCA
1 AAAAAAAAGAAGAAAAAGA--AAAATCA
19939606 AAACAAAAAGAAGAAAAAGAAAAATCA
1 AAA-AAAAAGAAGAAAAAGAAAAATCA
19939633 AAAA
1 AAAA
19939637 TCAAGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 10 0.36
28 3 0.11
29 14 0.50
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (26 bp):
AAAAAAAAGAAGAAAAAGAAAAATCA
Found at i:19939674 original size:13 final size:13
Alignment explanation
Indices: 19939645--19939689 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
19939635 AATCAAGGTC
*
19939645 AAAATGAAAATGAA
1 AAAAGGAAAA-GAA
*
19939659 AAAAGAGAGAAGAA
1 AAAAG-GAAAAGAA
19939673 AAAAGGAAAAGAA
1 AAAAGGAAAAGAA
19939686 AAAA
1 AAAA
19939690 AAAGGAGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 11 0.41
14 12 0.44
15 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (13 bp):
AAAAGGAAAAGAA
Found at i:19939690 original size:14 final size:14
Alignment explanation
Indices: 19939650--19939689 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
19939640 AGGTCAAAAT
19939650 GAAAATGAAAAAAGA
1 GAAAA-GAAAAAAGA
*
19939665 GAGAAGAAAAAAG-
1 GAAAAGAAAAAAGA
19939678 GAAAAGAAAAAA
1 GAAAAGAAAAAA
19939690 AAAGGAGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 8 0.35
15 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
GAAAAGAAAAAAGA
Found at i:19941765 original size:43 final size:43
Alignment explanation
Indices: 19941712--19941835 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 43
19941702 GAAATTACAG
* *
19941712 ATCTTGTCTCCCTAAGCA-ACAGTGGAGCAGATTAAAGCCAGAA
1 ATCTTATCTCCCTAAG-ATACAGCGGAGCAGATTAAAGCCAGAA
* * * * *
19941755 ATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTAAGA-TACAGCGGAGCAGATTAAAGCCAGAA
* * *
19941799 ATCCTATCTCCCTGAGATTACAGTGGAGC-GAATTAAA
1 ATCTTATCTCCCTAAGA-TACAGCGGAGCAG-ATTAAA
19941836 ATAAAGGATC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 15 0.22
44 51 0.76
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGATACAGCGGAGCAGATTAAAGCCAGAA
Found at i:19941807 original size:44 final size:44
Alignment explanation
Indices: 19941730--19942119 Score: 146
Period size: 44 Copynumber: 8.4 Consensus size: 44
19941720 TCCCTAAGCA
* *
19941730 ACAGTGGAGCAGATTAAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTAAAGCCAGAAATCCTATCTCCCTGAGATT
* * * *
19941774 ATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTAAAGCCAGAAATCCTATCTCCCTGAGATT
* ** * *
19941818 ACAGTGGAGC-GAATTAAA-ATA-AAGGATCTTATCTCTCTGA-AGTT
1 ACAGCGGAGCAG-ATTAAAGCCAGAA--ATCCTATCTCCCTGAGA-TT
* * ** *
19941862 ACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATATTATCTCCCTGATATT
1 AC---AGCG--GA--G---CAGATTAAAGCCAGAAATCCTATCTCCCTGAGATT
* * * * *
19941916 ACAGGGGAGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTAAAGCCAGAAATCCTATCTCCCTGAGATT
* * ** * *
19941960 ACAGTGGAGCAAATTAAA-ATA-AAGGATCTTATCTCTCTGAAGTTATAGT
1 ACAGCGGAGCAGATTAAAGCCAGAA--ATCCTATCTCCCTG-AG--AT--T
* * * * *
19942009 AGAGTAGATCGCATCAGATTCAAGCCA-AGAATCTTATCTCCCTGAGATT
1 --A-CAG--CGGAGCAGATTAAAGCCAGA-AATCCTATCTCCCTGAGATT
* * * *
19942058 ACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTAAAGCCAGAAATCCTATCTCCCTGAGATT
* *
19942102 ACAGTGGAGCGGATTAAA
1 ACAGCGGAGCAGATTAAA
19942120 ATAAAGGATC
Statistics
Matches: 261, Mismatches: 52, Indels: 66
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.01
43 6 0.02
44 172 0.66
45 2 0.01
46 2 0.01
47 7 0.03
49 6 0.02
51 7 0.03
52 2 0.01
53 2 0.01
54 45 0.17
55 5 0.02
56 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAGCGGAGCAGATTAAAGCCAGAAATCCTATCTCCCTGAGATT
Found at i:19941940 original size:142 final size:142
Alignment explanation
Indices: 19941739--19942735 Score: 1604
Period size: 142 Copynumber: 7.0 Consensus size: 142
19941729 AACAGTGGAG
* *
19941739 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
19941804 ATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19941869 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
19941881 CAGATTGAAGCCAGAAATATTATCTCCCTGATATTACAGGGGAGCAGATTGAAGCTAGTAATTCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
** *
19941946 ATCTCCCTGAGATTACAGTGGAGCAAATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19942011 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
19942023 CAGATTCAAGCCA-AGAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
1 CAGATTGAAGCCAGA-AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
19942087 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
65 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
19942152 GAGTAGATCACAT
130 GAGTAGATCGCAT
* * *
19942165 CAGATTGAAGCC-GAAAATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAGCTAGGAATCC
1 CAGATTGAAGCCAG-AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
* * *
19942229 CATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTTATATCTCTGAAGTTACAGTA
65 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
19942294 GAGTAGATCGCAT
130 GAGTAGATCGCAT
* * * * *
19942307 CAGATTGAAGCCAAAAATCTTATCTCCCTAATATTACAGCGGAGCAGATTGAAGTTAGTAATCCC
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
19942372 ATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19942437 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
19942449 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAAT-CT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
19942513 CATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
66 -ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
19942578 GAGTATATCGCAT
130 GAGTAGATCGCAT
* * * *
19942591 CAAATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
19942656 ATCTCCTTGAGATTACAGTGGAGTGGATTAAGATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
19942721 GGTAGATCGCAT
131 AGTAGATCGCAT
19942733 CAG
1 CAG
19942736 GTCTTATCTC
Statistics
Matches: 790, Mismatches: 59, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
141 2 0.00
142 785 0.99
143 3 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:19942135 original size:44 final size:45
Alignment explanation
Indices: 19942039--19942718 Score: 158
Period size: 44 Copynumber: 14.5 Consensus size: 45
19942029 CAAGCCAAGA
* ** **
19942039 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGCG
*
19942083 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
* * ** * *
19942127 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCGGATTA-A--A-A-TAAAG-CG
* * **
19942178 AAAATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAGCT--AG-G
1 ---ATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGCG
** *
19942224 AATCCCATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAG-G
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
* * * * * * * *
19942269 ATCTTATATCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAA
1 ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CGGATTAAAATAAAG-C---G
* * * * * * * **
19942323 ATCTTATCTCCCTAATATTACAGCGGAGCAGATTGAAGT-TAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
** * *
19942367 ATCCCATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
* * * * *
19942411 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTAAAGCCAG
1 ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CGGATTAAAATAAAG-C-G
** * ** **
19942463 AAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCT--AGTA
1 --ATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGCG
* *
19942509 ATCTCATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
* * * * * *
19942553 ATCTTATCTCTCTGA-AGTTACAGTAGAGTATATCGCATCAAATTGAAGCCAG
1 ATCTTATCTCCCTGAGA-TTACAGT-G-G---AGCGGATTAAAATAAAG-C-G
* * * * * **
19942605 AAATCTTATCTCCTTGAGATTACAGCGGAACAGATTAAAGCT--AGTA
1 --ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAA-ATAAAGCG
* * * *
19942651 ATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAGATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
*
19942695 ATCTTATCTCTCTGA-AGTTACAGT
1 ATCTTATCTCCCTGAGA-TTACAGT
19942719 AGGGTAGATC
Statistics
Matches: 461, Mismatches: 114, Indels: 122
0.66 0.16 0.18
Matches are distributed among these distances:
43 15 0.03
44 257 0.56
45 13 0.03
46 4 0.01
47 5 0.01
48 9 0.02
49 52 0.11
50 4 0.01
51 5 0.01
52 5 0.01
