Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 117 of 290
Found at i:36425759 original size:68 final size:68
Alignment explanation
Indices: 36425667--36425929 Score: 292
Period size: 68 Copynumber: 3.9 Consensus size: 68
36425657 TTCCTGGTTC
* * * * * * *
36425667 ACTGTCCTGGCAGACTTTGTATGTTGTCATAGCCCAATTATGGTCTTACACATTATAATCTCATC
1 ACTGTCCTGACGGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCTCATG
36425732 TTT
66 TTT
* ** * * * *
36425735 ACTATCCTGAATGACTTCGTATGTTACCATAGCCCAATTATTGTCTTACACATTATGATATCATG
1 ACTGTCCTGACGGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCTCATG
36425800 TTT
66 TTT
* ** * * *
36425803 ACTGTCTTGACGGACTTCGTATGTTTTCATGGCCCAACTATGGTATTACACATTATGATCTTATG
1 ACTGTCCTGACGGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCTCATG
36425868 TTT
66 TTT
* * * * * *
36425871 AATGTCCTGGCGGACTTCATATGTTGCCATAGTCCAGCTATGGTGTTACACATTATGAT
1 ACTGTCCTGACGGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGAT
36425930 GACATGCACC
Statistics
Matches: 162, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 162 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (68 bp):
ACTGTCCTGACGGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCTCATG
TTT
Found at i:36425920 original size:136 final size:136
Alignment explanation
Indices: 36425679--36425929 Score: 322
Period size: 136 Copynumber: 1.8 Consensus size: 136
36425669 TGTCCTGGCA
* * * *
36425679 GACTTTGTATGTTGTCATAGCCCAATTATGGTCTTACACATTATAATCTCATCTTTACTATCCTG
1 GACTTCGTATGTTGTCATAGCCCAACTATGGTATTACACATTATAATCTCATCTTTAATATCCTG
* * * *
36425744 AATGACTTCGTATGTTACCATAGCCCAATTATTGTCTTACACATTATGATATCATGTTTACTGTC
66 AAGGACTTCATATGTTACCATAGCCCAACTATGGTCTTACACATTATGATATCATGTTTACTGTC
36425809 TTGACG
131 TTGACG
* * * * * *
36425815 GACTTCGTATGTTTTCATGGCCCAACTATGGTATTACACATTATGATCTTATGTTTAATGTCCTG
1 GACTTCGTATGTTGTCATAGCCCAACTATGGTATTACACATTATAATCTCATCTTTAATATCCTG
** * * * *
36425880 GCGGACTTCATATGTTGCCATAGTCCAGCTATGGTGTTACACATTATGAT
66 AAGGACTTCATATGTTACCATAGCCCAACTATGGTCTTACACATTATGAT
36425930 GACATGCACC
Statistics
Matches: 95, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
136 95 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (136 bp):
GACTTCGTATGTTGTCATAGCCCAACTATGGTATTACACATTATAATCTCATCTTTAATATCCTG
AAGGACTTCATATGTTACCATAGCCCAACTATGGTCTTACACATTATGATATCATGTTTACTGTC
TTGACG
Found at i:36430356 original size:26 final size:26
Alignment explanation
Indices: 36430327--36430379 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
36430317 TTAAACATGC
36430327 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* * *
36430353 ATTTCGGTACTTTATCTCCTAGTGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
36430379 A
1 A
36430380 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:36431649 original size:12 final size:12
Alignment explanation
Indices: 36431632--36431726 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
36431622 GCCAACTCTT
*
36431632 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
36431644 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
36431656 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
36431668 GCTCCTAAATCC
1 GCTCCTTAATCA
*
36431680 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
36431692 GCTCCTAAATCC
1 GCTCCTTAATCA
*
36431704 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
36431716 GCTCCTAAATC
1 GCTCCTTAATC
36431727 TTCTCCTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.11
12 45 0.79
13 6 0.11
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:36431661 original size:24 final size:23
Alignment explanation
Indices: 36431628--36431733 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 23
36431618 GTCGGCCAAC
36431628 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
36431653 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
36431677 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
36431701 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
36431725 TCTTCTCCT
1 TCTTCTCCT
36431734 GACAGCCTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
23 3 0.04
24 66 0.86
25 8 0.10
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:36437870 original size:26 final size:26
Alignment explanation
Indices: 36437841--36437893 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
36437831 TCAAACATGC
*
36437841 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGAT-AATTTATCTCCTAGGGGT
* *
36437867 ATTTCGATACTTTATCTCCTAGGGGT
