Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 99 of 135
Found at i:36818535 original size:8 final size:8
Alignment explanation
Indices: 36818479--36818537 Score: 55
Period size: 8 Copynumber: 6.8 Consensus size: 8
36818469 AAATTGTAAA
*
36818479 AAAATTGT
1 AAAATTAT
36818487 AAAATTTTAT
1 AAAA--TTAT
*
36818497 AAAATCAT
1 AAAATTAT
36818505 AAAAATTAT
1 -AAAATTAT
36818514 AAAATATAT
1 AAAAT-TAT
36818523 AAAAATTAT
1 -AAAATTAT
36818532 AAAATT
1 AAAATT
36818538 TTATAAAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 18 0.42
9 13 0.30
10 12 0.28
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:36818654 original size:21 final size:20
Alignment explanation
Indices: 36818623--36818666 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
36818613 AAAAGAAGTA
36818623 TTTTATGATTTTTCTATAAT
1 TTTTATGATTTTTCTATAAT
* *
36818643 TTTTATTGATTTTTTTATCAT
1 TTTTA-TGATTTTTCTATAAT
36818664 TTT
1 TTT
36818667 CCTTCGCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTATGATTTTTCTATAAT
Found at i:36818804 original size:20 final size:19
Alignment explanation
Indices: 36818763--36818818 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
36818753 ATAAAGTCAT
36818763 AAGAAAATTATAAAAAATGTA
1 AAGAAAA-TAT-AAAAATGTA
*
36818784 AAGAAAATATAAAATTCGTA
1 AAGAAAATATAAAAAT-GTA
*
36818804 AA-AAAGTATAAAAAT
1 AAGAAAATATAAAAAT
36818819 TATCGTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 16 0.52
20 8 0.26
21 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AAGAAAATATAAAAATGTA
Found at i:36818819 original size:20 final size:19
Alignment explanation
Indices: 36818766--36818819 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
36818756 AAGTCATAAG
* *
36818766 AAAATTATAAAAAATGTAA
1 AAAAATATAAAAATTGTAA
36818785 AGAAAATAT-AAAATTCGTAA
1 A-AAAATATAAAAATT-GTAA
*
36818805 AAAAGTATAAAAATT
1 AAAAATATAAAAATT
36818820 ATCGTACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAATATAAAAATTGTAA
Found at i:36818881 original size:20 final size:19
Alignment explanation
Indices: 36818836--36818881 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
36818826 CTAAAAGGAA
36818836 CATTTTATAATTTTTCTAT
1 CATTTTATAATTTTTCTAT
* *
36818855 AACTTTTATAGATTTTTTTAT
1 CA-TTTTATA-ATTTTTCTAT
36818876 CATTTT
1 CATTTT
36818882 TGTCACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (19 bp):
CATTTTATAATTTTTCTAT
Found at i:36823398 original size:43 final size:42
Alignment explanation
Indices: 36823350--36823464 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
36823340 TATCATACTA
* **
36823350 ATGCCAT-GTCCCAGAC-ATGGTCTTACATGGAAATCTCGTATCG
1 ATGCCATAG-CCCAG-CTATGGTCTTACA-CGAAATCTCAAATCG
*
36823393 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATCG
1 ATGCC-ATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCG
*
36823436 ATGCCAATAGCCCATCTATGGTCTTACAC
1 ATGCC-ATAGCCCAGCTATGGTCTTACAC
36823465 ATAAACACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 45 0.71
44 17 0.27
45 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCG
Found at i:36826269 original size:7 final size:7
Alignment explanation
Indices: 36826257--36826285 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
36826247 AGCTTTTGGT
36826257 TGATAGA
1 TGATAGA
36826264 TGATAGA
1 TGATAGA
36826271 TGATAGA
1 TGATAGA
36826278 TGATAGA
1 TGATAGA
36826285 T
1 T
36826286 TTGTGAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (7 bp):
TGATAGA
Found at i:36826877 original size:26 final size:26
Alignment explanation
Indices: 36826858--36827062 Score: 187
Period size: 26 Copynumber: 7.9 Consensus size: 26
36826848 TTTACTTAAT
36826858 AGGCTTTGAGCCGGTGTTTATTTAGC
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* * *
36826884 AGGTTTTGAGCCAGTTTTTA-TTAGC
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* *
36826909 AGGCTTTGAGCCGATGTTTATTTAGT
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* ** *
36826935 TGGCTTTGAGCCAATGATTATTTAGC
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* ** *
36826961 AGGCCTTGAGCTAGTGTGTATTTAGC
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* *
36826987 AGGCCTTGAGCCGGTGTGTATTTAGC
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* ** * * *
36827013 AGGCCTTGAGTTGATGTTTATCTAGT
1 AGGCTTTGAGCCGGTGTTTATTTAGC
* * *
36827039 AGGCTTTGAGTCAGTGATTATTTA
1 AGGCTTTGAGCCGGTGTTTATTTA
36827063 ACATGTACTA
Statistics
Matches: 146, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
25 21 0.14
26 125 0.86
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.39
Consensus pattern (26 bp):
AGGCTTTGAGCCGGTGTTTATTTAGC
Found at i:36837222 original size:29 final size:28
Alignment explanation
Indices: 36837182--36837236 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
36837172 CTATATAATG
* *
36837182 TAAGTGCTTAAATTGCAAACTTTTTATTT
1 TAAGTGCTTAAAATG-AAAATTTTTATTT
36837211 TAAGTG-TCTAAAATGAAAATTTTTAT
1 TAAGTGCT-TAAAATGAAAATTTTTAT
36837237 AGTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (28 bp):
TAAGTGCTTAAAATGAAAATTTTTATTT
Found at i:36843469 original size:6 final size:6
Alignment explanation
Indices: 36843458--36843492 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
36843448 TATTTTTGCG
36843458 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
36843493 CAAATACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:36845142 original size:32 final size:31
Alignment explanation
Indices: 36845080--36845146 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
36845070 ACCTAAAATT
* *
36845080 ATTAATTCTAATTATTCTAATATTTTATTTA
1 ATTAATTCTAATTATTCTAATATATAATTTA
36845111 ATTAATTCTTAATTATT-TAATTATATAATTTA
1 ATTAATTC-TAATTATTCTAA-TATATAATTTA
36845143 ATTA
1 ATTA
36845147 CGATTTCCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTCTAATTATTCTAATATATAATTTA
Found at i:36850192 original size:32 final size:32
Alignment explanation
Indices: 36850156--36850228 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
36850146 AAAAAAAATA
* * *
36850156 TACATATATATATAGATTATAAA-AATGATAAT
1 TACATATATATATAGA-AACAAATAATAATAAT
*
36850188 TACATATATATATATAAACAAATAATAATAAT
1 TACATATATATATAGAAACAAATAATAATAAT
36850220 TACATATAT
1 TACATATAT
36850229 TAAAATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (32 bp):
TACATATATATATAGAAACAAATAATAATAAT
Found at i:36850691 original size:19 final size:21
Alignment explanation
Indices: 36850641--36850686 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36850631 TCATATCTTC
36850641 TAAGATTGC--ATATCATATA
1 TAAGATTGCATATATCATATA
*
36850660 TAAGATTGCATATATCATATC
1 TAAGATTGCATATATCATATA
36850681 TAAGAT
1 TAAGAT
36850687 CATATCTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
21 15 0.62
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
TAAGATTGCATATATCATATA
Found at i:36850706 original size:14 final size:12
Alignment explanation
Indices: 36850673--36850698 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36850663 GATTGCATAT
36850673 ATCATATCTAAG
1 ATCATATCTAAG
36850685 ATCATATCTAAG
1 ATCATATCTAAG
36850697 AT
1 AT
36850699 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:36856501 original size:44 final size:44
Alignment explanation
Indices: 36856413--36857095 Score: 558
Period size: 44 Copynumber: 15.5 Consensus size: 44
36856403 GCAGATCAGT
* * * * *
36856413 GAAGATAGCAGGTCCTGTATTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
36856457 GAAGATGCAGATTTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * *
36856501 GAAGAAAGCAAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
36856545 GAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
36856589 GAAGATGCAGATATTCTCTTCCCATATTGGTGGCGGAGTACATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * *
36856633 GAAGAAAGCAAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
36856677 GAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
36856721 GAAGATACAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * *
36856765 GAAGAAAGCAGATTTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
36856809 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* ** *
36856854 GAAGATGCAGATCTTGTCTTCCCATACCGGTGGTGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
36856898 GAAGAAAGCAGATATTGTCTTCATGTATTGGT-GTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * ** *
36856942 GAAGATAGTAGGTCCTGTCTTCCTATATTGGT-AAGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
*
36856986 GAAGATGCAGATCTTGTCTT-CTCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCT-ATATTGGTGGCGAAGTAGATC
* * * * * *
36857030 GAAGAAAGCATATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
*
36857074 GAAGATAGCAGATCTTGCCTTC
1 GAAGAT-GCAGATCTTGTCTTC
36857096 TTGCACCGAC
Statistics
Matches: 499, Mismatches: 121, Indels: 38
0.76 0.18 0.06
Matches are distributed among these distances:
42 2 0.00
43 86 0.17
44 294 0.59
45 116 0.23
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
Found at i:36856650 original size:132 final size:132
Alignment explanation
Indices: 36856413--36857084 Score: 1119
Period size: 132 Copynumber: 5.1 Consensus size: 132
36856403 GCAGATCAGT
* *
36856413 GAAGATAGCAGGTCCTGTATTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATTTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
36856478 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
36856543 TC
131 TC
* * *
36856545 GAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATATTCTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
*
36856610 CCATATTGGTGGCGGAGTACATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
36856675 TC
131 TC
* *
36856677 GAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
36856742 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