53 2 0.00
54 85 0.18
55 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGCG
Found at i:19942870 original size:50 final size:50
Alignment explanation
Indices: 19942811--19943575 Score: 499
Period size: 50 Copynumber: 15.3 Consensus size: 50
19942801 GTAGTGGAAC
* * *
19942811 AGATTAAAGCCACATCAGTGCATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* * * ** ** * **
19942861 AGATTAAAGCCACAGCAGCGAATCTTACTTCTCTGGTGA-TGTCAGTGGAGC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTC-CCCGACATTG-CAGTGAAAA
* * * * *
19942912 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACTTTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* * * * * * ** * *
19942962 AGATTAAATCTACAAT-AGCGGATCTTAC-TCCCCAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCAC-ATCAGTGAATCTTGCTTCCCC-GACATTGCAGTGAAAA
**
19943012 AGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGCT-AAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAG-TGAAAA
* * * * * * * * * * *
19943062 AGATTAAAGCCACAGCGGCGAATCCTACCTCTCTGGCGATAT--AGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGAC-AT-TGCAGTGAAAA
* * *
19943112 AGATTAAAGCCACATTAGTGAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* * * * * * *
19943162 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCC-GAC-ATTGCAGTGAAAA
* * *
19943212 AGATTAAAGCCACAAT-GGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCAC-ATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* * * * * * * * * * *
19943262 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCAGTGTAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* ** *
19943312 AGATTGAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* * ** * * * ** * *
19943362 AGATTAAAGCTACAACAACGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
* *
19943412 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
** * * * * * * **
19943462 AGATTAAAGTTACAACAGCGAATCTTACTT-CCCTAGCAGTGCAGTGGAGC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGA-CATTGCAGTGAAAA
* *
19943512 AGATTAAAGCCACATC-GATAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAG-TGAATCTTGCTTCCCCGACATTGCAGTGAAAA
19943562 AGATTAAAGCCACA
1 AGATTAAAGCCACA
19943576 ATGGTGAATC
Statistics
Matches: 515, Mismatches: 178, Indels: 44
0.70 0.24 0.06
Matches are distributed among these distances:
48 1 0.00
49 22 0.04
50 434 0.84
51 57 0.11
52 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAA
Found at i:19943044 original size:100 final size:100
Alignment explanation
Indices: 19942803--19943590 Score: 1026
Period size: 100 Copynumber: 7.9 Consensus size: 100
19942793 CAAGAGATGT
* * *
19942803 AGTGGAACAGATTAAAGCCACATCAGTGCATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * * * * * *
19942868 AGCCACAGCAGCGAATCTTACTTCTCTGGTGATGTC
66 AGCTACAACAGCGAATCTTACTCCCCAGGCGGTG-C
* * * *
19942904 AGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACTTTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * *
19942969 ATCTACAATAGCGGATCTTACTCCCCAGGCGGTGC
66 AGCTACAACAGCGAATCTTACTCCCCAGGCGGTGC
* * *
19943004 AGTGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGCTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * * * * * * **
19943069 AGCCACAGCGGCGAATCCTAC-CTCTCTGGCGATAT
66 AGCTACAACAGCGAATCTTACTC-CCCAGGCGGTGC
** *
19943104 AGTGGAACAGATTAAAGCCACATTAGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
*
19943169 AGCTACAACAGCGAATCTTACTCCCCAGGCGATGC
66 AGCTACAACAGCGAATCTTACTCCCCAGGCGGTGC
*
19943204 AGTGGAACAGATTAAAGCCACAAT-GGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTA
1 AGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
* * *
19943268 AAGCTACAGCAGCGAATCTTAC-CTCCCAGGCAGTGT
65 AAGCTACAACAGCGAATCTTACTC-CCCAGGCGGTGC
* * *
19943304 AGTGGAACAGATTGAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * *
19943369 AGCTACAACAACGAATCTTACTTCCCTGGCGGTGC
66 AGCTACAACAGCGAATCTTACTCCCCAGGCGGTGC
19943404 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * *
19943469 AGTTACAACAGCGAATCTTACTTCCCTA-GCAGTGC
66 AGCTACAACAGCGAATCTTAC-TCCCCAGGCGGTGC
* * *
19943504 AGTGGAGCAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* ** *
19943569 AGCCACAATGGTGAATCTTACT
66 AGCTACAACAGCGAATCTTACT
19943591 TTCCAAAAGT
Statistics
Matches: 599, Mismatches: 81, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
99 5 0.01
100 506 0.84
101 88 0.15
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
AGCTACAACAGCGAATCTTACTCCCCAGGCGGTGC
Found at i:19944349 original size:22 final size:21
Alignment explanation
Indices: 19944300--19944349 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
19944290 TTCTTTTTTC
*
19944300 CTTTTCCGATTGGGTTCTTTTT
1 CTTTTCCGATT-GGTTCTCTTT
19944322 CTTTTCCGATT-GTTCATCTTT
1 CTTTTCCGATTGGTTC-TCTTT
19944343 CTATTTC
1 CT-TTTC
19944350 TGTCTTGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 6 0.24
22 15 0.60
ACGTcount: A:0.08, C:0.22, G:0.12, T:0.58
Consensus pattern (21 bp):
CTTTTCCGATTGGTTCTCTTT
Found at i:19962037 original size:54 final size:50
Alignment explanation
Indices: 19961964--19962097 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
19961954 GGGATGAGAC
* * **
19961964 CCCATGTAAGACCATGTCTGGGACATGGCAGGCATTATTGAGGTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGC-GGCAGTACCGA-G--ATGAGAGGT
***
19962018 CCCACGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCGGCAGTACCGAGATGAGAGGT
* *
19962068 CCCCCGTAAGACCATCTCTGGGACATGGCG
1 CCCACGTAAGACCATGTCTGGGACATGGCG
19962098 TGGGCAACAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
50 37 0.52
52 1 0.01
53 5 0.07
54 28 0.39
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (50 bp):
CCCACGTAAGACCATGTCTGGGACATGGCGGCAGTACCGAGATGAGAGGT
Found at i:19962113 original size:50 final size:50
Alignment explanation
Indices: 19962008--19962146 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
19961998 TTATTGAGGT
* * * * *
19962008 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGTACCGA
1 TATGAGAGGTCCCACGTAAGACCATCTCTGGGACATGGCGTGGGCAACAA
* *
19962058 GATGAGAGGTCCCCCGTAAGACCATCTCTGGGACATGGCGTGGGCAACAA
1 TATGAGAGGTCCCACGTAAGACCATCTCTGGGACATGGCGTGGGCAACAA
** * * *
19962108 TATGAGAACTCTCATGTAAGACCATAC-CTGGGATATGGC
1 TATGAGAGGTCCCACGTAAGACCAT-CTCTGGGACATGGC
19962147 AATTGCAGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 73 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATCTCTGGGACATGGCGTGGGCAACAA
Found at i:19962430 original size:20 final size:20
Alignment explanation
Indices: 19962405--19962443 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19962395 TGAGTTATTT
19962405 AAGTAAG-GAAGTAAGTAAAC
1 AAGTAAGAG-AGTAAGTAAAC
19962425 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
19962444 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:19968198 original size:108 final size:110
Alignment explanation
Indices: 19968007--19968326 Score: 497
Period size: 110 Copynumber: 2.9 Consensus size: 110
19967997 AATTCAATAT
* *
19968007 GATATTTGGCTATTTGGTTAAATGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGA
1 GATATTTGGCTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
19968069 ATTTCCAAACGCAAAACATTGCCTTATTTTG-AATTTTTAAAA-G
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGG
* *
19968112 GATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
1 GATATTTGGCTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
19968177 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGG
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGG
* ** *
19968222 GATATTTGACTATTTGGTCAAACGAGAAAGGTCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
* * *
19968287 ATTTCCAAACGCAAAATATTACCTTATTTGGAAAATTTTT
66 ATTTCCAAACGCAAAACATTGCCTTATTTTG-AAATTTTT
19968327 CCTTTTTGAA
Statistics
Matches: 196, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
105 22 0.11
107 28 0.14
108 39 0.20
109 11 0.06
110 88 0.45
111 8 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (110 bp):
GATATTTGGCTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGG
Found at i:19968828 original size:28 final size:30
Alignment explanation
Indices: 19968797--19968875 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 30