1 ATTTAGATAATTTATCTCCTAGGGGT
36437893 A
1 A
36437894 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGATAATTTATCTCCTAGGGGT
Found at i:36439184 original size:24 final size:24
Alignment explanation
Indices: 36439142--36439247 Score: 142
Period size: 24 Copynumber: 4.4 Consensus size: 24
36439132 GCCGGCCAAC
*
36439142 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
36439167 -CCTTCTCCTTTATTAGCTCCTAAA
1 TCC-TCTCCTTTATCAGCTCCTAAA
*
36439191 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
36439215 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
36439239 TCTTCTCCT
1 TCCTCTCCT
36439248 GACAGCCTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.19, C:0.39, G:0.06, T:0.37
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:36445006 original size:56 final size:56
Alignment explanation
Indices: 36444915--36445026 Score: 154
Period size: 56 Copynumber: 2.0 Consensus size: 56
36444905 TCTTACATGT
* * * *
36444915 AATCACATATCGATGCCACTCTCCTAGATAGGGTCTTACTCGTACACATATATCGG
1 AATCACATATCGATGCCACTCTACTAAACAGGGTCTTACTCGAACACATATATCGG
* *
36444971 AATCACATATCGATGCCA-TCGTATTAAACATGGTCTTACTCGAACACATATATCGG
1 AATCACATATCGATGCCACTC-TACTAAACAGGGTCTTACTCGAACACATATATCGG
36445027 TGCCATGGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 2 0.04
56 47 0.96
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCACTCTACTAAACAGGGTCTTACTCGAACACATATATCGG
Found at i:36445037 original size:31 final size:32
Alignment explanation
Indices: 36444999--36445058 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
36444989 TCGTATTAAA
*
36444999 CATGGTCTTACTCGAACA-CATATATCGGTGC
1 CATGGTCTTACTCGAACATCACATATCGGTGC
*
36445030 CATGGTCTTACTCGCACATCACATATCGG
1 CATGGTCTTACTCGAACATCACATATCGG
36445059 AATCCTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (32 bp):
CATGGTCTTACTCGAACATCACATATCGGTGC
Found at i:36453226 original size:22 final size:23
Alignment explanation
Indices: 36453180--36453241 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
36453170 CGAAGAAAAA
36453180 TGAAATAAATAATATTAAACAATT
1 TGAAATAAATAATA-TAAACAATT
*
36453204 TGAAATAAATAATA-AGACAATT
1 TGAAATAAATAATATAAACAATT
*
36453226 TTAAATAAATAATATA
1 TGAAATAAATAATATA
36453242 TATCAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
22 20 0.57
23 1 0.03
24 14 0.40
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (23 bp):
TGAAATAAATAATATAAACAATT
Found at i:36453419 original size:29 final size:28
Alignment explanation
Indices: 36453386--36453440 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
36453376 ATATAAAAAG
* *
36453386 TTTAAAATAAATAATATGTGAAAAATAAA
1 TTTAAAATAAAGAATATAT-AAAAATAAA
*
36453415 TTTAAAATAGAGAATATATAAAAATA
1 TTTAAAATAAAGAATATATAAAAATA
36453441 TATATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
TTTAAAATAAAGAATATATAAAAATAAA
Found at i:36453620 original size:21 final size:18
Alignment explanation
Indices: 36453589--36453627 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
36453579 TTAAAATGAT
36453589 AATATATAAAATAATTTAA
1 AATATATAAAAT-ATTTAA
36453608 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
36453628 CAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:36455463 original size:45 final size:45
Alignment explanation
Indices: 36455346--36455761 Score: 301
Period size: 45 Copynumber: 9.3 Consensus size: 45
36455336 CAAATGTAAT
* * *
36455346 TTCAAGGAGA-AGAGATTT-GTAGCTTCAATCTACTCCACTGGAAC
1 TTCAAGGAGATA-AGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
* * * ** * * *
36455390 TTAAAGGAGATAAAAG-CTGGTAATTTCAACCTGTTCCACTACAAC
1 TTCAAGGAGAT-AAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
36455435 TTCAAGGAGATAAGGTTTGGTGGCTTCAATCTGCCCCAATGTAAT
1 TTCAAGGAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * **
36455480 TTCAAGGAAAAAAGGTTT-GTAACTTCGATCTACTCCACTAAAAC
1 TTCAAGGAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
** ** * * *
36455524 TTCAAGGAGATAAGAATTGGTAATTTCAACCTTCTCCACTACAAC
1 TTCAAGGAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
36455569 TTCAGGGAGATAAGGTTTGGTGGCTTCAATCTGCTCCAATGTAAT
1 TTCAAGGAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
36455614 TTCAGGGAGA-AGAGATTT-GTAGCTTCGATCTACTCCACTGGAAC
1 TTCAAGGAGATA-AGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
** * **
36455658 TTCAAGGAGATAAGAATTGGCAATTTCAA-CATGCTCCACTGCAAC
1 TTCAAGGAGATAAGGTTTGGTAGCTTCAATC-TGCTCCACTGCAAC
*
36455703 TT-TAGGAAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