36856807 TC
131 TC
*
36856809 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
** * * * * *
36856874 CCCATACCGGTGGTGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGTGTGAAGTAG
65 CCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAG
36856939 ATC
130 ATC
* *
36856942 GAAGATAGTAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * *
36857007 TCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
36857072 TC
131 TC
36857074 GAAGATAGCAG
1 GAAGATAGCAG
36857085 ATCTTGCCTT
Statistics
Matches: 509, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
132 387 0.76
133 122 0.24
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:36857123 original size:265 final size:265
Alignment explanation
Indices: 36856413--36857087 Score: 1127
Period size: 265 Copynumber: 2.6 Consensus size: 265
36856403 GCAGATCAGT
* *
36856413 GAAGATAGCAGGTCCTGTATTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATTTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
36856478 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
* *
36856543 TCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATATTCTC
131 TCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATATTCTC
** * *
36856607 TTCCCATATTGGTGGCGGAGTACATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGT
196 TTCCCATACCGGTGGCGAAGTACATCGAAGAAAGCAAATATTGTCTTCATGTATTGGCGTGAAGT
36856672 AGATC
261 AGATC
* *
36856677 GAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
36856742 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
* *
36856807 TCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTC
131 TCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATATTCTC
* * * *
36856872 TTCCCATACCGGTGGTGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGTGTGAAGT
196 TTCCCATACCGGTGGCGAAGTACATCGAAGAAAGCAAATATTGTCTTCATGTATTGGCGTGAAGT
36856937 AGATC
261 AGATC
* *
36856942 GAAGATAGTAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * *
36857007 TCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
36857072 TCGAAGATAGCAGATC
131 TCGAAGATAGCAGATC
36857088 TTGCCTTCTT
Statistics
Matches: 383, Mismatches: 27, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
264 158 0.41
265 225 0.59
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (265 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATATTCTC
TTCCCATACCGGTGGCGAAGTACATCGAAGAAAGCAAATATTGTCTTCATGTATTGGCGTGAAGT
AGATC
Found at i:36857244 original size:43 final size:43
Alignment explanation
Indices: 36857191--36857325 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
36857181 CTTGCACCGA
*
36857191 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 CAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGTTG
* * ** * * * ****
36857234 CAGCGGAGCAGGTTAAAAACAGCAGATCTTGCCTTCCTGCACCG
1 CAGCGAAGCAGATCGAAAACACCAG-CCTTGCCTCCCTGGGTTG
* *
36857278 ACAGCGAAGCAGATCGAATACACCAGCCTTGCCTCCCTAGGTTG
1 -CAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGTTG
36857322 CAGC
1 CAGC
36857326 AGAGCAGGTT
Statistics
Matches: 65, Mismatches: 25, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 23 0.35
44 23 0.35
45 19 0.29
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGTTG
Found at i:36857291 original size:88 final size:87
Alignment explanation
Indices: 36857078--36857393 Score: 508
Period size: 88 Copynumber: 3.6 Consensus size: 87
36857068 TAGATCGAAG
*
36857078 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
36857142 GTTGCAGTGGAGCAGGCTAAAA
66 GTTGCAGCGGAGCAGGTTAAAA
*
36857164 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-
36857229 GGTTGCAGCGGAGCAGGTTAAAA
65 GGTTGCAGCGGAGCAGGTTAAAA
* *
36857252 ACAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-
*
36857317 GGTTGCAGCAGAGCAGGTTAAAA
65 GGTTGCAGCGGAGCAGGTTAAAA
** * *
36857340 ATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
36857394 CTATCTCCTT
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 64 0.30
88 151 0.70
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (87 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GTTGCAGCGGAGCAGGTTAAAA
Found at i:36857353 original size:44 final size:42
Alignment explanation
Indices: 36857217--36857360 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 42
36857207 AGACACCAGC
36857217 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAACAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGC-GAGCAGGTTAAAAACAGCAGAT
* *** * ** * * *
36857261 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATACACCAG-C
1 CTTGCCTCCCTG-GTTG-CAGCG-AGCAGGTTAAAAACAGCAGAT
*
36857305 CTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGC-GAGCAGGTTAAAAACAGCAGAT
*
36857349 CTTGCCTTCCTG
1 CTTGCCTCCCTG
36857361 CATTGACAGC
Statistics
Matches: 72, Mismatches: 22, Indels: 13
0.67 0.21 0.12
Matches are distributed among these distances:
43 19 0.26
44 34 0.47
45 19 0.26
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (42 bp):
CTTGCCTCCCTGGTTGCAGCGAGCAGGTTAAAAACAGCAGAT
Found at i:36857510 original size:68 final size:68
Alignment explanation
Indices: 36857394--36857524 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 68
36857384 GACCCCAGCC
* * * *
36857394 CTATCTCCTTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGGA
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTGTGAATACTATCTCCCTGGTCAGCAGGA
36857459 ATT
66 ATT
* ** *
36857462 CTATCTCCCTGGGCAGTAGTGGAATAGATTGGAGATTGT-AGGTACTATCTCCCTGGTCAGCAG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTGTGA-ATACTATCTCCCTGGTCAGCAG
36857525 TGGAATAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
67 1 0.02
68 53 0.98
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (68 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTGTGAATACTATCTCCCTGGTCAGCAGGA
ATT
Found at i:36857554 original size:44 final size:43
Alignment explanation
Indices: 36857457--36857582 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 43
36857447 TGGTCAGCAG
* * * *
36857457 GAATTCTATCTCCCTGGGCAGTAGTGGAATAGATTGGAGATTGT
1 GAATACTATCTCCCT-GGCAGCAGTGGAATAGGTTGAAGATTGT
*
36857501 -AGGTACTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT
1 GA-ATACTATCTCCCTGG-CAGCAGTGGAATAGGTTGAAGATTGT
* * * *
36857545 GAATCCTATCTTCCTGAGCAGCAGCGGAGTAGGTTGAA
1 GAATACTATCTCCCTG-GCAGCAGTGGAATAGGTTGAA
36857583 AATAGCAGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.04
44 63 0.93
45 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
GAATACTATCTCCCTGGCAGCAGTGGAATAGGTTGAAGATTGT
Found at i:36858292 original size:21 final size:21
Alignment explanation
Indices: 36858247--36858322 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
36858237 ATCTTCAAGG
*
36858247 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
36858266 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
36858287 ATATGCAATCTTAGATAGGAT
1 ATATGCAATCTTAGATATGAT
*
36858308 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
36858323 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 18 0.35
21 34 0.65
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:36858344 original size:23 final size:24
Alignment explanation
Indices: 36858267--36858345 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 24
36858257 TTAGATATGA
* *
36858267 TATGCAATCTT---AGATATGATA
1 TATGCAATCTTAGAAGATAGGATT
36858288 TATGCAATCTT---AGATAGGATT
1 TATGCAATCTTAGAAGATAGGATT
*
36858309 TATGCAATCTTAGAAGATATGATT
1 TATGCAATCTTAGAAGATAGGATT
*
36858333 T-TGTAATCTTAGA
1 TATGCAATCTTAGA
36858346 GATTTAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 30 0.59
23 11 0.22
24 10 0.20
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (24 bp):
TATGCAATCTTAGAAGATAGGATT
Found at i:36861234 original size:21 final size:21
Alignment explanation
Indices: 36861185--36861277 Score: 120
Period size: 21 Copynumber: 4.4 Consensus size: 21
36861175 AAATTAAATC
*
36861185 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATAAATCATA
36861205 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTGCATAAATCATA
*
36861229 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
36861250 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
36861269 TCTAAGATT
1 TCTAAGATT
36861278 ATTTATCCTT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
19 15 0.22
21 33 0.49
23 11 0.16
24 8 0.12
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.37
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:36862062 original size:20 final size:20
Alignment explanation
Indices: 36862039--36862084 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
36862029 TCGGTATCCT
*
36862039 TGTTTGCACATACATGCCTC
1 TGTTTGCACATACATGCCCC
*
36862059 TGTTTGCACATACGTGCCCC
1 TGTTTGCACATACATGCCCC
36862079 TGTTTG
1 TGTTTG
36862085 TACTTCGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (20 bp):
TGTTTGCACATACATGCCCC
Found at i:36865045 original size:41 final size:41
Alignment explanation
Indices: 36864987--36865093 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
36864977 GATGTGTGAA
* *
36864987 ATCAGG-CTTTGAGCCTAGTAGGTTTTGCGCCAGTGTAATGT
1 ATCAGGTC-TTGAACCTAGTAGGCTTTGCGCCAGTGTAATGT
* *
36865028 ATCAGGTCTTGAACCTAGCAGGCTTTGTGCCAGTGTAATGT
1 ATCAGGTCTTGAACCTAGTAGGCTTTGCGCCAGTGTAATGT
*
36865069 ATCAAGTCTTGAACCTAGTAGGCTT
1 ATCAGGTCTTGAACCTAGTAGGCTT
36865094 CATGCTGGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 58 0.98
42 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCAGGTCTTGAACCTAGTAGGCTTTGCGCCAGTGTAATGT
Found at i:36865105 original size:41 final size:41
Alignment explanation
Indices: 36865019--36865154 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 41
36865009 TTTTGCGCCA
* ** *
36865019 GTGTAATGTATCAGGTCTTGAACCTAGCAGGCTTTGTGCCA