19968787 ATATATATCC
*
19968797 TAAAATATGTATGTATATAT-TA-AGATAA
1 TAAAATATGTATGTATATATACATAGATAA
* * *
19968825 T-AAA-ATGCATGCATATATACATAGATTA
1 TAAAATATGTATGTATATATACATAGATAA
19968853 TAAAATATAGATATGTATATATA
1 TAAAATAT-G-TATGTATATATA
19968876 TATATGTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 12 0.31
27 4 0.10
28 7 0.18
29 3 0.08
30 2 0.05
31 1 0.03
32 10 0.26
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (30 bp):
TAAAATATGTATGTATATATACATAGATAA
Found at i:19968874 original size:14 final size:14
Alignment explanation
Indices: 19968857--19968886 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19968847 AGATTATAAA
19968857 ATATAGATATGTAT
1 ATATAGATATGTAT
*
19968871 ATATATATATGTAT
1 ATATAGATATGTAT
19968885 AT
1 AT
19968887 GTTTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATATAGATATGTAT
Found at i:19970763 original size:44 final size:44
Alignment explanation
Indices: 19970703--19970924 Score: 201
Period size: 44 Copynumber: 5.2 Consensus size: 44
19970693 GATGCGATCT
* *
19970703 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
*
19970747 GCTCCATTGCAACTTC----AGATAAGATCTGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
* * * * ** *
19970787 GCTCCACTGCAACTTCAGGGAAAT-AGTATCGGT-TTCTTTTGTCT
1 GCTCCACTGCAACTTCAGAGAGATAAG-ATCTGTGAT-TTTAATCC
* * *** *
19970831 GCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
* *
19970872 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
19970916 GCTCCACTG
1 GCTCCACTG
19970925 TAATCCCCGG
Statistics
Matches: 140, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
40 39 0.28
41 29 0.21
42 2 0.01
43 6 0.04
44 62 0.44
45 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
Found at i:19970772 original size:40 final size:40
Alignment explanation
Indices: 19970723--19970804 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
19970713 AACTTCAGAG
*
19970723 AGATAAGATCTGTGATTTTAATCCGCTCCATTGCAACTTC
1 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTC
19970763 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTC
1 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTC
19970803 AG
1 AG
19970805 GGAAATAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (40 bp):
AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTC
Found at i:19970887 original size:169 final size:169
Alignment explanation
Indices: 19970608--19970921 Score: 502
Period size: 169 Copynumber: 1.9 Consensus size: 169
19970598 AGGATTCATC
* * * *
19970608 ATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAGTATCTTCAGTCTGCCCCACCGTA
1 ATTTTAATCCGCTCCACTACAACTTCAGGGAAATAGGATCAGTATCTTCAGTCTGCCCCACCGCA
*
19970673 ACTTTAGGGAGATAAAACTAGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGA
66 ACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGA
19970738 TTTTAATCCGCTCCATTGCAACTTCAGATAAGATCTGTG
131 TTTTAATCCGCTCCATTGCAACTTCAGATAAGATCTGTG
* * * * ** * *
19970777 ATTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGTATCGGTTTCTTTTGTCTGCTCCACTGCA
1 ATTTTAATCCGCTCCACTACAACTTCAGGGAAATAGGATCAGTATCTTCAGTCTGCCCCACCGCA
*
19970842 ACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGA
66 ACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGA
19970907 TTTTAATCCGCTCCA
131 TTTTAATCCGCTCCA
19970922 CTGTAATCCC
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
169 131 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (169 bp):
ATTTTAATCCGCTCCACTACAACTTCAGGGAAATAGGATCAGTATCTTCAGTCTGCCCCACCGCA
ACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCGCTCCATTGCAACTTCAGATAAGATCTGTG
Found at i:19971035 original size:98 final size:98
Alignment explanation
Indices: 19970862--19971058 Score: 288
Period size: 98 Copynumber: 2.0 Consensus size: 98
19970852 GATAAGACTA
* * *
19970862 GATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGTA
1 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTATA
* *
19970927 ATCCCCGGGAGATAGGATTACTGGCTTCAATCT
66 ATCCCAGGGAGATAGGATTACTAGCTTCAATCT
* * *
19970960 GATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCAT-TTATTTTAATCCACTCCATTAT
1 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-TGTGATTTTAATCCACTCCACTAT
* *
19971024 AATCTCAGGGAGATATGATTACTAGCTTCAATCT
65 AATCCCAGGGAGATAGGATTACTAGCTTCAATCT
19971058 G
1 G
19971059 CTCCGCTGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 87 0.99
99 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (98 bp):
GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTATA
ATCCCAGGGAGATAGGATTACTAGCTTCAATCT
Found at i:19971072 original size:44 final size:44
Alignment explanation
Indices: 19971023--19971560 Score: 129
Period size: 44 Copynumber: 12.5 Consensus size: 44
19971013 CACTCCATTA
** * *
19971023 TAATCTCAGGGAGATATGAT-TACTAGCTTCAATCTGCTCCGCTG
1 TAATCTCAAAGAGATAAGATCT-CTAGCTTCAATCTGCTCCACTG
* *
19971067 TAATCTCAAAGAGATAAGATCTCTGGCTTCAATTTGCTCCACTG
1 TAATCTCAAAGAGATAAGATCTCTAGCTTCAATCTGCTCCACTG
* * * ** ** ** *
19971111 TAACCTTAAGGAGATAAGATCTAAAATTTTTCGGTCTACTCCACTG
1 TAATCTCAAAGAGATAAGATCT-CTA-GCTTCAATCTGCTCCACTG
* ** * * * * *
19971157 TAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTACTG
1 TAATCTCAAAGAGATAAGATCTCTAGCTTCAATCTGCTCCACTG
* * ** * **
19971198 TAA-CTTCAGAGAGATAAGATCCTTTATTTTTAATCCACTCCACTG
1 TAATC-TCAAAGAGATAAGAT-CTCTAGCTTCAATCTGCTCCACTG
* *
19971243 TAA-CTTC--AG-GAT-AG---TGT--CTTCAATCTGCTCCGCTG
1 TAATC-TCAAAGAGATAAGATCTCTAGCTTCAATCTGCTCCACTG
** *
19971278 TAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
1 TAATCTCAAAGAGATAAGATCTCTAGCTTCAATCTGCTCCACTG
** ** * * * *
19971322 TAA-CATCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTA
1 TAATC-TCAAAGAGATAAGATCT-CTA-GCTTCAATCTGCTCCACTG
* ** * * * ***
19971368 TAACCTCAGGGAGATAAGA-C-CT-GATGCGATC-GACAATACTG
1 TAATCTCAAAGAGATAAGATCTCTAGCTTCAATCTG-CTCCACTG
* * * * *
19971409 TAA-CTTCAGAGAGATGAGATCTTTTA-TTTTAATCTGCTCCACTG
1 TAATC-TCAAAGAGATAAGATC-TCTAGCTTCAATCTGCTCCACTG
** * * * * *
19971453 TAA-CTTCAGGGAGATAGGATAGT-T-TCTTCGATCTGCTCCGCTG
1 TAATC-TCAAAGAGATAAGAT-CTCTAGCTTCAATCTGCTCCACTG
** *
19971496 TAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT-
1 TAATCTCAAAGAGATAAGATCTCTAGCTTCAATCTGCTCCACTG
* **
19971539 TAACCTCAGGGAGATAAGATCT
1 TAATCTCAAAGAGATAAGATCT
19971561 GAAATTCTTC
Statistics
Matches: 372, Mismatches: 88, Indels: 69
0.70 0.17 0.13
Matches are distributed among these distances:
35 18 0.05
36 1 0.00
37 3 0.01
38 3 0.01
39 2 0.01
40 2 0.01
41 55 0.15
42 7 0.02
43 58 0.16
44 137 0.37
45 23 0.06
46 62 0.17
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
TAATCTCAAAGAGATAAGATCTCTAGCTTCAATCTGCTCCACTG
Found at i:19971488 original size:43 final size:43
Alignment explanation
Indices: 19971440--19971603 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 43
19971430 TTTTATTTTA
* * *
19971440 ATCTGCTCCACTGTAACTTCAGGGAGATAGGATAGTTTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATAATTTCTTCG
* * * * *
19971483 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATAAT-T-TCTTCG
*
19971527 ATCTGCTCCACT-TAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA--T-AATTTCTTCG
* *
19971572 GTCTACTCCACTGTAACCTCAGGGAGATAAGA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA
19971604 CCTGATGCGA
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 48 0.48
44 15 0.15
45 15 0.15
46 20 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATAATTTCTTCG
Found at i:19971609 original size:217 final size:217
Alignment explanation
Indices: 19970958--19971776 Score: 1111
Period size: 211 Copynumber: 3.8 Consensus size: 217
19970948 TGGCTTCAAT
* * * * *
19970958 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCATTA
1 CTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTG
* * * **
19971023 TAA-TCTCAGGGAGATATGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAAGAGATAAGAT
66 TAACT-TCAGGGAGATAGGA-TAGT-TCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* * * * *
19971087 CTCTGGCTTCAATTTGCTCCACTGTAACCTTAAGGAGATAAGATCTAAAATTTTTCGGTCTACTC
128 CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
19971152 CACTGTAACCTCAGGGAGATAAGAC