1 TTCAAGG-AGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
36455748 TTC-AGGAAGATAAG
1 TTCAAGG-AGATAAG
36455762 ATCCACCATA
Statistics
Matches: 283, Mismatches: 77, Indels: 23
0.74 0.20 0.06
Matches are distributed among these distances:
44 83 0.29
45 198 0.70
46 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (45 bp):
TTCAAGGAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAAC
Found at i:36455686 original size:89 final size:89
Alignment explanation
Indices: 36455343--36455762 Score: 298
Period size: 89 Copynumber: 4.7 Consensus size: 89
36455333 ACTCAAATGT
* *
36455343 AATTTCAAGGAGA-AGAGATTTGTAGCTTCAATCTACTCCACTGGAACTTAAAGGAGATAA-AAG
1 AATTTCAAGGAGATA-AGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAA-
* * * * *
36455406 CTGGTAATTTCAACCTGTTCCACTAC
64 TTGGTAACTTCAATCTGCTCCACTGC
* * * * * * * * * * *
36455432 AACTTCAAGGAGATAAGGTTTGGTGGCTTCAATCTGCCCCAATGTAATTTCAAGGAAAAAAG-GT
1 AATTTCAAGGAGATAAGATTT-GTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAAT
* * * **
36455496 TTGTAACTTCGATCTACTCCACTAA
65 TGGTAACTTCAATCTGCTCCACTGC
* * ** * * * * **
36455521 AACTTCAAGGAGATAAGAATTGGTAATTTCAACCTTCTCCACTACAACTTCAGGGAGATAAGGTT
1 AATTTCAAGGAGATAAG-ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAAT
** * *
36455586 TGGTGGCTTCAATCTGCTCCAATGT
65 TGGTAACTTCAATCTGCTCCACTGC
* * *
36455611 AATTTCAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATAAGAAT
1 AATTTCAAGGAGATA-AGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAAT
* *
36455675 TGGCAATTTCAA-CATGCTCCACTGC
65 TGGTAACTTCAATC-TGCTCCACTGC
* *
36455700 AACTTT--AGGAAGATAAGGTTTGGTAGCTTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAG
1 AA-TTTCAAGG-AGATAAGATTT-GTAGCTTCAATCTACTCCACTGCAACTTCAAGG-AGATAAG
36455762 A
62 A
36455763 TCCACCATAA
Statistics
Matches: 251, Mismatches: 68, Indels: 23
0.73 0.20 0.07
Matches are distributed among these distances:
88 3 0.01
89 146 0.58
90 102 0.41
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (89 bp):
AATTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAATT
GGTAACTTCAATCTGCTCCACTGC
Found at i:36455753 original size:134 final size:133
Alignment explanation
Indices: 36455338--36455740 Score: 592
Period size: 134 Copynumber: 3.0 Consensus size: 133
36455328 GACTTACTCA
* *
36455338 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCAATCTACTCCACTGGAACTTAAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATAA
* *
36455403 -AAGCTGGTAATTTCAACCTGTTCCACTACAACTTCAAGGAGATAAGGTTTGGTGGCTTCAATCT
66 GAA-TTGGTAATTTCAACCTGCTCCACTACAACTT-AAGGAGATAAGGTTTGGTGGCTTCAATCT
*
36455467 GCCCC
129 GCTCC
* * * * **
36455472 AATGTAATTTCAAGGAAAAAAGGTTTGTAACTTCGATCTACTCCACTAAAACTTCAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATAA
* *
36455537 GAATTGGTAATTTCAACCTTCTCCACTACAACTTCAGGGAGATAAGGTTTGGTGGCTTCAATCTG
66 GAATTGGTAATTTCAACCTGCTCCACTACAACTT-AAGGAGATAAGGTTTGGTGGCTTCAATCTG
36455602 CTCC
130 CTCC
*
36455606 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATAA
* * * * *
36455671 GAATTGGCAATTTCAACATGCTCCACTGCAACTTTAGGAAGATAAGGTTTGGTAGCTTCAATCTG
66 GAATTGGTAATTTCAACCTGCTCCACTACAACTTAAGG-AGATAAGGTTTGGTGGCTTCAATCTG
36455736 CTCC
130 CTCC
36455740 A
1 A
36455741 CTGCAACTTC
Statistics
Matches: 240, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
133 2 0.01
134 236 0.98
135 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (133 bp):
AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATAA
GAATTGGTAATTTCAACCTGCTCCACTACAACTTAAGGAGATAAGGTTTGGTGGCTTCAATCTGC
TCC
Found at i:36455871 original size:44 final size:43
Alignment explanation
Indices: 36455780--36456036 Score: 110
Period size: 44 Copynumber: 5.8 Consensus size: 43
36455770 TAACTCGTAG
* * *
36455780 CTTCAATCTGTTCCACTACAACTCTAGGGA-AGTAAGAGTC-ACTAT
1 CTTC-ATCTGCTCCACTACTACTC-AGGGAGA-TAAGA-TCTACAAT
*
36455825 CTTCGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAAT
1 CTTC-ATCTGCTCCACTACTACTCAGGGAGATAAGATCTACAAT
* * * *****
36455869 CTTCAGTCTGCTCC-CTTGCTACTTAAGGAAGATAAGA-CTGGTGG
1 CTTCA-TCTGCTCCAC-TACTAC-TCAGGGAGATAAGATCTACAAT
* * * * * * **
36455913 CTTAAATCTGCTCCCCTACTACCTCTGGAATATAAGAT-TCGCCGT
1 CTT-CATCTGCTCCACTACTA-CTCAGGGAGATAAGATCT-ACAAT
* * * *
36455958 CTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTC-ATCTGCTCCACTACTACTCAGGGAGATAAGATCTACAAT
* ** *
36456002 CTTCAGCCTGCTCCACTGTTGCTCAGGGAGATAAG
1 CTTCA-TCTGCTCCACTACTACTCAGGGAGATAAG
36456037 GCTAGTGGCT
Statistics