1 GTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCATGCCG
* *
36865060 GTGTAATGTATCAAGTCTTGAACCTAGTAGGCTTCATGCTG
1 GTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCATGCCG
* * * *
36865101 GTGTAATATATCAAGCCTTGAGCCTAGCAAGCTTCATGCCG
1 GTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCATGCCG
**
36865142 GTGTGTTGTATCA
1 GTGTAATGTATCA
36865155 TGTAACTTGT
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (41 bp):
GTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCATGCCG
Found at i:36865231 original size:2 final size:2
Alignment explanation
Indices: 36865224--36865248 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36865214 TATACGATCT
36865224 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36865249 GGAGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36868563 original size:5 final size:5
Alignment explanation
Indices: 36868553--36868609 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
36868543 TATCATATGA
* * *
36868553 GATAT GATAT GATAC GATAC GATAT G-TAAT CCAATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GAT-AT --GATAT GATAT GATAT
36868600 GATAT GATAT
1 GATAT GATAT
36868610 AAGATATACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 1 0.02
5 40 0.91
7 2 0.05
8 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (5 bp):
GATAT
Found at i:36868616 original size:27 final size:27
Alignment explanation
Indices: 36868532--36868616 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
36868522 TGGGGGTAAT
* * * * *
36868532 ATATGATCTGTTATCATATGAGATATG
1 ATATGATATGATATGATATGATATAAG
* * *
36868559 ATATGATACGATACGATATG-TAATCCA-
1 ATATGATATGATATGATATGAT-AT-AAG
36868586 ATATGATATGATATGATATGATATAAG
1 ATATGATATGATATGATATGATATAAG
36868613 ATAT
1 ATAT
36868617 ACTTCGATAA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (27 bp):
ATATGATATGATATGATATGATATAAG
Found at i:36871214 original size:21 final size:21
Alignment explanation
Indices: 36871190--36871230 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36871180 AATTTAACTA
*
36871190 AATTTAATACAATTCATATTC
1 AATTCAATACAATTCATATTC
* *
36871211 AATTCAGTCCAATTCATATT
1 AATTCAATACAATTCATATT
36871231 TTAGGCAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTCAATACAATTCATATTC
Found at i:36874529 original size:28 final size:28
Alignment explanation
Indices: 36874489--36874544 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
36874479 ACTTTAGCAG
36874489 AGCTCGCACAATATAGCATAATTCACAA
1 AGCTCGCACAATATAGCATAATTCACAA
36874517 AGCTCGCACAATATAGCATAATTCACAA
1 AGCTCGCACAATATAGCATAATTCACAA
36874545 TTCATAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (28 bp):
AGCTCGCACAATATAGCATAATTCACAA
Found at i:36874751 original size:17 final size:18
Alignment explanation
Indices: 36874718--36874752 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36874708 AGCATAGCAG
*
36874718 GGTTCGCATATACAACAT
1 GGTTCGCATACACAACAT
36874736 GGTTCGCAT-CACAACAT
1 GGTTCGCATACACAACAT
36874753 AGCAGGGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (18 bp):
GGTTCGCATACACAACAT
Found at i:36874853 original size:35 final size:35
Alignment explanation
Indices: 36874756--36875060 Score: 217
Period size: 35 Copynumber: 8.7 Consensus size: 35
36874746 ACAACATAGC
* * * * *
36874756 AGGGTTCACACATAAGGTAGGCTTCACACTTTTGGTT
1 AGGGTTCACACATTAGGTAGGGTTCGCAC-ATTAG-T
* *
36874793 A-GGTTCACACATTGGGTAGGGTTCGCACGTTAGT
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTAGT
* * * *
36874827 AGAGTTCACACTTTAGGTTGGATTCGCACATTAGGT
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTA-GT
*
36874863 AGGGTTCTCACATT-GGTAGGGTTCGCACATTAGT
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTAGT
** * *
36874897 AGGGTTTTCACTTTAGGAAGGGTTCGCACATTAGGT
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTA-GT
** * * *
36874933 AGGGTTTGCACATTA-GTAGGGTTTGCACTTTAGGA
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTA-GT
* * * * * *
36874968 AGGCTTCACACAGTA-GTAAGGTTTGCACTTTAGGA
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTA-GT
** *
36875003 AGGGTTCACACATTA-GTAGGGTTCAAACTTTAGGT
1 AGGGTTCACACATTAGGTAGGGTTCGCACATTA-GT
* *
36875038 AGGGCTCGCACATT-GGTAGGGTT
1 AGGGTTCACACATTAGGTAGGGTT
36875061 TGCATGTAAG
Statistics
Matches: 223, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
34 16 0.07
35 155 0.70
36 51 0.23
37 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (35 bp):
AGGGTTCACACATTAGGTAGGGTTCGCACATTAGT
Found at i:36875061 original size:70 final size:70
Alignment explanation
Indices: 36874794--36875096 Score: 225
Period size: 70 Copynumber: 4.3 Consensus size: 70
36874784 CTTTTGGTTA
* * * * * * * *
36874794 GGTTCACACATTGGGTAGGGTTCGCACGTTA-GTAGAGTTCACACTTTAGGTTGGATTCGCACAT
1 GGTTCACACATT-AGTAGGGTTCGCACTTTAGGTAGGGCTCACACATT-GGTAGGGTTTGCACAT
36874858 TAGGTAG
64 TAGGTAG
* * * * ** * * *
36874865 GGTTCTCACATTGGTAGGGTTCGCACATTA-GTAGGGTTTTCACTTTAGGAAGGGTTCGCACATT
1 GGTTCACACATTAGTAGGGTTCGCACTTTAGGTAGGGCTCACACATT-GGTAGGGTTTGCACATT
36874929 AGGTAG
65 AGGTAG
** * * * * * *
36874935 GGTTTGCACATTAGTAGGGTTTGCACTTTAGG-AAGGCTTCACACAGTAGTAAGGTTTGCACTTT
1 GGTTCACACATTAGTAGGGTTCGCACTTTAGGTAGGGC-TCACACATTGGTAGGGTTTGCACATT
*
36874999 AGGAAG
65 AGGTAG
** * ** *
36875005 GGTTCACACATTAGTAGGGTTCAAACTTTAGGTAGGGCTCGCACATTGGTAGGGTTTGCATGTAA
1 GGTTCACACATTAGTAGGGTTCGCACTTTAGGTAGGGCTCACACATTGGTAGGGTTTGCACATTA
36875070 GGTAG
66 GGTAG
** * *
36875075 GGTTTGCATATTAGTAGAGTTC
1 GGTTCACACATTAGTAGGGTTC
36875097 TTACAATGAC
Statistics
Matches: 186, Mismatches: 43, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
70 165 0.89
71 21 0.11
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (70 bp):
GGTTCACACATTAGTAGGGTTCGCACTTTAGGTAGGGCTCACACATTGGTAGGGTTTGCACATTA
GGTAG
Found at i:36875158 original size:33 final size:33
Alignment explanation
Indices: 36875121--36875225 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
36875111 TAAGGTTCGT
* * * *
36875121 ACATCACATAGAAGTCATATAGCATAGGTTCAC
1 ACATCACATAGTAGTCACACAACATAGGTTCAC
*
36875154 ACATCACGTAGTAGTCACACAACATAGGTTCGA-
1 ACATCACATAGTAGTCACACAACATAGGTTC-AC
* *
36875187 AAATCACATAGTAGTCACACAACATAGGTTCGC
1 ACATCACATAGTAGTCACACAACATAGGTTCAC
36875220 ACATCA
1 ACATCA
36875226 TAATAGGGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
33 60 0.98
34 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (33 bp):
ACATCACATAGTAGTCACACAACATAGGTTCAC
Found at i:36875257 original size:22 final size:22
Alignment explanation
Indices: 36875232--36875291 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
36875222 ATCATAATAG
36875232 GGTTCACATGAAATTATAACAA
1 GGTTCACATGAAATTATAACAA
* * * * *
36875254 GGTTTACATGATATTTTAGCAG
1 GGTTCACATGAAATTATAACAA
* *
36875276 GGTTCGCATGACATTA
1 GGTTCACATGAAATTA
36875292 CCTAGGCTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (22 bp):
GGTTCACATGAAATTATAACAA
Found at i:36877138 original size:28 final size:29
Alignment explanation
Indices: 36877106--36877168 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
36877096 ACTTTGTGTA
36877106 TTTCTCAACCTCC-C-TTATTCATCTTATG
1 TTTCTCAA-CTCCTCATTATTCATCTTATG
*
36877134 TTTCTCAACTCCTCATTTTTTCATCTTATG
1 TTTCTCAACTCCTCA-TTATTCATCTTATG
36877164 TTTCT
1 TTTCT
36877169 AGAGATTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 4 0.13
28 9 0.29
30 18 0.58
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTCTCAACTCCTCATTATTCATCTTATG
Found at i:36880554 original size:41 final size:41
Alignment explanation
Indices: 36880491--36880586 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
36880481 AGCTCTGTGC
*
36880491 CTAGCA-GCTTAATACCAGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACGT
*
36880531 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCAG-TGAAATATTTCAGACTTTACGT
36880572 CTAGCAGGCTTAATG
1 CTAGCAGGCTTAATG
36880587 TTGGTGTTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
40 7 0.13
41 45 0.87
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACGT
Found at i:36883681 original size:22 final size:22
Alignment explanation
Indices: 36883660--36883718 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
36883650 TTTCCCTTTC
* *
36883660 CTTTTTGTT-TTATTATTTTTT
1 CTTTTTATTATTATTACTTTTT
36883681 CTTTTTATTATTATTAC-TTTT
1 CTTTTTATTATTATTACTTTTT
* *
36883702 CGTTTT-TTATTAGTACT
1 CTTTTTATTATTATTACT
36883719 GTGAGTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.28
21 17 0.53
22 6 0.19
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.71
Consensus pattern (22 bp):
CTTTTTATTATTATTACTTTTT
Found at i:36883700 original size:16 final size:16
Alignment explanation
Indices: 36883667--36883701 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36883657 TTCCTTTTTG
* *
36883667 TTTTATTATTTTTTCT
1 TTTTATTATTATTACT
36883683 TTTTATTATTATTACT
1 TTTTATTATTATTACT
36883699 TTT
1 TTT
36883702 CGTTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTATTATTACT
Found at i:36884311 original size:22 final size:22
Alignment explanation
Indices: 36884271--36884313 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36884261 AAAGATTTTC
**
36884271 TCTCTCAAAATTCTCTTTAAAA
1 TCTCTCAAAATAATCTTTAAAA
*
36884293 TCTCTCAAAATAATTTTTAAA
1 TCTCTCAAAATAATCTTTAAA
36884314 GTTGGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCTCAAAATAATCTTTAAAA
Found at i:36884567 original size:25 final size:25
Alignment explanation
Indices: 36884539--36884623 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
36884529 GTTGAAATCC
36884539 AAATATTAATGGATGTCTAAGATCA
1 AAATATTAATGGATGTCTAAGATCA
* * * *
36884564 AAATAGGTCTAATATGAGGTTTTGAA-ATCC
1 AAATA--T-TAAT-GGATG-TCT-AAGATCA
36884594 AAATATTAATGGATGTCTAAGATCA
1 AAATATTAATGGATGTCTAAGATCA
36884619 AAATA
1 AAATA