193 CACTGTAACCTCAGGGAGATAAGAC
* *
19971177 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAATCCACTCCACT
1 CTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATCTTTTA-TTTTAATCCACTCCACT
19971242 GTAACTTCA--G-GATA-G-T-G-TCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
65 GTAACTTCAGGGAGATAGGATAGTTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
* *
19971300 CTGGCTTCAATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCA
130 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCA
*
19971365 CTATAACCTCAGGGAGATAAGAC
195 CTGTAACCTCAGGGAGATAAGAC
** * **
19971388 CTGATGCGATCGACAATACTGTAACTTCAGAGAGATGAGATCTTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTG
*
19971453 TAACTTCAGGGAGATAGGATAGTTTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
66 TAACTTCAGGGAGATAGGATAG-TTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
19971518 CTGGCTTCAATCTGCTCCACT-TAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCA
130 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCA
19971582 CTGTAACCTCAGGGAGATAAGAC
195 CTGTAACCTCAGGGAGATAAGAC
* *
19971605 CTGATGCGATCGACTCTACTGTAACTTCAGAGAGATGAGATCTTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTG
* * * * * *
19971670 TAACTTCAGGGAGATAGGATTA-TCGACTTCAATTTTCTCCACTGCAACCTCAGGGAGATAAGAT
66 TAACTTCAGGGAGATAGGA-TAGT--TCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-
* * * * * * *
19971734 TCGCT-TCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGA
127 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
19971777 CCTGCTTACT
Statistics
Matches: 541, Mismatches: 44, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
210 24 0.04
211 160 0.30
212 1 0.00
213 4 0.01
214 2 0.00
215 1 0.00
216 3 0.01
217 148 0.27
218 110 0.20
219 65 0.12
220 22 0.04
221 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (217 bp):
CTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTG
TAACTTCAGGGAGATAGGATAGTTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC
TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCAC
TGTAACCTCAGGGAGATAAGAC
Found at i:19971672 original size:44 final size:44
Alignment explanation
Indices: 19971261--19971776 Score: 259
Period size: 44 Copynumber: 11.8 Consensus size: 44
19971251 GGATAGTGTC
* * ***
19971261 TTCAATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGC
1 TTCAATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTTAT
* ***
19971305 TTCAATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAATT
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTA-T
* * * * * *
19971350 CTTCAGTCTACTCCACTATAACCTCAGGGAGATAAGA-C-CTGA-
1 -TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTAT
* * *** * *
19971392 TGCGATC-GACAATACTGTAACTTCAGAGAGATGAGATCTTTTAT
1 TTCAATCTG-CTCCACTGTAACTTCAGGGAGATAAGATCTTTTAT
* * ** *
19971436 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAGGATAGTTT-C
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTAT
* * * ***
19971479 TTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGC
1 TTCAATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTTAT
* ***
19971523 TTCAATCTGCTCCACT-TAACCTCAGGGAGATAAGATCTGAAATT
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTA-T
** * * * *
19971567 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGA-
1 -TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTAT
* * * * *
19971609 TGCGATC-GACTCTACTGTAACTTCAGAGAGATGAGATCTTTTAT
1 TTCAATCTG-CTCCACTGTAACTTCAGGGAGATAAGATCTTTTAT
* * * ** *
19971653 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-TATCGAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-TTTAT
* * * * ** *
19971697 TTCAATTTTCTCCACTGCAACCTCAGGGAGATAAGATTCGCTT-C
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-TCTTTTAT
* * * *
19971741 TTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGA
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA
19971777 CCTGCTTACT
Statistics
Matches: 351, Mismatches: 99, Indels: 44
0.71 0.20 0.09
Matches are distributed among these distances:
41 52 0.15
42 3 0.01
43 57 0.16
44 170 0.48
45 18 0.05
46 51 0.15
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTAT
Found at i:19973210 original size:6 final size:6
Alignment explanation
Indices: 19973201--19973236 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
19973191 CATTTTTACT
19973201 TTTTCA TTTTTCA TTTCTCA TTTTCA TTTTCA TTTT
1 TTTTCA -TTTTCA TTT-TCA TTTTCA TTTTCA TTTT
19973237 TTTTTTGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:19973210 original size:7 final size:7
Alignment explanation
Indices: 19973191--19973237 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
19973181 TTAGCCTCTC
19973191 CATTTTT
1 CATTTTT
19973198 -ACTTTTT
1 CA-TTTTT
19973205 CATTTTT
1 CATTTTT
*
19973212 CATTTCT
1 CATTTTT
19973219 CA-TTTT
1 CATTTTT
19973225 CA-TTTT
1 CATTTTT
19973231 CATTTTT
1 CATTTTT
19973238 TTTTTGCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 12 0.34
7 22 0.63
8 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:19973224 original size:13 final size:12
Alignment explanation
Indices: 19973201--19973236 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
19973191 CATTTTTACT
19973201 TTTTCATTTTTCA
1 TTTTCA-TTTTCA
19973214 TTTCTCATTTTCA
1 TTT-TCATTTTCA
19973227 TTTTCATTTT
1 TTTTCATTTT
19973237 TTTTTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 12 0.55
14 3 0.14
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCATTTTCA
Found at i:19974091 original size:28 final size:28
Alignment explanation
Indices: 19974060--19974123 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
19974050 CTCTTTTCAT
*
19974060 ATTTTTTTTGACTTTGA-TTTTGATTTTG
1 ATTTTTTTTCACTTTGACTTTT-ATTTTG
* **
19974088 ATTTTTCTTCTTTTTGACTTTTATTTTG
1 ATTTTTTTTCACTTTGACTTTTATTTTG
19974116 ATTTTTTT
1 ATTTTTTT
19974124 ATTTGAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.72
Consensus pattern (28 bp):
ATTTTTTTTCACTTTGACTTTTATTTTG
Found at i:19977812 original size:110 final size:107
Alignment explanation
Indices: 19977541--19977860 Score: 464
Period size: 110 Copynumber: 3.0 Consensus size: 107
19977531 AATTCAAGAT
* *
19977541 GATATTTGGCTATTTGGTTAAATGAGAAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAAT
*
19977605 TTCCAAACGCAAAACATTTCCTTATTTTGAAA-TTTTAAAAG
66 TTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAAG
* * *
19977646 GACATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
1 GATATTTGGCTATTTGGTCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
*
19977711 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGG
64 ATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAA-G
* *
19977756 GATATTTGACTATTTGGTCAAACGAGAAAGGTCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCAAACGAGAAA--TCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
* * *
19977821 ATTTCCAAACGTAAAATATTACCTTATTTGGAAAATTTTT
64 ATTTCCAAACGCAAAACATTACCTTATTTTG-AAATTTTT
19977861 CCTTTTTGAA
Statistics
Matches: 192, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
105 21 0.11
107 28 0.15
108 44 0.23
109 8 0.04
110 83 0.43
111 8 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAAT
TTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAAG
Found at i:19978363 original size:28 final size:29
Alignment explanation
Indices: 19978332--19978410 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 29
19978322 ATATATATCC
19978332 TAAAATATGTATGTATATATTA-AGATAA
1 TAAAATATGTATGTATATATTATAGATAA
* * * *
19978360 T-AAA-ATGCATGCATATATACATAGATTA
1 TAAAATATGTATGTATATAT-TATAGATAA
19978388 TAAAATATAGATATGTATATATT
1 TAAAATAT-G-TATGTATATATT
19978411 TATATGTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
26 12 0.32
27 4 0.11
28 7 0.18
29 3 0.08
30 2 0.05
31 1 0.03
32 9 0.24
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (29 bp):
TAAAATATGTATGTATATATTATAGATAA
Found at i:19978543 original size:11 final size:12
Alignment explanation
Indices: 19978519--19978548 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
19978509 ATATTTGATT
19978519 ATAATATCAATA
1 ATAATATCAATA
19978531 ATAATAT-AATA
1 ATAATATCAATA
19978542 ATAATAT
1 ATAATAT