Matches: 161, Mismatches: 38, Indels: 27
0.71 0.17 0.12
Matches are distributed among these distances:
43 5 0.03
44 102 0.63
45 54 0.34
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCATCTGCTCCACTACTACTCAGGGAGATAAGATCTACAAT
Found at i:36456090 original size:132 final size:132
Alignment explanation
Indices: 36455824--36456261 Score: 592
Period size: 132 Copynumber: 3.3 Consensus size: 132
36455814 AGAGTCACTA
* * *
36455824 TCTTCGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAATCTTCAGTCTGCTCC-CTTGC
1 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCAC-TGC
* * * * * * * * *
36455888 TACTTAAGGAAGATAAGACTGGTGGCTTAAATCTGCTCCCCTACTACCTCTGGAATATAAGATTC
65 TGC-TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTTGAAAGATAAGATTC
36455953 GCCG
129 GCCG
* * * *
36455957 TCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGTT
1 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCT
* *
36456022 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGTTTCCCTACTACCTTTGAAAGATAAGATTTGC
66 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTTGAAAGATAAGATTCGC
36456087 CG
131 CG
* * * *
36456089 TCTTTGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTATAATCTTCAGCCTACTGCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCT
* *
36456154 GCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC-TCGAGAAGATAAGATTCG
66 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTTGA-AAGATAAGATTCG
*
36456218 TCG
130 CCG
* *
36456221 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTA
1 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTA
36456262 TGAATTCACC
Statistics
Matches: 269, Mismatches: 34, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
131 3 0.01
132 208 0.77
133 57 0.21
134 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCT
GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTTGAAAGATAAGATTCGC
CG
Found at i:36457537 original size:11 final size:10
Alignment explanation
Indices: 36457521--36457589 Score: 79
Period size: 9 Copynumber: 6.8 Consensus size: 10
36457511 CTTTCTTCTC
*
36457521 TTTTTTTTTGA
1 TTTTTTATT-A
36457532 TTTTTTATTA
1 TTTTTTATTA
36457542 TTTTTTGATTTA
1 TTTTTT-A-TTA
36457554 TTTTTTATTA
1 TTTTTTATTA
36457564 -TTTTTATTA
1 TTTTTTATTA
*
36457573 -TTATTATTA
1 TTTTTTATTA
36457582 TTTTTTAT
1 TTTTTTAT
36457590 CTCAAGGCGC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
9 17 0.33
10 16 0.31
11 10 0.19
12 9 0.17
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:36457547 original size:12 final size:12
Alignment explanation
Indices: 36457532--36457577 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
36457522 TTTTTTTTGA
36457532 TTTTTTATTA-T
1 TTTTTTATTATT
* *
36457543 TTTTTGATT-TA
1 TTTTTTATTATT
36457554 TTTTTTATTATT
1 TTTTTTATTATT
*
36457566 TTTATTATTATT
1 TTTTTTATTATT
36457578 ATTATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 16 0.57
12 12 0.43
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTATTATT
Found at i:36457556 original size:22 final size:20
Alignment explanation
Indices: 36457521--36457589 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
36457511 CTTTCTTCTC
*
36457521 TTTTTTTTTGATTTTTTATTA
1 TTTTTTATT-ATTTTTTATTA
36457542 TTTTTTGATTTATTTTTTATTA
1 TTTTTT-A-TTATTTTTTATTA
*
36457564 -TTTTTATTA-TTATTATTA
1 TTTTTTATTATTTTTTATTA
36457582 TTTTTTAT
1 TTTTTTAT
36457590 CTCAAGGCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.19
19 10 0.23
20 1 0.02
21 11 0.26
22 11 0.26
23 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTTTTATTATTTTTTATTA
Found at i:36458071 original size:10 final size:9
Alignment explanation
Indices: 36458056--36458100 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
36458046 TTCCACGATC
36458056 CTTTTTTTAT
1 CTTTTTTT-T
36458066 CTTTTTTTT
1 CTTTTTTTT
*
36458075 GTTTTTTTT
1 CTTTTTTTT
*
36458084 ATTTTTTTCT
1 CTTTTTTT-T
36458094 CTTTTTT
1 CTTTTTT
36458101 GTTACCTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.84
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:36458110 original size:26 final size:27
Alignment explanation
Indices: 36458058--36458110 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
36458048 CCACGATCCT
* ***
36458058 TTTTTTATCTTTTTTTTGTTTTTTTTA
1 TTTTTTATCTCTTTTTTGTTACCTTTA
36458085 TTTTTT-TCTCTTTTTTGTTACCTTTA
1 TTTTTTATCTCTTTTTTGTTACCTTTA
36458111 CTGCATTGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.08, C:0.09, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTTTTATCTCTTTTTTGTTACCTTTA