36884624 GGTCTAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 2 0.04
25 15 0.33
26 3 0.07
27 5 0.11
28 5 0.11
29 3 0.07
30 10 0.22
31 2 0.04
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
AAATATTAATGGATGTCTAAGATCA
Found at i:36884595 original size:55 final size:55
Alignment explanation
Indices: 36884530--36884641 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
36884520 TAATTTTAAG
36884530 TTGAAATCCAAATATTAATGGATGTCTAAGATCAAAATAGGTCTAATATGAGGTT
1 TTGAAATCCAAATATTAATGGATGTCTAAGATCAAAATAGGTCTAATATGAGGTT
36884585 TTGAAATCCAAATATTAATGGATGTCTAAGATCAAAATAGGTCTAATATGAGGTT
1 TTGAAATCCAAATATTAATGGATGTCTAAGATCAAAATAGGTCTAATATGAGGTT
36884640 TT
1 TT
36884642 TAATCTTAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (55 bp):
TTGAAATCCAAATATTAATGGATGTCTAAGATCAAAATAGGTCTAATATGAGGTT
Found at i:36901399 original size:5 final size:5
Alignment explanation
Indices: 36901389--36901455 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
36901379 TTTAGTTAGT
36901389 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
36901439 TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
36901456 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:36905418 original size:20 final size:20
Alignment explanation
Indices: 36905346--36905439 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 20
36905336 TCAAAATTAT
*
36905346 TATTTGGAAATTTTT-TAAA
1 TATTTTGAAATTTTTATAAA
* * * *
36905365 AATTTT-AACTTTTTTTATA
1 TATTTTGAAATTTTTATAAA
*
36905384 T-TCTTTGGAATTTTTTATAAA
1 TAT-TTT-GAAATTTTTATAAA
*
36905405 TATTTTGAAATTTTGA-AAA
1 TATTTTGAAATTTTTATAAA
*
36905424 TTATTTTGATATTTTT
1 -TATTTTGAAATTTTT
36905440 TGTTGAGATG
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
18 8 0.14
19 13 0.23
20 21 0.37
21 14 0.25
22 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (20 bp):
TATTTTGAAATTTTTATAAA
Found at i:36905892 original size:16 final size:16
Alignment explanation
Indices: 36905871--36905906 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
36905861 TTTGGTTCGC
36905871 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36905887 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36905903 TGTA
1 TGTA
36905907 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:36906163 original size:18 final size:17
Alignment explanation
Indices: 36906142--36906176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36906132 TTATTATTAA
*
36906142 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36906160 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36906177 TCTTANNNNN
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:36917870 original size:19 final size:19
Alignment explanation
Indices: 36917847--36917903 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
36917837 AAAATTATAA
36917847 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
36917866 TAAAATTTAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
36917885 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
36917903 A
1 A
36917904 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:36918609 original size:15 final size:15
Alignment explanation
Indices: 36918589--36918627 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
36918579 CACAAAAAAT
36918589 GCCGCTAACGACAAC
1 GCCGCTAACGACAAC
36918604 GCCGCTAACGACAAC
1 GCCGCTAACGACAAC
*
36918619 GTCGCTAAC
1 GCCGCTAAC
36918628 TTTTGCGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.38, G:0.21, T:0.10
Consensus pattern (15 bp):
GCCGCTAACGACAAC
Found at i:36927241 original size:29 final size:30
Alignment explanation
Indices: 36927198--36927256 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
36927188 AAATTGAATT
*
36927198 AAATTAAAATTTCATATATAAAATTATACA
1 AAATTAAAAGTTCATATATAAAATTATACA
* * *
36927228 AAATT-AAAGTTCATGTATGATATTATACA
1 AAATTAAAAGTTCATATATAAAATTATACA
36927257 TTAAATCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATTAAAAGTTCATATATAAAATTATACA
Found at i:36930453 original size:26 final size:26
Alignment explanation
Indices: 36930424--36930477 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
36930414 AAATAAGTAT
* * *
36930424 TAATAATTTTATTTAATATTTATTTA
1 TAATAATTATAATTAATATTTAATTA
* *
36930450 TAATAGTTATAATTATTATTTAATTA
1 TAATAATTATAATTAATATTTAATTA
36930476 TA
1 TA
36930478 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATAATTATAATTAATATTTAATTA
Found at i:36943440 original size:22 final size:22
Alignment explanation
Indices: 36943412--36943458 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
36943402 ACAAATCCTA
36943412 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
36943434 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
36943456 TCT
1 TCT
36943459 TAAACTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:36943490 original size:52 final size:52
Alignment explanation
Indices: 36943412--36943510 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
36943402 ACAAATCCTA
* *
36943412 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATTCTCTTAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
*
36943464 TCTCAATTTCCTTTCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
36943511 CAAATCCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.39
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
Found at i:36943491 original size:22 final size:22
Alignment explanation
Indices: 36943463--36943513 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
36943453 TTCTCTTAAA
* *
36943463 CTCTCAATTTCCTTTC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
36943484 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
36943507 CTCTCAA
1 CTCTCAA
36943514 ATCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:36943583 original size:30 final size:31
Alignment explanation
Indices: 36943547--36943612 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
36943537 CCTCAATTTC
36943547 ATTTTTTT-AAATAATTTCAAATTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAT
* *
36943577 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAT
36943608 ATTTT
1 ATTTT
36943613 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (31 bp):
ATTTTTTTAAAATAATTTCAAATTTTTTTAT
Found at i:36943732 original size:14 final size:15
Alignment explanation
Indices: 36943703--36943736 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36943693 AAATTTTAAA
36943703 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
36943718 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
36943732 TTTTA
1 TTTTA
36943737 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:36950815 original size:125 final size:125
Alignment explanation
Indices: 36950593--36950995 Score: 588
Period size: 125 Copynumber: 3.2 Consensus size: 125
36950583 CACGAGGGCA
*
36950593 CGATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATCATTTCCTATATGACCAACTGTAGCA
1 CGATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATCATTTCCTATATGACCAACTGTAGCG
* *
36950658 AAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCATATAGCATCCTAGTATCAG
66 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAG
36950718 CGATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATCATTTCCTATATGACCAACTGTAGCG
1 CGATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATCATTTCCTATATGACCAACTGTAGCG
*
36950783 AAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAG
66 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAG
* * * *
36950843 CGATTTTATACTATTTGCTCAGAAAACGTC--AAAAAAATTATTTCTTACATGACCAACTGT-GC
1 CGATTTTACACTATTTGCTCAG-AAACGTCAAAAAAAAATCATTTCCTATATGACCAACTGTAGC
* * **
36950905 TGAAAT-GACGTCTACGAGGGCACGATTT--CAATTTCTTCTC-TGATAGCATCCTGGTAGAAG
65 -GAAATCG-CGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCAG
*
36950965 CGATTTTATACTATTTGAC-CAGAAACGTCAA
1 CGATTTTACACTATTTG-CTCAGAAACGTCAA
36950996 CTCGAAATAA
Statistics
Matches: 258, Mismatches: 13, Indels: 16
0.90 0.05 0.06
Matches are distributed among these distances:
121 8 0.03
122 48 0.19
123 4 0.02
124 49 0.19
125 142 0.55
126 7 0.03
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CGATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATCATTTCCTATATGACCAACTGTAGCG
AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAG
Found at i:36951094 original size:51 final size:51
Alignment explanation
Indices: 36950998--36951152 Score: 215
Period size: 51 Copynumber: 3.0 Consensus size: 51
36950988 AACGTCAACT
* *
36950998 CGAAATAATTTTTTCCGGGACCCCTAAACCTTAAAAAAGCTTGCACCCTAAA
1 CGAAATAATTTTTTTC-GGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
*
36951050 CGAAATAATTTTTTTCGGCACCCCTAAACCCT-AAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGG-ACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
** *
36951101 TAAAATAA-TTTTTTCGAGACCCCTAAACCCTAAAAAAGCTTACACCCTAAA
1 CGAAATAATTTTTTTCG-GACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
36951152 C
1 C
36951153 CCTAAAACCC
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
50 21 0.23
51 44 0.48
52 27 0.29
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.25
Consensus pattern (51 bp):
CGAAATAATTTTTTTCGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
Found at i:36953890 original size:27 final size:29
Alignment explanation
Indices: 36953860--36953914 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
36953850 GAAGAAATTA
36953860 AATT-GTTTTAAAAAAT-AAAAATATAGG
1 AATTAGTTTTAAAAAATAAAAAATATAGG
*
36953887 AATTAGTTTTAACAAATAAAAAATATAG
1 AATTAGTTTTAAAAAATAAAAAATATAG
36953915 AAAAAATACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 11 0.44
29 10 0.40
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (29 bp):
AATTAGTTTTAAAAAATAAAAAATATAGG
Found at i:36954774 original size:12 final size:12