19978549 TATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATCAATA
Found at i:19978555 original size:23 final size:23
Alignment explanation
Indices: 19978519--19978572 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
19978509 ATATTTGATT
* *
19978519 ATAATATCAATAA-TAATATAATA
1 ATAATATTAATAATTAAT-TAAAA
*
19978542 ATAATATTATTAATTAATTAAAA
1 ATAATATTAATAATTAATTAAAA
19978565 ATAA-ATTA
1 ATAATATTA
19978573 GCAAGCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 19 0.70
24 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATATTAATAATTAATTAAAA
Found at i:19984121 original size:44 final size:44
Alignment explanation
Indices: 19984072--19984159 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
19984062 TTAACAAGGA
19984072 ATATGAATTTATCTACTTTCACAAGTACATCTTCAATAATGCCC
1 ATATGAATTTATCTACTTTCACAAGTACATCTTCAATAATGCCC
19984116 ATATGAATTTATCTACTTTCACAAGTACATCTTCAATAATGCCC
1 ATATGAATTTATCTACTTTCACAAGTACATCTTCAATAATGCCC
19984160 CTAGGATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (44 bp):
ATATGAATTTATCTACTTTCACAAGTACATCTTCAATAATGCCC
Found at i:19988978 original size:19 final size:18
Alignment explanation
Indices: 19988909--19988983 Score: 66
Period size: 19 Copynumber: 4.0 Consensus size: 18
19988899 AGATATTCGA
19988909 GTATACTAAAATTTCT-AC
1 GTATA-TAAAATTTCTAAC
19988927 G-ATATTAAAATTTAC-AAC
1 GTATA-TAAAATTT-CTAAC
*
19988945 GTGATACTTAAATTTCTAAC
1 GT-ATA-TAAAATTTCTAAC
19988965 GTATATAAAAATTTCTAAC
1 GTATAT-AAAATTTCTAAC
19988984 CATTTTCTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
17 11 0.23
18 6 0.13
19 15 0.32
20 15 0.32
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (18 bp):
GTATATAAAATTTCTAAC
Found at i:19989057 original size:19 final size:19
Alignment explanation
Indices: 19989035--19989083 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
19989025 AGATATTCTT
19989035 GTATTGGTTAAAAAATTTG
1 GTATTGGTTAAAAAATTTG
* * * *
19989054 GTATCGTGTTAGACATTTTG
1 GTATTG-GTTAAAAAATTTG
19989074 GTATTGGTTA
1 GTATTGGTTA
19989084 GAAATTAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (19 bp):
GTATTGGTTAAAAAATTTG
Found at i:19989084 original size:19 final size:19
Alignment explanation
Indices: 19989022--19989089 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
19989012 AGAGCATCTC
*
19989022 GTTAGATATTCTT-GTATTG
1 GTTAGAAATT-TTGGTATTG
* * *
19989041 GTTAAAAAATTTGGTATCG
1 GTTAGAAATTTTGGTATTG
*
19989060 TGTTAGACATTTTGGTATTG
1 -GTTAGAAATTTTGGTATTG
19989080 GTTAGAAATT
1 GTTAGAAATT
19989090 AGAAATTTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
18 2 0.05
19 21 0.55
20 15 0.39
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (19 bp):
GTTAGAAATTTTGGTATTG
Found at i:19989597 original size:17 final size:16
Alignment explanation
Indices: 19989575--19989631 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
19989565 AATATGTTTG
19989575 AAAATTTTAAATTTGTA
1 AAAATTTTAAA-TTGTA
* *
19989592 AAAATTATAAAACTGTA
1 AAAATT-TTAAATTGTA
19989609 AAAATTTATAAATTGTA
1 AAAATTT-TAAATTGTA
19989626 AAAATT
1 AAAATT
19989632 ATAGTAGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.85
18 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAATTTTAAATTGTA
Found at i:19994083 original size:29 final size:28
Alignment explanation
Indices: 19994046--19994108 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
19994036 ATGAATATTT
* * *
19994046 ATAATACCTCTTTTCTTTTTAATTTTAA
1 ATAAAACCTCTTTTATTTTTAATTTGAA
*
19994074 AGTAAAACCTTTTTTATTTTTAATTTGAA
1 A-TAAAACCTCTTTTATTTTTAATTTGAA
19994103 ATAAAA
1 ATAAAA
19994109 TTGATTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.51
Consensus pattern (28 bp):
ATAAAACCTCTTTTATTTTTAATTTGAA
Found at i:20007159 original size:5 final size:5
Alignment explanation
Indices: 20007149--20007178 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
20007139 TTCTAGTAAT
20007149 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
20007179 GAGGTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:20013687 original size:25 final size:26
Alignment explanation
Indices: 20013650--20013700 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
20013640 GTTGTAAATC
20013650 AGAAAAATATCTTTAGA-AATTTTCT
1 AGAAAAATATCTTTAGAGAATTTTCT
* *
20013675 AGAATAATCTCTTTAGAGAATTTTCT
1 AGAAAAATATCTTTAGAGAATTTTCT
20013701 CTCTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAAATATCTTTAGAGAATTTTCT
Found at i:20014367 original size:19 final size:19
Alignment explanation
Indices: 20014334--20014373 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20014324 AAAATATCAT
*
20014334 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
20014353 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
20014372 AT
1 AT
20014374 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:20015951 original size:33 final size:33
Alignment explanation
Indices: 20015855--20015952 Score: 83
Period size: 33 Copynumber: 3.0 Consensus size: 33
20015845 TGGCATCCAC
* * * *
20015855 AAAATCGAGAAAGTCCACTG-GAGTAGTAAACAT
1 AAAATAGAGAAAGTCTACTGAGA-CAATAAACAT
* * * *
20015888 AGAATAGAGAAAGTCTGCTGGGACAGTAAACAT
1 AAAATAGAGAAAGTCTACTGAGACAATAAACAT
*
20015921 AAAATAGAGATAGT-TCACTGAGACAATAAACA
1 AAAATAGAGAAAGTCT-ACTGAGACAATAAACA
20015953 CAGATAAAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 50 0.94
34 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (33 bp):
AAAATAGAGAAAGTCTACTGAGACAATAAACAT
Found at i:20019792 original size:17 final size:17
Alignment explanation
Indices: 20019772--20019865 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
20019762 ATAATAATAT
20019772 TTTAATATTAAACTTAA
1 TTTAATATTAAACTTAA
* *
20019789 TTTAATATTTATCTTAA
1 TTTAATATTAAACTTAA
* * **
20019806 --TAGTGTTTTA-TTAA
1 TTTAATATTAAACTTAA
* *
20019820 TTTAATATTGAAATGATTAT
1 TTTAATATT-AAA--CTTAA
*
20019840 TTTAATATTAAATTTAA
1 TTTAATATTAAACTTAA
20019857 TTTAATATT
1 TTTAATATT
20019866 TATCTGGTAG
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
14 4 0.07
15 6 0.10
16 5 0.09
17 28 0.48
19 3 0.05
20 12 0.21
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAATATTAAACTTAA
Found at i:20019843 original size:20 final size:18
Alignment explanation
Indices: 20019814--20019865 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
20019804 AATAGTGTTT
20019814 TATTAATTTAATATTGAAA
1 TATTAATTTAATATT-AAA
*
20019833 TGATTATTTTAATATTAAA
1 T-ATTAATTTAATATTAAA
20019852 T-TTAATTTAATATT
1 TATTAATTTAATATT
20019866 TATCTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 12 0.40
19 5 0.17
20 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:20019964 original size:62 final size:61
Alignment explanation
Indices: 20019840--20019957 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 61
20019830 AAATGATTAT
* *
20019840 TTTAATATTAAATTTAATTTAATATTTATCTGGTAGATAAATATTTTATTATTTTAATAAAA
1 TTTAATATTAAATTTAATCTAATATTTATCT-GTAGATAAATATTATATTATTTTAATAAAA
* * *
20019902 TTTAATATTAGATTTAATCTAATATTTAT-T-TTGATAAATATTATATTAATTTAATA
1 TTTAATATTAAATTTAATCTAATATTTATCTGTAGATAAATATTATATTATTTTAATA
20019958 TTAAAATGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 23 0.45
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (61 bp):
TTTAATATTAAATTTAATCTAATATTTATCTGTAGATAAATATTATATTATTTTAATAAAA
Found at i:20029756 original size:40 final size:40
Alignment explanation
Indices: 20029672--20029825 Score: 179
Period size: 40 Copynumber: 3.9 Consensus size: 40
20029662 TTGAATGCTG
* * *
20029672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** * *
20029711 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
20029752 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
20029792 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
20029826 CGTAAGCGAG
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 86 0.89
41 10 0.10
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:20029809 original size:80 final size:80
Alignment explanation
Indices: 20029672--20029825 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 80
20029662 TTGAATGCTG
* *
20029672 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
20029737 GTGCGAGTTATTAAT