Found at i:36462321 original size:22 final size:22
Alignment explanation
Indices: 36462278--36462337 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
36462268 TGAAGAAAAA
36462278 TGAAATAAATGATATAAAACAATT
1 TGAAATAAAT-A-ATAAAACAATT
*
36462302 TGAAATAAATAATAAGACAATT
1 TGAAATAAATAATAAAACAATT
*
36462324 TTAAATAAATAATA
1 TGAAATAAATAATA
36462338 TATATCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 23 0.68
23 1 0.03
24 10 0.29
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (22 bp):
TGAAATAAATAATAAAACAATT
Found at i:36462380 original size:25 final size:25
Alignment explanation
Indices: 36462334--36462397 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
36462324 TTAAATAAAT
*
36462334 AATATATATCAAAAAGGGTTTAAA-TA
1 AATA-ATAT-AAAAAGGATTTAAAGTA
* *
36462360 GATACTATAAAAAGGAATTTAAAGTA
1 AATAATATAAAAAGG-ATTTAAAGTA
36462386 AATAATATAAAA
1 AATAATATAAAA
36462398 TCATTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 7 0.23
25 9 0.29
26 15 0.48
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (25 bp):
AATAATATAAAAAGGATTTAAAGTA
Found at i:36462796 original size:27 final size:27
Alignment explanation
Indices: 36462718--36462796 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
36462708 AAAAATATTT
* * * *
36462718 AATAAATAATATGTAAAGAAGCTT-TA
1 AATAAATAATATATAAAAAATCTTAAA
*
36462744 AATAAATAATATATAGAAAATCTTAAA
1 AATAAATAATATATAAAAAATCTTAAA
*
36462771 AATAAATAATGTATAAAATAAT-TTAA
1 AATAAATAATATATAAAA-AATCTTAA
36462797 TATAATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 20 0.45
27 21 0.48
28 3 0.07
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (27 bp):
AATAAATAATATATAAAAAATCTTAAA
Found at i:36472127 original size:20 final size:21
Alignment explanation
Indices: 36472083--36472131 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
36472073 CAATTAAATT
* *
36472083 TATTTAAAATAAAAATTTTAA
1 TATTTAAATTAAAAATTTAAA
36472104 -ATTTAAATTAAAAA-TTAAA
1 TATTTAAATTAAAAATTTAAA
36472123 TATTTAAAT
1 TATTTAAAT
36472132 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAAATTAAAAATTTAAA
Found at i:36472131 original size:8 final size:8
Alignment explanation
Indices: 36472118--36472142 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36472108 AAATTAAAAA
36472118 TTAAATAT
1 TTAAATAT
36472126 TTAAATAT
1 TTAAATAT
36472134 TTAAATAT
1 TTAAATAT
36472142 T
1 T
36472143 AAAAAATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAAATAT
Found at i:36472407 original size:21 final size:19
Alignment explanation
Indices: 36472368--36472418 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
36472358 TAAAAAACTT
*
36472368 AAAATTTAAAAATAATATATA
1 AAAATTGAAAAAT-AT-TATA
*
36472389 AAAATTGAAAAATGTTATA
1 AAAATTGAAAAATATTATA
36472408 AAAA-TGAAAAA
1 AAAATTGAAAAA
36472419 AGTATTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.25
19 8 0.29
20 1 0.04
21 12 0.43
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (19 bp):
AAAATTGAAAAATATTATA
Found at i:36472615 original size:9 final size:9
Alignment explanation
Indices: 36472601--36472632 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
36472591 GTTAATTTTA
36472601 TTTTTATAT
1 TTTTTATAT
36472610 TTTTTATAT
1 TTTTTATAT
*
36472619 TTTTTATGT
1 TTTTTATAT
36472628 TTTTT
1 TTTTT
36472633 TAGATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTATAT
Found at i:36486017 original size:28 final size:30
Alignment explanation
Indices: 36485935--36486017 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
36485925 AAGTTACTCG
* * *
36485935 CACAAGCTGACATTCTATTAGGGTTGCTCA
1 CACAAGTTGACATTATATTAGGTTTGCTCA
*
36485965 CACAAGTTGACATTATATAAAGGTTTGC-CA
1 CACAAGTTGACATTATAT-TAGGTTTGCTCA
36485995 CACAAGTTGAC-TTATATTAGGTT
1 CACAAGTTGACATTATATTAGGTT
36486018 ACCTATCTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.11
29 6 0.13
30 29 0.62
31 7 0.15
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (30 bp):
CACAAGTTGACATTATATTAGGTTTGCTCA
Found at i:36488635 original size:192 final size:192
Alignment explanation
Indices: 36488308--36488692 Score: 770
Period size: 192 Copynumber: 2.0 Consensus size: 192
36488298 GTAACAGCCC
36488308 GTTTTAGGGTCAAGTCGGAATAGTGGTTTTACAACCACAAATTCAAAGTAGAAATATTTATTTTA
1 GTTTTAGGGTCAAGTCGGAATAGTGGTTTTACAACCACAAATTCAAAGTAGAAATATTTATTTTA
36488373 TTGTTTCTTTATGGTCTACAATATGATTAAACGATTGTGTGAAAATTTTGTTAAGAAATTTTATC
66 TTGTTTCTTTATGGTCTACAATATGATTAAACGATTGTGTGAAAATTTTGTTAAGAAATTTTATC