Alignment explanation
Indices: 36954757--36954810 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
36954747 AACTAATCCT
36954757 CTCTCAAATTTC
1 CTCTCAAATTTC
36954769 CTCTC-AATTTC
1 CTCTCAAATTTC
36954780 CTCTC-AATTTC
1 CTCTCAAATTTC
36954791 CT-TCAAAATTT-
1 CTCTC-AAATTTC
36954802 CTCTCAAAT
1 CTCTCAAAT
36954811 CCATATTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.05
11 25 0.64
12 12 0.31
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:36954897 original size:16 final size:16
Alignment explanation
Indices: 36954872--36954902 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36954862 CTCTATTTTT
36954872 AAATAATTTTTAAAAA
1 AAATAATTTTTAAAAA
*
36954888 AAATATTTTTTAAAA
1 AAATAATTTTTAAAA
36954903 TTTTTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAATTTTTAAAAA
Found at i:36955465 original size:15 final size:15
Alignment explanation
Indices: 36955445--36955473 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36955435 GGAGAAAATA
36955445 GAGGGAGGTAAGATG
1 GAGGGAGGTAAGATG
36955460 GAGGGAGGTAAGAT
1 GAGGGAGGTAAGAT
36955474 CGAGATGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (15 bp):
GAGGGAGGTAAGATG
Found at i:36984460 original size:19 final size:20
Alignment explanation
Indices: 36984413--36984461 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
36984403 TTAGGCCATT
36984413 ATGGGCCTCGT-TGGGCTAAA
1 ATGGG-CTCGTGTGGGCTAAA
*
36984433 ATGGG-TCGTGTGGG-TCAA
1 ATGGGCTCGTGTGGGCTAAA
36984451 ATGGGCTCGTG
1 ATGGGCTCGTG
36984462 GGCCCCACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.46
19 9 0.35
20 5 0.19
ACGTcount: A:0.16, C:0.16, G:0.41, T:0.27
Consensus pattern (20 bp):
ATGGGCTCGTGTGGGCTAAA
Found at i:36987900 original size:28 final size:27
Alignment explanation
Indices: 36987849--36987902 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
36987839 CTGATACTAA
*
36987849 TTCTGTAATGGGCTTAGGTCCACCTGG
1 TTCTGTAATGGGCTAAGGTCCACCTGG
36987876 TTCTGTTAATGGGCTAAGG-CTCACCTG
1 TTCTG-TAATGGGCTAAGGTC-CACCTG
36987903 ATACTATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (27 bp):
TTCTGTAATGGGCTAAGGTCCACCTGG
Found at i:36998445 original size:10 final size:10
Alignment explanation
Indices: 36998430--36998457 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
36998420 CTTAGCTTAG
36998430 AATTAGGATT
1 AATTAGGATT
36998440 AATTAGGATT
1 AATTAGGATT
36998450 AATTAGGA
1 AATTAGGA
36998458 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (10 bp):
AATTAGGATT
Found at i:37002956 original size:12 final size:11
Alignment explanation
Indices: 37002864--37002957 Score: 57
Period size: 12 Copynumber: 8.2 Consensus size: 11
37002854 AAATAATAAT
*
37002864 AAAACAAAA-A
1 AAAAGAAAAGA
* *
37002874 AAATGAAATGA
1 AAAAGAAAAGA
37002885 AAAAGAAATAGA
1 AAAAGAAA-AGA
*
37002897 AAAAGAAAA-T
1 AAAAGAAAAGA
** *
37002907 AATTGAAACGA
1 AAAAGAAAAGA
37002918 AAACAGAAAAGGAA
1 AAA-AGAAAA-G-A
37002932 CAAAAGAAAAGA
1 -AAAAGAAAAGA
37002944 AAAAGAGAAAGA
1 AAAAGA-AAAGA
37002956 AA
1 AA
37002958 GGAGAAAAAG
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
10 12 0.19
11 17 0.27
12 22 0.35
13 2 0.03
14 7 0.11
15 3 0.05
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.06
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:37006546 original size:11 final size:12
Alignment explanation
Indices: 37006526--37006558 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37006516 AATAAAACAA
37006526 AAAAATGAAAT-G
1 AAAAA-GAAATAG
37006538 AAAAAGAAATAG
1 AAAAAGAAATAG
37006550 AAAAAGAAA
1 AAAAAGAAA
37006559 CAAATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAAAGAAATAG
Found at i:37006607 original size:17 final size:18
Alignment explanation
Indices: 37006587--37006621 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
37006577 AAAAAGGAAC
37006587 GAAAGAAA-AGAAAAAGA
1 GAAAGAAAGAGAAAAAGA
37006604 GAAAGAAAGGAGAAAAAG
1 GAAAGAAA-GAGAAAAAG
37006622 CTAGGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAGAAAAAGA
Found at i:37007602 original size:40 final size:39
Alignment explanation
Indices: 37007477--37007595 Score: 113
Period size: 37 Copynumber: 3.1 Consensus size: 39
37007467 CGACTTTGAT
* *
37007477 TTGATGAGACACTGGGTGTCAATTTACTACTTC-AGATTAA
1 TTGATGAGACACTGGGTGTCAAATTATTACTTCGA-ATT-A
* **
37007517 TTTGATGACG-CACTGGGTG-CCAA-T-TTACTTCGGTTTA
1 -TTGATGA-GACACTGGGTGTCAAATTATTACTTCGAATTA
37007554 GTTGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 -TTGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
37007594 TT
1 TT
37007596 CAATGAGGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
36 1 0.02
37 17 0.27
38 11 0.17
39 4 0.06
40 13 0.21
41 16 0.25
42 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (39 bp):
TTGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
Found at i:37021480 original size:3 final size:3
Alignment explanation
Indices: 37021472--37021498 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37021462 TAGTTAACAA
37021472 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
37021499 GGGAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37021677 original size:3 final size:3
Alignment explanation
Indices: 37021669--37021699 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
37021659 AGAATTTTTC
*
37021669 TCT TCT TCT TCT TCT TCT TAT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
37021700 ACACAGTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:37022378 original size:2 final size:2
Alignment explanation
Indices: 37022371--37022405 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37022361 ATATCATTGT
37022371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37022406 TGTTAAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37025541 original size:22 final size:22
Alignment explanation
Indices: 37025513--37025581 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
37025503 TATGCACTAT
37025513 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
* *
37025535 TATACAGAGAACAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
* *
37025557 TAAACGGAGAGCACTAATGTGC
1 TAAACAGAGAGCACTAAAGTGC
37025579 TAA
1 TAA
37025582 TAATCGGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.08
22 34 0.87
23 2 0.05
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:37028057 original size:12 final size:13
Alignment explanation
Indices: 37028040--37028072 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37028030 TATCATTATT
37028040 TAAAATAAA-TTA
1 TAAAATAAAGTTA
37028052 TAAAATAAAGTTA
1 TAAAATAAAGTTA
*
37028065 AAAAATAA
1 TAAAATAA
37028073 TGAAGTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
TAAAATAAAGTTA
Found at i:37028135 original size:22 final size:22
Alignment explanation
Indices: 37028104--37028145 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37028094 CTTTATTCCT
* *
37028104 AATTTCTATATATTAATAAAGG
1 AATTTATATAGATTAATAAAGG
37028126 AATTTATATAGATTAATAAA
1 AATTTATATAGATTAATAAA
37028146 TTAGCATGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTTATATAGATTAATAAAGG
Found at i:37033528 original size:98 final size:98
Alignment explanation
Indices: 37033400--37033592 Score: 296
Period size: 98 Copynumber: 2.0 Consensus size: 98
37033390 AAAAATCATA
* * *
37033400 AAGGAAATTTTCCGAGTTTGGGATTATAAAGGAATTGTACCCTAACGTATTGAGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTATAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTCTT
*
37033465 AAATCTTGGATAAGCGGATGTTCTTTTAAAATG
66 AAATCTTGGATAAGCGGATGTTCCTTTAAAATG
* * * *
37033498 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGTTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTATAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTCTT
* *
37033563 AGATCTTGGATAAGTGGATGTTCCTTTAAA
66 AAATCTTGGATAAGCGGATGTTCCTTTAAA
37033593 GTTTTTCATT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTATAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTCTT
AAATCTTGGATAAGCGGATGTTCCTTTAAAATG
Found at i:37046248 original size:45 final size:46
Alignment explanation
Indices: 37046143--37046575 Score: 216
Period size: 45 Copynumber: 9.7 Consensus size: 46
37046133 TCGCATCTAG
* * * *
37046143 TCTTATCTCCCTGAAGTTACGGTG-GAGCAGACT-AAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTGAAGAT-GGCAAA
* *
37046187 TCTTTTC-CTCCTGAAGTTGCAATGAG-GCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACTGAAGATGGCAAA
* *
37046232 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGA-TTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTGAAGATGGC-A-AA
* * * * * * *** *
37046276 TCCTATCTCCCTGAAGTTACA-TTAGAGCGGA-TTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTGAAGATGGCAAA
* * * * *
37046320 TCTTATCTCTCTGAAGTTGCA--AAGAGCAGA-TCG--TAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACT-GAAGATGGCAAA
* ** *
37046360 TCTTATCTCCCTAAAGTTGCAGTG-GAGCAGACT-AAGCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTGAAG-ATGGCAAA
* ** * * *
37046405 TCTTATC-CTCCTGAAGTTGCAGTGAGTTGCAGAGAGTAGATCGCATCTAG
1 TCTTATCTC-CCTGAAGTTGCAGTGAG-AGCAGACTGAAGATGGCA---AA
* * **
37046455 TCTTATCTCTCTGAAATTGCAGTG-GAGCAGACT-AAGCAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTGAAG-ATGGCAAA
*
37046500 TCTTATC-CTCCTGAAGTTGCAGTGAGA-CAGACCGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACTGAAGATGGCAAA
*
37046545 TCTTATCTCCCTGAAGTTGCGGTG-GAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA
37046576 TTAAAGCCAA
Statistics
Matches: 299, Mismatches: 56, Indels: 67
0.71 0.13 0.16
Matches are distributed among these distances:
40 20 0.07
41 7 0.02
42 4 0.01
43 13 0.04
44 83 0.28
45 116 0.39
46 10 0.03
47 11 0.04
48 11 0.04
49 1 0.00
50 22 0.07
51 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTGAAGATGGCAAA
Found at i:37046327 original size:44 final size:43
Alignment explanation
Indices: 37046230--37046350 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
37046220 GAAGATGGCA
* * *
37046230 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACC-AT
* * *
37046274 AATCCTATCTCCCTGAAGTTACATTAGAGCGGATTAAAACC-T
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCAT
* * *
37046316 CAGATCTTATCTCTCTGAAGTTGCA-AAGAGCAGAT
1 -A-ATCTTATCTCCCTGAAGTTACAGTAGAGCAGAT
37046351 CGTATCTAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 1 0.02
43 9 0.14
44 54 0.84
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCAT
Found at i:37046497 original size:95 final size:95
Alignment explanation
Indices: 37046334--37046525 Score: 323
Period size: 95 Copynumber: 2.0 Consensus size: 95
37046324 ATCTCTCTGA
*
37046334 AGTTGCAAAGAGCAGATCGTATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAA
1 AGTTGCAAAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAA
*
37046399 AGCAAGTCTTATCCTCCTGAAGTTGCAGTG
66 AGCAAATCTTATCCTCCTGAAGTTGCAGTG
* * *
37046429 AGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCTCTGAAA-TTGCAGTGGAGCAGACTAAGCA
1 AGTTGCAAAGAGCAGATCGCATCTAGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTAAGCA
37046493 AAGCAAATCTTATCCTCCTGAAGTTGCAGTG
65 AAGCAAATCTTATCCTCCTGAAGTTGCAGTG
37046524 AG
1 AG
37046526 ACAGACCGAA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 88 0.97
96 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (95 bp):
AGTTGCAAAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAA
AGCAAATCTTATCCTCCTGAAGTTGCAGTG
Found at i:37046647 original size:66 final size:66
Alignment explanation
Indices: 37046541--37046709 Score: 311
Period size: 66 Copynumber: 2.6 Consensus size: 66
37046531 CCGAAGATGG
37046541 CAAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGCCAACAGTGGAGCGGGTTAAAACC
1 CAAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGCCAACAGTGGAGCGGGTTAAAACC
37046606 T
66 T
*
37046607 CAAATCTTATCTCCCTGAAGTTACGGTGGAGCAGATTAAAGCCAACAGTGGAGCGGGTTAAAACC
1 CAAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGCCAACAGTGGAGCGGGTTAAAACC
37046672 T
66 T
* *
37046673 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 CAAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATT
37046710 GGTAGATCAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 99 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (66 bp):
CAAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGCCAACAGTGGAGCGGGTTAAAACC
T
Found at i:37048732 original size:98 final size:98
Alignment explanation
Indices: 37048618--37048811 Score: 316
Period size: 98 Copynumber: 2.0 Consensus size: 98
37048608 AAAATCATAA
*
37048618 AGGAAATTTTTCGAGTTTGGGATTATAAAGGAATTGTGCCATAACATATTGGGTGTGATTTCTTA
1 AGGAAATATTTCGAGTTTGGGATTATAAAGGAATTGTGCCATAACATATTGGGTGTGATTTCTTA
*
37048683 AATCTTGGATAAGCGGATGTTCTTTTAAAGTGT
66 AATCTTGGATAAGCGGATGTTCCTTTAAAGTGT
* * ** *
37048716 AGGAAATATTTCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAATGTATTGGGTGTGTTTTCTTA
1 AGGAAATATTTCGAGTTTGGGATTATAAAGGAATTGTGCCATAACATATTGGGTGTGATTTCTTA
*
37048781 AATCTTGGATAAGTGGATGTTCCTTTAAAGT
66 AATCTTGGATAAGCGGATGTTCCTTTAAAGT
37048812 TTTTCATTAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (98 bp):
AGGAAATATTTCGAGTTTGGGATTATAAAGGAATTGTGCCATAACATATTGGGTGTGATTTCTTA
AATCTTGGATAAGCGGATGTTCCTTTAAAGTGT
Found at i:37056341 original size:12 final size:11
Alignment explanation
Indices: 37056324--37056366 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
37056314 GATAAGAAGA
37056324 AATAATGAAAAT
1 AATAAT-AAAAT
37056336 AATAATAACAAT
1 AATAATAA-AAT
*
37056348 AATAGTACAAAT
1 AATAATA-AAAT
37056360 AATAATA
1 AATAATA
37056367 GGATTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 2 0.07
12 24 0.89
13 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:37062360 original size:114 final size:114
Alignment explanation
Indices: 37062239--37062509 Score: 470
Period size: 114 Copynumber: 2.4 Consensus size: 114
37062229 GTAAGCGTCG
* **
37062239 CAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGTGCTTATGA
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGACGCTTATGA
* *
37062304 AAAAACGCCGCTAAATCACAGAATTAGCGGCACATTATAAAAAGCGCCC
66 AAAAACGCCGCTAAAGCACAGAATTAGCGGCACATTATAAAAAGCGCCA
37062353 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGACGCTTATGA
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGACGCTTATGA
* *
37062418 AGAAACGCCGCTAAAGCACATAATTAGCGGCACATTATAAAAAGCGCCA
66 AAAAACGCCGCTAAAGCACAGAATTAGCGGCACATTATAAAAAGCGCCA
*
37062467 CAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATA
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
37062510 GAGCCAATAG
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 149 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (114 bp):
CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGACGCTTATGA
AAAAACGCCGCTAAAGCACAGAATTAGCGGCACATTATAAAAAGCGCCA
Found at i:37062574 original size:114 final size:111
Alignment explanation
Indices: 37062239--37062561 Score: 372
Period size: 114 Copynumber: 2.8 Consensus size: 111
37062229 GTAAGCGTCG
* * *
37062239 CAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGTGCTTATGA
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAG-AGCGCTTATG-
*
37062304 AAAAACGCCGCTA-AATCAC-AGAATTAGCGGCACATTATAAAAAGCGCCC
64 AAAAACGCCGCTATAA-C-CGA-AATTAGCGGCACATTATAAAAAGCGCCA
*
37062353 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGACGCTTATGA
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGAG-CGCTTATGA
37062418 AGAAACGCCGCTA-AAGCAC-ATAATTAGCGGCACATTATAAAAAGCGCCA
65 A-AAACGCCGCTATAA-C-CGA-AATTAGCGGCACATTATAAAAAGCGCCA
* * * *
37062467 CAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATA-GAGCCAA-TAGCAGCGGTTGT
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAG--AATTAG-AGCGCTT-A
*
37062530 TG-AAAACGCCGCTATTTACCGAAATTAGCGGC
62 TGAAAAACGCCGCTA-TAACCGAAATTAGCGGC
37062562 GATTAACTAA
Statistics
Matches: 188, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
113 27 0.14
114 155 0.82
115 6 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (111 bp):
CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGAGCGCTTATGAA
AAACGCCGCTATAACCGAAATTAGCGGCACATTATAAAAAGCGCCA
Found at i:37063290 original size:21 final size:22
Alignment explanation
Indices: 37063244--37063290 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
37063234 GATTGTTTGT
* * *
37063244 GGTTTACGGGTTTAATATTTAT
1 GGTTTACGGGTTTAAGATTCAC
37063266 GGTTTA-GGGTTTAAGATTCAC
1 GGTTTACGGGTTTAAGATTCAC
37063287 GGTT
1 GGTT
37063291 AATGTTTACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.45
Consensus pattern (22 bp):
GGTTTACGGGTTTAAGATTCAC
Found at i:37063420 original size:14 final size:14
Alignment explanation
Indices: 37063357--37063420 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
37063347 GGTTAATTGG
37063357 AAGATTTAGGGTTT
1 AAGATTTAGGGTTT
* ** *
37063371 ACGGGTTGGGGTTT
1 AAGATTTAGGGTTT
* *
37063385 GAGGTTTAGGGTTT
1 AAGATTTAGGGTTT
37063399 ATAG-TTTAGGGTTT
1 A-AGATTTAGGGTTT
37063413 AAGATTTA
1 AAGATTTA
37063421 CAGTTAAGGC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 2 0.05
14 35 0.90
15 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.42
Consensus pattern (14 bp):
AAGATTTAGGGTTT
Found at i:37063420 original size:28 final size:28
Alignment explanation
Indices: 37063357--37063420 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
37063347 GGTTAATTGG
* *
37063357 AAGATTTAGGGTTTACGGGTTGGGGTTT
1 AAGATTTAGGGTTTACAGGTTAGGGTTT
* * * *
37063385 GAGGTTTAGGGTTTATAGTTTAGGGTTT
1 AAGATTTAGGGTTTACAGGTTAGGGTTT
37063413 AAGATTTA
1 AAGATTTA
37063421 CAGTTAAGGC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.42
Consensus pattern (28 bp):
AAGATTTAGGGTTTACAGGTTAGGGTTT
Found at i:37063947 original size:17 final size:15
Alignment explanation
Indices: 37063913--37063941 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37063903 AAATTTGAAT
37063913 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
37063928 ATTGATAGTATTTA
1 ATTGATAGTATTTA
37063942 TAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:37063957 original size:16 final size:16
Alignment explanation
Indices: 37063895--37063964 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
37063885 CGCCGCAAAC
37063895 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
37063911 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
37063933 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
37063951 ATATTTAGAAATTT
1 ATATTTATAAATTT
37063965 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:37063987 original size:25 final size:24
Alignment explanation
Indices: 37063937--37063987 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
37063927 AATTGATAGT
* *
37063937 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
37063961 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
37063986 AT
1 AT
37063988 AATATCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:37064681 original size:17 final size:15
Alignment explanation
Indices: 37064647--37064675 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37064637 AAATTTGAAT
37064647 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
37064662 ATTGATAGTATTTA
1 ATTGATAGTATTTA
37064676 TAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:37064691 original size:16 final size:16
Alignment explanation
Indices: 37064629--37064698 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
37064619 CGCCGCAAAC
37064629 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
37064645 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