66 GTGCGAGTTATTAAT
* **
20029752 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
20029813 ATTTGTGCGAGTT
62 ATTTGTGCGAGTT
20029826 CGTAAGCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
79 2 0.03
80 54 0.83
81 9 0.14
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTATTAAT
Found at i:20049838 original size:40 final size:40
Alignment explanation
Indices: 20049807--20050007 Score: 272
Period size: 40 Copynumber: 5.2 Consensus size: 40
20049797 GGACTAAGAT
** * *
20049807 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
20049847 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
20049887 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
20049927 CCGAAGGCCTTTGTGCGAGATAC----T-CGGGTTAAGT-
1 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
* * ** *
20049961 CCGAAGGCATTCGTGCGAG-TTTTAAATCCGGGTTAAGTC
1 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
20050000 CCGAAGGC
1 CCGAAGGC
20050008 ATTGAATGAG
Statistics
Matches: 147, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
33 1 0.01
34 17 0.12
35 10 0.07
36 1 0.01
37 1 0.01
38 10 0.07
39 8 0.05
40 99 0.67
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
Found at i:20049891 original size:80 final size:78
Alignment explanation
Indices: 20049754--20050007 Score: 315
Period size: 80 Copynumber: 3.3 Consensus size: 78
20049744 TTGAATGCTG
* * ** *
20049754 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGACTATATCCGGACTAAGATCCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAT-TCCGGGTTAAG-TCCGAAGGCAT
20049817 TTGTGCGAGTTATTAAT
62 TTGTGCGAGTTATTAAT
*
20049834 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-ATTCCGGGTTAAGT-CCGAAGGCATTT
* *
20049899 GTGCGAGATACTAAT
64 GTGCGAGTTATTAAT
*
20049914 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC---T-CGGGTTAAGTCCGAAGGCATTCGT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTATTCCGGGTTAAGTCCGAAGGCATTTGT
*
20049975 GCGAGTT-TTAAA
66 GCGAGTTATTAAT
20049987 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
20050008 ATTGAATGAG
Statistics
Matches: 157, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
73 24 0.15
74 18 0.11
75 10 0.06
76 1 0.01
79 1 0.01
80 90 0.57
81 12 0.08
82 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTATTCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTATTAAT
Found at i:20050019 original size:38 final size:39
Alignment explanation
Indices: 20049835--20050057 Score: 124
Period size: 40 Copynumber: 5.8 Consensus size: 39
20049825 GTTATTAATT
* ** * *
20049835 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA-ATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTATA-A
* ** * *
20049875 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA-ATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTATA-A
* ** *
20049915 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC--T--
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTATAA
** *
20049951 -CGGGTTAAGT-CCGAAGGCATTCGTGCGAGTT-TTA-AA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACTATAA
*
20049987 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATAA
* *
20050027 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
20050058 GAGCTAAATC
Statistics
Matches: 161, Mismatches: 10, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
33 3 0.02
34 15 0.09
35 10 0.06
38 16 0.10
39 32 0.20
40 85 0.53
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATAA
Found at i:20059153 original size:30 final size:30
Alignment explanation
Indices: 20059114--20059179 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
20059104 AAAAACCAAA
* *
20059114 AAAATTGTAAGAATCAAACTAAAGGTAA-ATT
1 AAAA-TGTAACAATCAAACTAAAAG-AATATT
* *
20059145 AAAATGTAACAATTAAATTAAAAGAATATT
1 AAAATGTAACAATCAAACTAAAAGAATATT
20059175 AAAAT
1 AAAAT
20059180 TAAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 24 0.80
31 4 0.13
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (30 bp):
AAAATGTAACAATCAAACTAAAAGAATATT
Found at i:20064119 original size:115 final size:113
Alignment explanation
Indices: 20063862--20064127 Score: 286
Period size: 115 Copynumber: 2.3 Consensus size: 113
20063852 GGTGCTTAGC
* * * * *
20063862 TAAAAACACCGCAAAATTCAATAATTAGCGGCGCTTTTACGGTAGCGCCGCAAAAATTTTTAAGT
1 TAAAAACGCCGCAAAATTCAAGAATTAGCGGCGC-TTAACGGTAGCGCCGCAAAAATATTTAAGC
* *
20063927 AAACGGCAGCATTTTGTTGTTAAGGTTTAGGTACATTAGCGGCGCAACTT
65 AAACGGCAGCATTTTCTTGTGAAGGTTTAGGTACATTAGCGGCGC-ACTT
* * * * *
20063977 TAAAAACGCCGTAGAAGTT-AAGCATTAGCGGCGCTTAATGTTAAGCGCCGCAAAAATATTTAAG
1 TAAAAACGCCGCA-AAATTCAAGAATTAGCGGCGCTTAACGGT-AGCGCCGCAAAAATATTTAAG
* * * * *
20064041 CAAACGGCATCGTTTTCTTGTGGAGGTTTAGAG-ACATTAGTGGCGC-TTT
64 CAAACGGCAGCATTTTCTTGTGAAGGTTTAG-GTACATTAGCGGCGCACTT
*
20064090 TAAAAAAACGCCGCAAAATTCAAGAATTAGCTGCGCTT
1 T--AAAAACGCCGCAAAATTCAAGAATTAGCGGCGCTT
20064128 TTTTAAAAGC
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
113 3 0.02
114 9 0.07
115 107 0.86
116 5 0.04
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (113 bp):
TAAAAACGCCGCAAAATTCAAGAATTAGCGGCGCTTAACGGTAGCGCCGCAAAAATATTTAAGCA
AACGGCAGCATTTTCTTGTGAAGGTTTAGGTACATTAGCGGCGCACTT
Found at i:20065579 original size:13 final size:13
Alignment explanation
Indices: 20065561--20065585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20065551 TTTTTTTATC
20065561 TGAAATCCCTAAG
1 TGAAATCCCTAAG
20065574 TGAAATCCCTAA
1 TGAAATCCCTAA
20065586 CTCGTTTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (13 bp):
TGAAATCCCTAAG
Found at i:20068036 original size:85 final size:84
Alignment explanation
Indices: 20067875--20068123 Score: 254
Period size: 85 Copynumber: 2.9 Consensus size: 84
20067865 TTTTTATAAA
* * * **
20067875 AGCGCTGCTAAA-AGTCATGTTTTATAGCGGCGTTTGTAGAATAAAACGCCGCTAAAGAACATTT
1 AGCGCCGCTAAAGA-TCATGTTTT-TAGCGGCGTTTGTTG--TAAAGCGCCGCTAAAGAACATGA
*
20067939 CTTTTAGCGGCGTTTGTTGGTTT
62 CCTTTAGCGGCGTTTGTTGGTTT
* * *
20067962 -GCGCCGCTATAGCTCATGTTCTTTAGCGGCGTTTGTTGTACAAGCGCCGCTAAAGAACATGAGC
1 AGCGCCGCTAAAGATCATGTT-TTTAGCGGCGTTTGTTGTA-AAGCGCCGCTAAAGAACATGACC
* **
20068026 TTTAGCGGCGTTTTTTTTTTT
64 TTTAGCGGCGTTTGTTGGTTT
* * *
20068047 GAAGCGCCGCTAAAGAGCATGTTATTTAGCGGCGTTT-TT-TTAAGCGCTGCTAAAGAACATGAC
1 --AGCGCCGCTAAAGATCATGTT-TTTAGCGGCGTTTGTTGTAAAGCGCCGCTAAAGAACATGAC
20068110 CTTTAGCGGCGTTT
63 CTTTAGCGGCGTTT
20068124 ATTTCTATAA
Statistics
Matches: 137, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
84 2 0.01
85 70 0.51
86 31 0.23
87 4 0.03
88 30 0.22
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (84 bp):
AGCGCCGCTAAAGATCATGTTTTTAGCGGCGTTTGTTGTAAAGCGCCGCTAAAGAACATGACCTT
TAGCGGCGTTTGTTGGTTT
Found at i:20068061 original size:45 final size:43
Alignment explanation
Indices: 20067921--20068123 Score: 164
Period size: 45 Copynumber: 4.8 Consensus size: 43
20067911 TAGAATAAAA
** * **
20067921 CGCCGCTAAAGAACATTTCTTTTAGCGGCGTTTGTTGGTTT--G
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-TTTTTTTAAG
* ** ** * * **
20067963 CGCCGCTATAGCTCATGTTCTTTAGCGGCGTTTGTTGTACAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTTTAAG
*
20068006 CGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTTTTTGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTTTTTTTT-AAG
* ***
20068051 CGCCGCTAAAGAGCATGTTATTTAGCGGCG---TTTTTTTAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTTTAAG
*
20068091 CGCTGCTAAAGAACATGACCTTTAGCGGCGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
20068124 ATTTCTATAA
Statistics
Matches: 126, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
40 28 0.22
41 10 0.08
42 27 0.21
43 26 0.21
44 6 0.05
45 29 0.23
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTTTAAG
Found at i:20068099 original size:40 final size:40
Alignment explanation
Indices: 20067921--20068123 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
20067911 TAGAATAAAA
* *
20067921 CGCCGCTAAAGAACAT-TTCTTTTAGCGGCGTTTGTTGGTT-TG
1 CGCCGCTAAAGAACATGATC-TTTAGCGGCGTTT-TT--TTAAG
* ** * *
20067963 CGCCGCTATAGCTCATGTTCTTTAGCGGCGTTTGTTGTACAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TT-T-TAAG
*