36488438 GATAGAGTGTCCAATTTGACTAATAGGACTAAATTGCAATAGGTGCAAAATGTGTTCTAGAA
131 GATAGAGTGTCCAATTTGACTAATAGGACTAAATTGCAATAGGTGCAAAATGTGTTCTAGAA
36488500 GTTTTAGGGTCAAGTCGGAATAGTGGTTTTACAACCACAAATTCAAAGTAGAAATATTTATTTTA
1 GTTTTAGGGTCAAGTCGGAATAGTGGTTTTACAACCACAAATTCAAAGTAGAAATATTTATTTTA
36488565 TTGTTTCTTTATGGTCTACAATATGATTAAACGATTGTGTGAAAATTTTGTTAAGAAATTTTATC
66 TTGTTTCTTTATGGTCTACAATATGATTAAACGATTGTGTGAAAATTTTGTTAAGAAATTTTATC
36488630 GATAGAGTGTCCAATTTGACTAATAGGACTAAATTGCAATAGGTGCAAAATGTGTTCTAGAA
131 GATAGAGTGTCCAATTTGACTAATAGGACTAAATTGCAATAGGTGCAAAATGTGTTCTAGAA
36488692 G
1 G
36488693 CTAGAGGTGT
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 193 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (192 bp):
GTTTTAGGGTCAAGTCGGAATAGTGGTTTTACAACCACAAATTCAAAGTAGAAATATTTATTTTA
TTGTTTCTTTATGGTCTACAATATGATTAAACGATTGTGTGAAAATTTTGTTAAGAAATTTTATC
GATAGAGTGTCCAATTTGACTAATAGGACTAAATTGCAATAGGTGCAAAATGTGTTCTAGAA
Found at i:36489714 original size:8 final size:8
Alignment explanation
Indices: 36489693--36489726 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
36489683 CACTAGGGTC
36489693 ATTATGTG
1 ATTATGTG
36489701 -TTATGTG
1 ATTATGTG
36489708 ATTATGTG
1 ATTATGTG
36489716 ATTATGTG
1 ATTATGTG
36489724 ATT
1 ATT
36489727 CCGGGTGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (8 bp):
ATTATGTG
Found at i:36491253 original size:42 final size:42
Alignment explanation
Indices: 36491175--36491309 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 42
36491165 TTTGGGATGT
*
36491175 TGGCATCGACT-TATGATTTACGTGTAAGACCATGTCTGGGACA
1 TGGCATCGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACA
* * * *
36491218 TCGGTATCG-TATTTGATTTCGTATAAGACCTTGTCTGGGATA
1 T-GGCATCGATATTTGATTTCGTGTAAGACCATGTCTGGGACA
* * *
36491260 GTGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGACA
1 -TGGCATCGATATTTGATTTCGTGTAAGACCATGTCTGGGACA
36491303 TTGGCAT
1 -TGGCAT
36491310 TGTACGAGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.36
43 42 0.56
44 6 0.08
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGGCATCGATATTTGATTTCGTGTAAGACCATGTCTGGGACA
Found at i:36499400 original size:28 final size:28
Alignment explanation
Indices: 36499277--36499401 Score: 81
Period size: 28 Copynumber: 4.5 Consensus size: 28
36499267 TGAGAGTTCT
* * *
36499277 CCAAAGGTTGTCTTATGTGGAAGGTCCA
1 CCAAAGATTATCTTATGTGGAAAGTCCA
* * * *
36499305 CTAAGGCA-TAACTTTTGTGGAAAGTCCA
1 CCAAAG-ATTATCTTATGTGGAAAGTCCA
* * * * * * **
36499333 CTAAGGATTATCATATGCGGGAACTCTG
1 CCAAAGATTATCTTATGTGGAAAGTCCA
* *
36499361 CCAAAAACTATCTTATGTGGAAAGTCCA
1 CCAAAGATTATCTTATGTGGAAAGTCCA
36499389 CCAAAGATTATCT
1 CCAAAGATTATCT
36499402 CAAATGGAAT
Statistics
Matches: 68, Mismatches: 27, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
27 1 0.01
28 67 0.99
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (28 bp):
CCAAAGATTATCTTATGTGGAAAGTCCA
Found at i:36504708 original size:52 final size:52
Alignment explanation
Indices: 36504649--36504752 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
36504639 AATAATGATA
36504649 TGATAATAAATGTCCCGGTTGAAGTTAAAAAGGGAAATTCGATGGATAAACC
1 TGATAATAAATGTCCCGGTTGAAGTTAAAAAGGGAAATTCGATGGATAAACC
*
36504701 TGATAATAAATGTCCCGGTTGAAGTTAAAAAGGGAAATTCTATGGATAAACC
1 TGATAATAAATGTCCCGGTTGAAGTTAAAAAGGGAAATTCGATGGATAAACC
36504753 ATGACTTACA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (52 bp):
TGATAATAAATGTCCCGGTTGAAGTTAAAAAGGGAAATTCGATGGATAAACC
Found at i:36518131 original size:25 final size:24
Alignment explanation
Indices: 36518096--36518145 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
36518086 GTAGACACAA
*
36518096 ATATAGCTCTTTATGAGCTTCCTG
1 ATATAGCTCTTTATCAGCTTCCTG
36518120 ATATAGGCTCTTTATCAGCTTCCTG
1 ATATA-GCTCTTTATCAGCTTCCTG
36518145 A
1 A
36518146 CATGGCTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (24 bp):
ATATAGCTCTTTATCAGCTTCCTG
Found at i:36518282 original size:23 final size:25
Alignment explanation
Indices: 36518217--36518283 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
36518207 GAGTTACCTG
36518217 TTAAGCTC-AATAAGCTTCC-TATT
1 TTAAGCTCTAATAAGCTTCCTTATT
* * * *
36518240 TTAAACTCTTATGAGTTTCCTTA-T
1 TTAAGCTCTAATAAGCTTCCTTATT
36518264 TT-AGCTCTAATAAGCTTCCT
1 TTAAGCTCTAATAAGCTTCCT
36518284 GTTGCATGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 21 0.62
24 11 0.32
25 2 0.06
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (25 bp):