37064667 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
37064685 ATATTTAGAAATTT
1 ATATTTATAAATTT
37064699 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:37064721 original size:25 final size:24
Alignment explanation
Indices: 37064671--37064721 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
37064661 AATTGATAGT
* *
37064671 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
37064695 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
37064720 AT
1 AT
37064722 AATATCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:37070132 original size:42 final size:42
Alignment explanation
Indices: 37070085--37070392 Score: 196
Period size: 43 Copynumber: 7.3 Consensus size: 42
37070075 AATCCCAAAA
* *
37070085 TTAGCGGCGTTTGTGGAAAATCGCCGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACATGACCT
* *
37070127 TTAGCGGCGTTTGTGGAAAAAAAACGCCGCTAAAGAACATTA-CT
1 TTAGCGGCGTTTGTGG---AAAAGCGCCGCTAAAGAACATGACCT
* * * * *
37070171 TTGAGCGGCATTTGTGAATAAAGCGTCACTAAAGAACATGAGCT
1 TT-AGCGGCGTTTGTGGA-AAAGCGCCGCTAAAGAACATGACCT
* * * * ** **
37070215 TTAGTGGCGTTTGTTGG-TAGGCGCCGCTATAGGTCATGTTCT
1 TTAGCGGCGTTTG-TGGAAAAGCGCCGCTAAAGAACATGACCT
* * * *
37070257 TTAGCAGCGTTTTTTGTAAAAGCGCTGCTAAAGAACATGACCT
1 TTAGCGGCG-TTTGTGGAAAAGCGCCGCTAAAGAACATGACCT
* * * * * *
37070300 TTAGCGACTTTTTTTTG--AAGCGCCGCTACAGAACATGATCT
1 TTAGCGGC-GTTTGTGGAAAAGCGCCGCTAAAGAACATGACCT
**** * *
37070341 TTAGCGGCGTTT-T-TTTCAGCGCCGCTAAAGAATATAACCT
1 TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACATGACCT
*
37070381 TTAGCAGCGTTT
1 TTAGCGGCGTTT
37070393 ATTTCTGTAA
Statistics
Matches: 204, Mismatches: 50, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
39 1 0.00
40 33 0.16
41 28 0.14
42 42 0.21
43 58 0.28
44 10 0.05
45 32 0.16
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACATGACCT
Found at i:37070178 original size:45 final size:44
Alignment explanation
Indices: 37070085--37070228 Score: 152
Period size: 45 Copynumber: 3.3 Consensus size: 44
37070075 AATCCCAAAA
* *
37070085 TTAGCGGCGTTTGTGG--AAAATCGCCGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCT
*
37070127 TTAGCGGCGTTTGTGGAAAAAAAACGCCGCTAAAGAACATTA-CT
1 TTAGCGGCGTTTGTGG-AAAAAAACGCCGCTAAAGAACATGACCT
* * * * * *
37070171 TTGAGCGGCATTTGT-GAATAAAGCGTCACTAAAGAACATGAGCT
1 TT-AGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCT
*
37070215 TTAGTGGCGTTTGT
1 TTAGCGGCGTTTGT
37070229 TGGTAGGCGC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
42 16 0.19
43 30 0.35
44 9 0.10
45 31 0.36
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCT
Found at i:37070312 original size:41 final size:40
Alignment explanation
Indices: 37070275--37070385 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
37070265 GTTTTTTGTA
* *
37070275 AAAGCGCTGCTAAAGAACATGACCTTTAGCGACTTTTTTTT
1 AAAGCGCCGCTAAAGAACATGACCTTTAGCGAC-GTTTTTT
* * * *
37070316 GAAGCGCCGCTACAGAACATGATCTTTAGCGGCGTTTTTT
1 AAAGCGCCGCTAAAGAACATGACCTTTAGCGACGTTTTTT
** * *
37070356 TCAGCGCCGCTAAAGAATATAACCTTTAGC
1 AAAGCGCCGCTAAAGAACATGACCTTTAGC
37070386 AGCGTTTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 30 0.52
41 28 0.48
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (40 bp):
AAAGCGCCGCTAAAGAACATGACCTTTAGCGACGTTTTTT
Found at i:37070354 original size:84 final size:82
Alignment explanation
Indices: 37070199--37070385 Score: 196
Period size: 84 Copynumber: 2.3 Consensus size: 82
37070189 TAAAGCGTCA
* * * * * ** *
37070199 CTAAAGAACATGAGCTTTAGTGGCGTTTGTTGGTAGGCGCCGCTATAGGTCATGTTCTTTAGCAG
1 CTAAAGAACATGACCTTTAGCGACGTTTGTTGGTAAGCGCCGCTACAGAACATGATCTTTAGCAG
*
37070264 CGTTTTTTGTAAAAGCGCTG
66 CGTTTTTT-T--AAGCGCCG
* * * *
37070284 CTAAAGAACATGACCTTTAGCGACTTTTTTTTG-AAGCGCCGCTACAGAACATGATCTTTAGCGG
1 CTAAAGAACATGACCTTTAGCGACGTTTGTTGGTAAGCGCCGCTACAGAACATGATCTTTAGCAG
*
37070348 CGTTTTTTTCAGCGCCG
66 CGTTTTTTTAAGCGCCG
* *
37070365 CTAAAGAATATAACCTTTAGC
1 CTAAAGAACATGACCTTTAGC
37070386 AGCGTTTATT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 25 0.29
83 1 0.01
84 33 0.38
85 27 0.31
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (82 bp):
CTAAAGAACATGACCTTTAGCGACGTTTGTTGGTAAGCGCCGCTACAGAACATGATCTTTAGCAG
CGTTTTTTTAAGCGCCG
Found at i:37070365 original size:40 final size:40
Alignment explanation
Indices: 37070199--37070392 Score: 163
Period size: 41 Copynumber: 4.7 Consensus size: 40
37070189 TAAAGCGTCA
* * * *
37070199 CTAAAGAACATGAGCTTTAGTGGCGTTTGTTGGTAGGCGCCG
1 CTAAAGAACATGACCTTTAGCGGCGTTT-TT-TTAAGCGCCG
* ** ** * *
37070241 CTATAGGTCATGTTCTTTAGCAGCGTTTTTTGTAAAAGCGCTG
1 CTAAAGAACATGACCTTTAGCGGCGTTTTTT-T--AAGCGCCG
* *
37070284 CTAAAGAACATGACCTTTAGCGACTTTTTTTTGAAGCGCCG
1 CTAAAGAACATGACCTTTAGCGGCGTTTTTTT-AAGCGCCG
* * *
37070325 CTACAGAACATGATCTTTAGCGGCGTTTTTTTCAGCGCCG
1 CTAAAGAACATGACCTTTAGCGGCGTTTTTTTAAGCGCCG
* * *
37070365 CTAAAGAATATAACCTTTAGCAGCGTTT
1 CTAAAGAACATGACCTTTAGCGGCGTTT
37070393 ATTTCTGTAA
Statistics
Matches: 119, Mismatches: 30, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
40 30 0.25
41 38 0.32
42 22 0.18
43 29 0.24
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (40 bp):
CTAAAGAACATGACCTTTAGCGGCGTTTTTTTAAGCGCCG
Found at i:37072270 original size:43 final size:43
Alignment explanation
Indices: 37072222--37072410 Score: 263
Period size: 43 Copynumber: 4.4 Consensus size: 43
37072212 TCGCTAACAA
37072222 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
*
37072265 GACCTTTAGCGGCG-TTTCTCCCACAAATGCCGCTAAAGACCAG
1 GACCTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGACCAG
* * * *
37072308 GACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGAACAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
* * * * *
37072351 GACCTATAGCGGCTCTTTCCCCACAAACGCCGCTAAAGATCAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
*
37072394 GACCTTTAGCGACGCTT
1 GACCTTTAGCGGCGCTT
37072411 CTATTAAAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.02
43 123 0.95
44 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
Found at i:37073902 original size:20 final size:20
Alignment explanation
Indices: 37073877--37073917 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37073867 AGCTTCTTTT
37073877 AATATACATCTAAGATTTCC
1 AATATACATCTAAGATTTCC
37073897 AATATACATCTAAGATTTCC
1 AATATACATCTAAGATTTCC
37073917 A
1 A
37073918 CTGCTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
AATATACATCTAAGATTTCC
Found at i:37076621 original size:41 final size:40
Alignment explanation
Indices: 37076557--37076899 Score: 375
Period size: 41 Copynumber: 8.4 Consensus size: 40
37076547 GTGTTTTTTA
* *
37076557 AAAAACGCTGCTAAAGACCCGAGAATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGA-CCGAGCATTAGCGGCGCTTCTTC
* * * * *
37076598 AAAAACGCTGCTAAATACACGAGAATTAGCGGTGCTTCTTA
1 AAAAACGCCGCTAAAGAC-CGAGCATTAGCGGCGCTTCTTC
** * * *
37076639 AAAAATACCGCTAAAGACCCAGGCATTAGCAGTGCTTCTTC
1 AAAAACGCCGCTAAAGACCGA-GCATTAGCGGCGCTTCTTC
* *
37076680 AAAAACGCTGCTAAAGACACGAGCATTCA-CGGCGCTACTTC
1 AAAAACGCCGCTAAAGAC-CGAGCATT-AGCGGCGCTTCTTC
* **
37076721 AAAAACACCGCTAAAGACCCGAGCATTAGCAACGCTTCTTC
1 AAAAACGCCGCTAAAGA-CCGAGCATTAGCGGCGCTTCTTC
*
37076762 AAAAACGACGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGACC-GAGCATTAGCGGCGCTTCTTC
* *
37076803 AAAAATGCCGCTAAAGACCTGAGCATTAGCGGCACTTCTTC
1 AAAAACGCCGCTAAAGACC-GAGCATTAGCGGCGCTTCTTC
* * *
37076844 AAAAATGCCGCTAAAGACTTGAGCATTAGCAGCGCTTCTT-
1 AAAAACGCCGCTAAAGAC-CGAGCATTAGCGGCGCTTCTTC
*
37076884 AAAAACACCGCTAAAG
1 AAAAACGCCGCTAAAG
37076900 CCCCGAAAAC
Statistics
Matches: 258, Mismatches: 36, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
40 20 0.08
41 234 0.91
42 4 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGACCGAGCATTAGCGGCGCTTCTTC
Found at i:37076653 original size:82 final size:82
Alignment explanation
Indices: 37076557--37076905 Score: 420
Period size: 82 Copynumber: 4.3 Consensus size: 82
37076547 GTGTTTTTTA
* * * * * *
37076557 AAAAACGCTGCTAAAGACCCGAGAATTAGCGGCGCTTCTTCAAAAACGCTGCTAAATACACGAGA
1 AAAAACACCGCTAAAGACCCGAGCATTAGCAGCGCTTCTTCAAAAACGCTGCTAAAGACACGAGC
* *
37076622 ATTAGCGGTGCTTCTTA
66 ATTAGCGGCGCTTCTTC
* *
37076639 AAAAATACCGCTAAAGACCC-AGGCATTAGCAGTGCTTCTTCAAAAACGCTGCTAAAGACACGAG
1 AAAAACACCGCTAAAGACCCGA-GCATTAGCAGCGCTTCTTCAAAAACGCTGCTAAAGACACGAG
*
37076703 CATTCA-CGGCGCTACTTC
65 CATT-AGCGGCGCTTCTTC
*
37076721 AAAAACACCGCTAAAGACCCGAGCATTAGCAACGCTTCTTCAAAAACGAC-GCTAAAGAC-CAGA
1 AAAAACACCGCTAAAGACCCGAGCATTAGCAGCGCTTCTTCAAAAACG-CTGCTAAAGACAC-GA
37076784 GCATTAGCGGCGCTTCTTC
64 GCATTAGCGGCGCTTCTTC
** * * * * * **
37076803 AAAAATGCCGCTAAAGACCTGAGCATTAGCGGCACTTCTTCAAAAATGCCGCTAAAGACTTGAGC
1 AAAAACACCGCTAAAGACCCGAGCATTAGCAGCGCTTCTTCAAAAACGCTGCTAAAGACACGAGC
*
37076868 ATTAGCAGCGCTTCTT-
66 ATTAGCGGCGCTTCTTC
*
37076884 AAAAACACCGCTAAAGCCCCGA
1 AAAAACACCGCTAAAGACCCGA
37076906 AAACTCAAAA
Statistics
Matches: 231, Mismatches: 28, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
81 22 0.10
82 206 0.89
83 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (82 bp):
AAAAACACCGCTAAAGACCCGAGCATTAGCAGCGCTTCTTCAAAAACGCTGCTAAAGACACGAGC
ATTAGCGGCGCTTCTTC
Found at i:37076721 original size:123 final size:122
Alignment explanation
Indices: 37076557--37076899 Score: 424
Period size: 123 Copynumber: 2.8 Consensus size: 122
37076547 GTGTTTTTTA
* * * *
37076557 AAAAACGCTGCTAAAGACCCGAGAATTAGCGGCGCTTCTTCAAAAACGCTGCTAAATACACGAGA
1 AAAAACGCTGCTAAAGA-CCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACACGAGC
* * * *
37076622 ATTAGCGGTGCTTCTTAAAAAATACCGCTAAAGACCCAG-GCATTAGCAGTGCTTCTTC
65 ATTAGCAGCGCTTCTTAAAAAACACCGCTAAAGA-CCAGAGCATTAGCAGCGCTTCTTC
* * *
37076680 AAAAACGCTGCTAAAGACACGAGCATTCA-CGGCGCTACTTCAAAAACACCGCTAAAGACCCGAG
1 AAAAACGCTGCTAAAGAC-CGAGCATT-AGCGGCGCTTCTTCAAAAACGCCGCTAAAGACACGAG