20068006 CGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTTTTTGAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG----TTTTTTT-AAG
* * *
20068051 CGCCGCTAAAGAGCATGTTATTTAGCGGCGTTTTTTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAG
* *
20068091 CGCTGCTAAAGAACATGACCTTTAGCGGCGTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
20068124 ATTTCTATAA
Statistics
Matches: 133, Mismatches: 20, Indels: 18
0.78 0.12 0.11
Matches are distributed among these distances:
40 31 0.23
41 9 0.07
42 29 0.22
43 29 0.22
45 30 0.23
46 2 0.02
47 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (40 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAG
Found at i:20068652 original size:23 final size:23
Alignment explanation
Indices: 20068617--20068664 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20068607 TTCATTAGGA
20068617 TTAACGTTGGACTAAGCTATTAG
1 TTAACGTTGGACTAAGCTATTAG
* * *
20068640 TTAATGTTTGACTAAGCTTTTAG
1 TTAACGTTGGACTAAGCTATTAG
20068663 TT
1 TT
20068665 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (23 bp):
TTAACGTTGGACTAAGCTATTAG
Found at i:20069336 original size:20 final size:20
Alignment explanation
Indices: 20069311--20069367 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
20069301 TTTGTACTGA
20069311 CCTTTATTATAGTGAAATCT
1 CCTTTATTATAGTGAAATCT
20069331 CCTTTA-TAT--TG-----T
1 CCTTTATTATAGTGAAATCT
20069343 CCTTTATTATAGTGAAATCT
1 CCTTTATTATAGTGAAATCT
20069363 CCTTT
1 CCTTT
20069368 TACTCATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
15 2 0.07
17 2 0.07
19 3 0.10
20 12 0.41
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.49
Consensus pattern (20 bp):
CCTTTATTATAGTGAAATCT
Found at i:20074299 original size:39 final size:37
Alignment explanation
Indices: 20074232--20074324 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
20074222 ACCAGAATGG
* *
20074232 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
20074271 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
20074308 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
20074325 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:20074636 original size:12 final size:12
Alignment explanation
Indices: 20074595--20074634 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
20074585 TTCCCACTGA
*
20074595 TAATAATAATAC
1 TAATAATAATAT
20074607 TAATAATAA-AT
1 TAATAATAATAT
*
20074618 TAATACTAATAT
1 TAATAATAATAT
20074630 TAATA
1 TAATA
20074635 CTTACCTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:20075387 original size:19 final size:19
Alignment explanation
Indices: 20075356--20075392 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20075346 TTTTGTTTTT
20075356 TTTTAATTTCTTTACTTTC
1 TTTTAATTTCTTTACTTTC
20075375 TTTT-ATTTACTTTACTTT
1 TTTTAATTT-CTTTACTTT
20075393 ATTTCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAATTTCTTTACTTTC
Found at i:20075554 original size:5 final size:5
Alignment explanation
Indices: 20075546--20075600 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
20075536 TATTTAATTT
* *
20075546 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
20075595 ATATA A
1 ATATA A
20075601 AACATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
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:20075575 original size:27 final size:25
Alignment explanation
Indices: 20075544--20075596 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
20075534 TCTATTTAAT
20075544 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
20075571 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
20075596 T
1 T
20075597 ATAAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:20081188 original size:18 final size:19
Alignment explanation
Indices: 20081153--20081189 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20081143 TAAATTCAAA
20081153 TTAAATAAATAAGTTTTTT
1 TTAAATAAATAAGTTTTTT
20081172 TTAAAT-AATAGAGTTTTT
1 TTAAATAAATA-AGTTTTT
20081190 ATTCATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTAAATAAATAAGTTTTTT
Found at i:20082050 original size:14 final size:14
Alignment explanation
Indices: 20082031--20082057 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20082021 CTGTGTTAAT
20082031 TATGTGTGAAATTA
1 TATGTGTGAAATTA
20082045 TATGTGTGAAATT
1 TATGTGTGAAATT
20082058 TTCAAGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGTGTGAAATTA
Found at i:20083656 original size:41 final size:41
Alignment explanation
Indices: 20083610--20083710 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
20083600 TCAGGCTTGT
*
20083610 GTCTAGCAGGCTTAATGCCGATGAAATATTTCAGACTATAC
1 GTCTAGCAGGCTTAATGCCGATGAAATATTTCAGACAATAC
*
20083651 GTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACAATAC
1 GTCTAGCAGGCTTAATGCCGATGAAATATTTCAGACAATAC
* *
20083692 GTCTAGCAGACCTAATGCC
1 GTCTAGCAGGCTTAATGCC
20083711 AGTGTACTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGATGAAATATTTCAGACAATAC
Found at i:20086665 original size:14 final size:14
Alignment explanation
Indices: 20086646--20086677 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
20086636 CTTTCACTCT
20086646 TTATGGTACTAATG
1 TTATGGTACTAATG
20086660 TTATGGTACTAATG
1 TTATGGTACTAATG
20086674 TTAT
1 TTAT
20086678 TGCATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (14 bp):
TTATGGTACTAATG
Found at i:20090573 original size:14 final size:14
Alignment explanation
Indices: 20090554--20090581 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20090544 CTACGATGTG
20090554 CTTTATGTTACCTA
1 CTTTATGTTACCTA
20090568 CTTTATGTTACCTA
1 CTTTATGTTACCTA
20090582 AATCGCTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
CTTTATGTTACCTA
Found at i:20096390 original size:3 final size:3
Alignment explanation
Indices: 20096382--20096435 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
20096372 ATTAATAAAT
* *
20096382 ATA ATA ATA ATA GTA A-A GATA ATA ATG ATA ATA ATA ATA ACTAA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA
20096429 ATA ATA A
1 ATA ATA A
20096436 AAAATTGCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 1 0.02
3 37 0.86
4 3 0.07
5 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:20096430 original size:11 final size:10
Alignment explanation
Indices: 20096374--20096436 Score: 55
Period size: 9 Copynumber: 6.7 Consensus size: 10
20096364 GCAATAGTAT
20096374 TAATAAAT-A
1 TAATAAATAA
20096383 TAAT-AATAA
1 TAATAAATAA
* *
20096392 TAGTAAA-GA
1 TAATAAATAA
*
20096401 TAAT-AATGA
1 TAATAAATAA
20096410 TAAT-AATAA
1 TAATAAATAA
20096419 TAACTAAATAA
1 TAA-TAAATAA
20096430 TAATAAA
1 TAATAAA
20096437 AAATTGCTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
8 5 0.11
9 25 0.56
10 7 0.16
11 8 0.18
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (10 bp):
TAATAAATAA
Found at i:20098153 original size:39 final size:40
Alignment explanation
Indices: 20098047--20098199 Score: 100
Period size: 44 Copynumber: 3.7 Consensus size: 40
20098037 CTTCGGTCTA
* * ** *
20098047 CTCCACTGTAATCTCAGGGAGATAAGA-CCTGATACGATCCA
1 CTCCACTGTAATCTCAAGGAGATAAGATCATCTTA--ATCCG
* *
20098088 CTCTACTATAA-CTTCAGAGG-GATAAGATCAT-TTAATCCG
1 CTCCACTGTAATC-TCA-AGGAGATAAGATCATCTTAATCCG
* *
20098127 CTCCACTGTAATCTCAAGGAGATAAGATTACTATCTTCGATCTG
1 CTCCACTGTAATCTCAAGGAGATAAGA-T-C-ATCTT-AATCCG
*
20098171 CTCCGCTGTAATCTC-AGTGAGATAAGATC
1 CTCCACTGTAATCTCAAG-GAGATAAGATC
20098200 TGAAATTCTT
Statistics
Matches: 90, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
38 3 0.03
39 23 0.26
40 3 0.03
41 22 0.24
42 7 0.08
43 5 0.06
44 27 0.30
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (40 bp):
CTCCACTGTAATCTCAAGGAGATAAGATCATCTTAATCCG
Found at i:20098323 original size:86 final size:86
Alignment explanation
Indices: 20098233--20098510 Score: 477
Period size: 86 Copynumber: 3.2 Consensus size: 86
20098223 TACTACCGAG
* *
20098233 AGGCAAGGATTTGTTTTTGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
20098298 CAGCTCCACTGCAACCAATGA
66 CAGCTCCACTGCAACCAATGA
* * *
20098319 AGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
*
20098384 CAGCTCCACTGTAACCAATGA
66 CAGCTCCACTGCAACCAATGA
*
20098405 AGGCAAGGA-TTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCCTCTTTAAC
1 AGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
20098469 CAGCTCCACTGCAACCAATGA
66 CAGCTCCACTGCAACCAATGA
*
20098490 AGGCAAGGCTTTGTTTTCGAT
1 AGGCAAGGATTTGTTTTCGAT
20098511 GTTCACTGAT
Statistics
Matches: 179, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
85 80 0.45
86 99 0.55
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (86 bp):
AGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
CAGCTCCACTGCAACCAATGA
Found at i:20099581 original size:21 final size:21
Alignment explanation
Indices: 20099555--20099601 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
20099545 GGTATAGCAA
20099555 GATCACCGCATGCCCCAATCT
1 GATCACCGCATGCCCCAATCT
** * *
20099576 GATCACTTCATGCCCTATTCT
1 GATCACCGCATGCCCCAATCT
20099597 GATCA
1 GATCA
20099602 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.36, G:0.13, T:0.28
Consensus pattern (21 bp):
GATCACCGCATGCCCCAATCT
Found at i:20099703 original size:7 final size:7
Alignment explanation
Indices: 20099684--20099726 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
20099674 TCAGCCTCTC
20099684 CATTTTT
1 CATTTTT
20099691 -ACTTTTT
1 CA-TTTTT
20099698 CATTTTTT
1 CA-TTTTT
20099706 CATTTTT
1 CATTTTT
20099713 CATTTTT
1 CATTTTT
20099720 -ATTTTT
1 CATTTTT
20099726 C
1 C
20099727 TCATTTCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 7 0.22
7 17 0.53
8 8 0.25
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:20099704 original size:8 final size:8
Alignment explanation
Indices: 20099693--20099732 Score: 50
Period size: 7 Copynumber: 5.2 Consensus size: 8
20099683 CCATTTTTAC
20099693 TTTTTCAT
1 TTTTTCAT
20099701 TTTTTCA-
1 TTTTTCAT
20099708 TTTTTCA-
1 TTTTTCAT
20099715 TTTTT-AT
1 TTTTTCAT
20099722 TTTTCTCAT
1 TTTT-TCAT
20099731 TT
1 TT
20099733 CTTCTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 1 0.03
7 16 0.55
8 8 0.28
9 4 0.14
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:20099709 original size:22 final size:22
Alignment explanation
Indices: 20099684--20099732 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
20099674 TCAGCCTCTC
20099684 CATTTTT-ACTTTTTCATTTTT-T
1 CATTTTTCA-TTTTT-ATTTTTCT
20099706 CATTTTTCATTTTTATTTTTCT
1 CATTTTTCATTTTTATTTTTCT
20099728 CATTT
1 CATTT
20099733 CTTCTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 18 0.72
23 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (22 bp):
CATTTTTCATTTTTATTTTTCT
Found at i:20099711 original size:15 final size:14
Alignment explanation
Indices: 20099684--20099732 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
20099674 TCAGCCTCTC
20099684 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
20099698 CATTTTTTCATTTTT
1 CATTTTTAC-TTTTT
*
20099713 CATTTTTATTTTTCT
1 CATTTTTACTTTT-T
20099728 CATTT
1 CATTT
20099733 CTTCTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:20100580 original size:12 final size:12
Alignment explanation
Indices: 20100563--20100605 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
20100553 TTGACCTTTC
20100563 CTTTTTCTTTTT
1 CTTTTTCTTTTT
*
20100575 CTTTTTCTTCTT
1 CTTTTTCTTTTT
20100587 -TTTTTCTTTCTT
1 CTTTTTCTTT-TT
*
20100599 TTTTTTC
1 CTTTTTC
20100606 CTATTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 8 0.30
12 13 0.48
13 6 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:20100587 original size:15 final size:16
Alignment explanation
Indices: 20100563--20100605 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
20100553 TTGACCTTTC
20100563 CTTT-TTCTTTTTCTT
1 CTTTCTTCTTTTTCTT
20100578 -TTTCTTCTTTTT-TT
1 CTTTCTTCTTTTTCTT
*
20100592 CTTTCTTTTTTTTC
1 CTTTCTTCTTTTTC
20100606 CTATTTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTCTTCTTTTTCTT
Found at i:20100612 original size:21 final size:21
Alignment explanation
Indices: 20100559--20100626 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 21
20100549 CGCCTTGACC
20100559 TTTCCTTTTTCTTTTTCTTTTT
1 TTTCCTTTTTC-TTTTCTTTTT
* *
20100581 CTT-CTTTTTTTCTTTCTTTTT
1 TTTCCTTTTTCT-TTTCTTTTT
*
20100602 TTTCCTATTTTGACTTTTATTTTT
1 TTTCCT-TTTT--CTTTTCTTTTT
20100626 T
1 T
20100627 GATTTTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
20 1 0.03
21 17 0.47
22 4 0.11
23 4 0.11
24 9 0.25
25 1 0.03
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTCCTTTTTCTTTTCTTTTT
Found at i:20100641 original size:9 final size:9
Alignment explanation
Indices: 20100621--20100678 Score: 93
Period size: 9 Copynumber: 6.7 Consensus size: 9
20100611 TTGACTTTTA
20100621 TTTTTTGA-
1 TTTTTTGAT
*
20100629 TTTTTT-AA
1 TTTTTTGAT
20100637 TTTTTTGAT
1 TTTTTTGAT
20100646 TTTTTTGAT
1 TTTTTTGAT
20100655 TTTTTTGAT
1 TTTTTTGAT
20100664 TTTTTTGAT
1 TTTTTTGAT
20100673 TTTTTT
1 TTTTTT
20100679 TTAGTCTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
7 1 0.02
8 12 0.26
9 34 0.72
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:20100641 original size:16 final size:16
Alignment explanation
Indices: 20100616--20100668 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
20100606 CTATTTTGAC
20100616 TTTT-ATTTTTTGATT
1 TTTTAATTTTTTGATT
20100631 TTTTAATTTTTTGATTT
1 TTTTAATTTTTTGA-TT
*
20100648 TTTTGATTTTTTTGATT
1 TTTT-AATTTTTTGATT
20100665 TTTT
1 TTTT
20100669 TGATTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.12
16 9 0.26
17 12 0.35
18 9 0.26
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (16 bp):
TTTTAATTTTTTGATT
Found at i:20105241 original size:16 final size:15
Alignment explanation
Indices: 20105196--20105243 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
20105186 TCATTCATTC
*
20105196 AAAAT-AAAT-AATG
1 AAAATGAAATAAATA
20105209 AAAATGAAATAAATA
1 AAAATGAAATAAATA
*
20105224 AAAATTAAATACAATA
1 AAAATGAAATA-AATA
20105240 AAAA
1 AAAA
20105244 AACAAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 5 0.17
14 4 0.13
15 13 0.43
16 8 0.27
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAATGAAATAAATA
Found at i:20105619 original size:3 final size:3
Alignment explanation
Indices: 20105583--20105667 Score: 66
Period size: 3 Copynumber: 27.7 Consensus size: 3
20105573 ATAAGAAAAC
* * * * *
20105583 AAT AAT ACT AAC AAT AGT ATT AAT AA- ACAT AAT AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
*
20105627 AGAT AAT AAT GAT AAT AAT AAT AACT AAAT AAT AAT AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT AA
20105668 ATTGCTAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 2 0.03
3 57 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:20105659 original size:14 final size:13
Alignment explanation
Indices: 20105613--20105669 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
20105603 TAATAAACAT
*
20105613 AATAATAATAGTA
1 AATAATAATAATA
*
20105626 AA-GATAATAATGA
1 AATAATAATAAT-A
20105639 TAATAATAATAACTA
1 -AATAATAATAA-TA
20105654 AATAATAATAATA
1 AATAATAATAATA
20105667 AAT
1 AAT
20105670 TGCTAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 7 0.19
13 8 0.22
14 13 0.35
15 8 0.22
16 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:20107525 original size:16 final size:16
Alignment explanation
Indices: 20107504--20107539 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
20107494 TTTGGTTCGC
20107504 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
*
20107520 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
20107536 TGTA
1 TGTA
20107540 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:20107795 original size:18 final size:17
Alignment explanation
Indices: 20107774--20107808 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20107764 TTATTATTAA
*
20107774 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20107792 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20107809 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20107866 original size:16 final size:16
Alignment explanation
Indices: 20107845--20107879 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
20107835 TGGTAAATTA
20107845 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
20107861 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
20107877 TTA
1 TTA
20107880 TTTAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
TTAAATATTGTTATTG
Done.