TTAAGCTCTAATAAGCTTCCTTATT
Found at i:36520209 original size:42 final size:42
Alignment explanation
Indices: 36520150--36520269 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 42
36520140 GGGTTAGTTA
36520150 AGATTACGTGTAAGACCATATCTGGGATATTGCATCGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATTGCATCGATATG
* * *
36520192 AGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATT-GCATCGATATG
** * *
36520235 AGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATATCTGGGATATTGCAT
36520270 TGGTATGGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATTGCATCGATATG
Found at i:36521392 original size:13 final size:13
Alignment explanation
Indices: 36521376--36521400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36521366 AGCACACGGG
36521376 CGTGTGACTTCAC
1 CGTGTGACTTCAC
36521389 CGTGTGACTTCA
1 CGTGTGACTTCA
36521401 ATTTGTTGAT
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:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
CGTGTGACTTCAC
Found at i:36523063 original size:93 final size:93
Alignment explanation
Indices: 36522950--36523120 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
36522940 GCCCCTAAGT
*
36522950 GAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36523014 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
36523043 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36523108 CGAGTTCGGATGC
66 CGAGTTCGGATGC
36523121 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:36523115 original size:46 final size:46
Alignment explanation
Indices: 36522945--36523117 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
36522935 AACCCGCCCC
* * *
36522945 TAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* *
36522991 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
36523039 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
36523084 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36523118 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 58 0.55
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:36529758 original size:38 final size:38
Alignment explanation
Indices: 36529707--36529786 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
36529697 AAGCAGAGTT
36529707 GATTGCACGCCTAGAGATAGGGTGATAAGATTTTGCCA
1 GATTGCACGCCTAGAGATAGGGTGATAAGATTTTGCCA
36529745 GATTGCACGCCTAGAGATAGGGTGATAAGATTTTGCCA
1 GATTGCACGCCTAGAGATAGGGTGATAAGATTTTGCCA
36529783 GATT
1 GATT
36529787 AGGGTGAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (38 bp):
GATTGCACGCCTAGAGATAGGGTGATAAGATTTTGCCA
Found at i:36537961 original size:25 final size:25
Alignment explanation
Indices: 36537924--36538034 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
36537914 CCACAACTCT
* *
36537924 TGAGAGCACACCGGTTTACAGCTCG
1 TGAGAGCATACCGATTTACAGCTCG
*
36537949 TGAGAACATACCGATTTACAGCTCG
1 TGAGAGCATACCGATTTACAGCTCG
*
36537974 TGAGAGCATACCGATTTACAGTTCG
1 TGAGAGCATACCGATTTACAGCTCG
* * * *
36537999 GGTGAGCATACCGATTCATAGCTCG
1 TGAGAGCATACCGATTTACAGCTCG
36538024 T-ATGAGCATAC
1 TGA-GAGCATAC
36538035 ATGTACAAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
TGAGAGCATACCGATTTACAGCTCG
Found at i:36544122 original size:14 final size:15
Alignment explanation
Indices: 36544096--36544128 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
36544086 CTTAATAAGT
36544096 AAATGGATTAAGTAA
1 AAATGGATTAAGTAA
36544111 AAATGG-TTAAGTAA
1 AAATGGATTAAGTAA
36544125 AAAT
1 AAAT
36544129 CGGGATTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
AAATGGATTAAGTAA
Found at i:36544430 original size:21 final size:21
Alignment explanation
Indices: 36544391--36544430 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36544381 AGATTGAGAA
* * *
36544391 GGCTAAGTTAGCCACTGAAAT
1 GGCTAAGTAAACCAATGAAAT
36544412 GGCTAAGTAAACCAATGAA
1 GGCTAAGTAAACCAATGAA
36544431 TCTCTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
GGCTAAGTAAACCAATGAAAT
Found at i:36549520 original size:45 final size:45
Alignment explanation
Indices: 36549456--36549549 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
36549446 CTCACTAAAA
*
36549456 TTCAAATATATCTTAATATACACTTCTTTTGTTTACTCTATTTCT
1 TTCAAATATATCTTAATATACACTTCTTTTGCTTACTCTATTTCT
36549501 TTCAAATATATCTTAATATACACTTCTTTTGCTTACTCTATTTCT
1 TTCAAATATATCTTAATATACACTTCTTTTGCTTACTCTATTTCT
36549546 TTCA
1 TTCA
36549550 TATGAAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (45 bp):
TTCAAATATATCTTAATATACACTTCTTTTGCTTACTCTATTTCT