* * *
37076744 CATTAGCAACGCTTCTTCAAAAACGA-CGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
64 CATTAGCAGCGCTTCTTAAAAAAC-ACCGCTAAAGACCAGAGCATTAGCAGCGCTTCTTC
* * * * **
37076803 AAAAATGCCGCTAAAGACCTGAGCATTAGCGGCACTTCTTCAAAAATGCCGCTAAAGACTTGAGC
1 AAAAACGCTGCTAAAGACC-GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACACGAGC
37076868 ATTAGCAGCGCTTCTT-AAAAACACCGCTAAAG
65 ATTAGCAGCGCTTCTTAAAAAACACCGCTAAAG
37076900 CCCCGAAAAC
Statistics
Matches: 190, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
121 1 0.01
122 21 0.11
123 166 0.87
124 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (122 bp):
AAAAACGCTGCTAAAGACCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACACGAGCA
TTAGCAGCGCTTCTTAAAAAACACCGCTAAAGACCAGAGCATTAGCAGCGCTTCTTC
Found at i:37077027 original size:40 final size:40
Alignment explanation
Indices: 37076957--37077071 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
37076947 CGCCTTTTGG
*
37076957 AAAA-CGCCGCTAATGCTC-CTTTTTAGCGGCGTTTTCTT
1 AAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTCTT
* *
37076995 AAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTCTT
1 AAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTCTT
* * *
37077035 AGAAGCGCCGGTAATGC-CTGATTTTTAGCTGCGTTTT
1 AAAAGCGCCGCTAATGCTC-GATTTTTAGCGGCGTTTT
37077072 TTATCCGAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.06
39 14 0.21
40 48 0.73
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTCTT
Found at i:37077674 original size:18 final size:18
Alignment explanation
Indices: 37077647--37077685 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
37077637 AACAAAAATG
37077647 AAAACAATATTAAATGGT
1 AAAACAATATTAAATGGT
*
37077665 AAAACGATATTAAATGGT
1 AAAACAATATTAAATGGT
37077683 AAA
1 AAA
37077686 TAAACTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (18 bp):
AAAACAATATTAAATGGT
Found at i:37096135 original size:8 final size:8
Alignment explanation
Indices: 37096122--37096146 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37096112 GGAAAACGAA
37096122 AGTAGTCG
1 AGTAGTCG
37096130 AGTAGTCG
1 AGTAGTCG
37096138 AGTAGTCG
1 AGTAGTCG
37096146 A
1 A
37096147 TTGTGTCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (8 bp):
AGTAGTCG
Found at i:37097109 original size:41 final size:41
Alignment explanation
Indices: 37097052--37097397 Score: 692
Period size: 41 Copynumber: 8.4 Consensus size: 41
37097042 AAATAAGATG
37097052 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097093 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097134 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097175 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097216 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097257 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097298 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097339 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
37097380 TTTCAGACTTTACGTCTA
1 TTTCAGACTTTACGTCTA
37097398 TAAATGAATT
Statistics
Matches: 305, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 305 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:37105512 original size:49 final size:49
Alignment explanation
Indices: 37105443--37105547 Score: 183
Period size: 49 Copynumber: 2.1 Consensus size: 49
37105433 GTATTGCAGT
* *
37105443 ATGGATTATTGTTTTAGTTAGAGTTCCCTATATAGTATGTTGACACTGG
1 ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
37105492 ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
1 ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
37105541 ATTGGAT
1 A-TGGAT
37105548 GGACATTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 48 0.91
50 5 0.09
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (49 bp):
ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
Found at i:37106558 original size:15 final size:15
Alignment explanation
Indices: 37106538--37106567 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37106528 ACCTGTAAAA
*
37106538 ATTAAATTAAACTAC
1 ATTAAATAAAACTAC
37106553 ATTAAATAAAACTAC
1 ATTAAATAAAACTAC
37106568 TAAGTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAATAAAACTAC
Found at i:37116572 original size:20 final size:20
Alignment explanation
Indices: 37116519--37116577 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
37116509 CACAATAGTT
*
37116519 TGTGGACAAGCCACCAGTAA
1 TGTGGACAAGCCACCAGAAA
* *
37116539 TGCT-GATAAACCACCAGAAA
1 TG-TGGACAAGCCACCAGAAA
37116559 TGTGGACAAGCCACCAGAA
1 TGTGGACAAGCCACCAGAA
37116578 TTGAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (20 bp):
TGTGGACAAGCCACCAGAAA
Found at i:37116586 original size:20 final size:20
Alignment explanation
Indices: 37116523--37116589 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
37116513 ATAGTTTGTG
* **
37116523 GACAAGCCACCAGTAATGCT
1 GACAAGCCACCAGAAATGAA
* * **
37116543 GATAAACCACCAGAAATGTG
1 GACAAGCCACCAGAAATGAA
*
37116563 GACAAGCCACCAGAATTGAA
1 GACAAGCCACCAGAAATGAA
37116583 GACAAGC
1 GACAAGC
37116590 TACAATTAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (20 bp):
GACAAGCCACCAGAAATGAA
Found at i:37121352 original size:18 final size:17
Alignment explanation
Indices: 37121329--37121368 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
37121319 AAGTGGAAGG
37121329 GGAGAGAAA-AAGATGAGA
1 GGAGAGAAAGAA-ATGA-A
37121347 GGAGAGAAAGAAATGAA
1 GGAGAGAAAGAAATGAA
37121364 GGAGA
1 GGAGA
37121369 AAACAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (17 bp):
GGAGAGAAAGAAATGAA
Found at i:37128190 original size:26 final size:26
Alignment explanation
Indices: 37128148--37128413 Score: 189
Period size: 26 Copynumber: 10.3 Consensus size: 26
37128138 GTACATAGTA
**
37128148 CCTGCTAAATATTCACCGGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
*
37128174 CCAT-CTAAATAAACACCAGCTCAAAG
1 CC-TGCTAAATAAACACCGGCTCAAAG
* * *
37128200 -CTGCTAAATAACCACTGGCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
* ** *
37128225 CGTGCTAAATAAACAATGGCTCAAAA
1 CCTGCTAAATAAACACCGGCTCAAAG
* * * *
37128251 CTTGCTAAAGAAACACCTGCCCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
* *
37128277 CCTACTAAATAAACACCGGCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
* * * * * *
37128303 CTTGCTAAAGAAACATCAGCCCAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
* * *
37128329 CCTACTAAATAAACACCGTCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
* * * * *
37128355 CCTACTAAAGAAACA-CAGTTCCAAGG
1 CCTGCTAAATAAACACCGGCT-CAAAG
* *
37128381 CTTGCTAAATAAACACCGACTC-AAG
1 CCTGCTAAATAAACACCGGCTCAAAG
37128406 CCCTGCTA
1 -CCTGCTA
37128414 TTCAAGTACG
Statistics
Matches: 184, Mismatches: 50, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
24 1 0.01
25 23 0.12
26 157 0.85
27 3 0.02
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (26 bp):
CCTGCTAAATAAACACCGGCTCAAAG
Found at i:37128337 original size:78 final size:76
Alignment explanation
Indices: 37128178--37128395 Score: 215
Period size: 78 Copynumber: 2.8 Consensus size: 76
37128168 TCAAAGCCAT
* * * *
37128178 CTAAATAAACACCAGCTCAAAG-CTGCTAAATAACCACTGGCTCAAGGCGTGCTAAATAAACAAT
1 CTAAATAAACACC-GCTCAAAGCCTACTAAATAAACACCGGCTCAAGGCTTGCTAAATAAAC-AT
* * * *
37128242 GGCTCAAAACTTG
64 AGCCCAAAACCTA
* * *
37128255 CTAAAGAAACACCTGCCCAAAGCCTACTAAATAAACACCGGCTCAAGGCTTGCTAAAGAAACATC
1 CTAAATAAACACC-GCTCAAAGCCTACTAAATAAACACCGGCTCAAGGCTTGCTAAATAAACAT-
**
37128320 AGCCCAAGGCCTA
64 AGCCCAAAACCTA
* * * *
37128333 CTAAATAAACACCGTCTCAAGGCCTACTAAAGAAACA-CAGTTCCAAGGCTTGCTAAATAAACA
1 CTAAATAAACACCG-CTCAAAGCCTACTAAATAAACACCGGCT-CAAGGCTTGCTAAATAAACA
37128396 CCGACTCAAG
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
77 25 0.22
78 91 0.78
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.17
Consensus pattern (76 bp):
CTAAATAAACACCGCTCAAAGCCTACTAAATAAACACCGGCTCAAGGCTTGCTAAATAAACATAG
CCCAAAACCTA
Found at i:37131349 original size:38 final size:38
Alignment explanation
Indices: 37131307--37131381 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
37131297 TCTATATAGA
37131307 TATCACTGAAATCATTTTCGAAACAAATCAGACTTAGT
1 TATCACTGAAATCATTTTCGAAACAAATCAGACTTAGT
37131345 TATCACTGAAATCATTTTCGAAACAAATCAGACTTAG
1 TATCACTGAAATCATTTTCGAAACAAATCAGACTTAG
37131382 CAAATTCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (38 bp):
TATCACTGAAATCATTTTCGAAACAAATCAGACTTAGT
Found at i:37136240 original size:26 final size:25
Alignment explanation
Indices: 37136143--37136246 Score: 111
Period size: 26 Copynumber: 4.0 Consensus size: 25
37136133 GATCAAAGCA
* *
37136143 TGCTAAA-AAACACTAGATCAAAGCC
1 TGCTAAATAAACAC-AGCTCAAGGCC
* *
37136168 TGCTAAATAATCACTGACTCAAGGCC
1 TGCTAAATAAACACAG-CTCAAGGCC
* *
37136194 TTCTAAATAAACACCAACTCAAGGCC
1 TGCTAAATAAACA-CAGCTCAAGGCC
37136220 TGCTAAATAAACATCAGCTCAAGGCC
1 TGCTAAATAAACA-CAGCTCAAGGCC
37136246 T
1 T
37136247 ACTATTCAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
25 8 0.12
26 56 0.86
27 1 0.02
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.20
Consensus pattern (25 bp):
TGCTAAATAAACACAGCTCAAGGCC
Found at i:37139942 original size:13 final size:14
Alignment explanation
Indices: 37139926--37139954 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
37139916 GTGCACTTTC
37139926 AAATTATAAAA-AA
1 AAATTATAAAATAA
37139939 AAATTATAAAATAA
1 AAATTATAAAATAA
37139953 AA
1 AA
37139955 GAAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATTATAAAATAA
Found at i:37140747 original size:3 final size:3
Alignment explanation
Indices: 37140702--37140732 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37140692 TCGTGGATAA
37140702 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37140733 CAAAAGGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.