Found at i:36550528 original size:55 final size:54
Alignment explanation
Indices: 36550415--36550605 Score: 235
Period size: 55 Copynumber: 3.5 Consensus size: 54
36550405 AACTTACCAT
* * * * *
36550415 TGCCATGTCTTGACATGGTCTTACGTGGT-ATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGA-CCTTGCCTTATAGAACTCATCAA
*
36550468 TGCCATGCCTTGGCATGGTATTACATGA-GACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGACC-TTGCCTTATAG-AACTCATCAA
* * ** *
36550523 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGACCTTGCCTTATAGAACTCATCAA
36550577 TGCCATGCCTTGGCATGGTCTTACATGAT
1 TGCCATGCCTTGGCATGGTCTTACATGAT
36550606 ATCCTTATCT
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 37 0.31
55 45 0.38
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATGACCTTGCCTTATAGAACTCATCAA
Found at i:36550645 original size:47 final size:47
Alignment explanation
Indices: 36550590--36550711 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
36550580 CATGCCTTGG
* *
36550590 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGATCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
* *
36550637 CATGGTCTTGCATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
36550684 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
36550712 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
Found at i:36550777 original size:47 final size:47
Alignment explanation
Indices: 36550711--36550800 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
36550701 TCCTTGTCTT
** *
36550711 AGTGCCAATGCCACATCTTGATGTGGTCTTACA-GGGAGTCCTTAATC
1 AGTGCCAATGCCACATCTTGACATCGTCTTACACGGGA-TCCTTAATC
* **
36550758 AGTGCCGATGCCATGTCTTGACATCGTCTTACACGGGATCCTT
1 AGTGCCAATGCCACATCTTGACATCGTCTTACACGGGATCCTT
36550801 GCTTGACCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
47 32 0.89
48 4 0.11
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (47 bp):
AGTGCCAATGCCACATCTTGACATCGTCTTACACGGGATCCTTAATC
Found at i:36557205 original size:55 final size:53
Alignment explanation
Indices: 36557073--36557262 Score: 204
Period size: 55 Copynumber: 3.5 Consensus size: 53
36557063 AACTTACCAT
* * *
36557073 TGCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGAG-A-CCTTGCCTTATAGAACTCATCAA
* * * *
36557126 TGCCATGCCTTGGCATGATATTACATGAGACCTTTACCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGAGACC-TTGCCTTATAG-AACTCATCAA
* * ** *
36557181 TACCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGA-GACCTTGCCTTATAGAACTCATCAA
*
36557235 TGCCATGCCTTGGCATGGTCTTACATGA
1 TGCCATGCCTTGACATGGTCTTACATGA
36557263 TATCCTTATC
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 31 0.27
54 36 0.32
55 42 0.37
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGAGACCTTGCCTTATAGAACTCATCAA
Found at i:36557356 original size:47 final size:47
Alignment explanation
Indices: 36557248--36557358 Score: 195
Period size: 47 Copynumber: 2.4 Consensus size: 47
36557238 CATGCCTTGG
* *
36557248 CATGGTCTTACATGATATCCTTATCTTACCAAATGCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
36557295 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
36557342 CATGGTCTTACATGGTA
1 CATGGTCTTACATGGTA
36557359 CCCCTGTCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:36557436 original size:47 final size:47
Alignment explanation
Indices: 36557371--36557460 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
36557361 CCTGTCGTAG
** *
36557371 TGCCAATGCCATATCTTGATGTGGTCTTACATGG-AGTCCTTAATCAA
1 TGCCAATGCCATATCTTGACATCGTCTTACATGGTA-TCCTTAATCAA
* *
36557418 TGCCGATGCCATGTCTTGACATCGTCTTACATGGTATCCTTAA
1 TGCCAATGCCATATCTTGACATCGTCTTACATGGTATCCTTAA
36557461 CCGTCAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 36 0.97
48 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (47 bp):
TGCCAATGCCATATCTTGACATCGTCTTACATGGTATCCTTAATCAA
Found at i:36562311 original size:16 final size:16
Alignment explanation
Indices: 36562286--36562331 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
36562276 CTACATCGGC
36562286 AAAA-GCCGAAAAGCT
1 AAAATGCCGAAAAGCT
36562301 AAAATGCCGAAAAGCT
1 AAAATGCCGAAAAGCT
* *
36562317 GAAATGCGGAAAAGC
1 AAAATGCCGAAAAGC
36562332 CGGTATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.50, C:0.17, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATGCCGAAAAGCT
Found at i:36562638 original size:28 final size:28
Alignment explanation
Indices: 36562580--36562644 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
36562570 ATTTACTAGA
* *
36562580 ATACCCCTATGTATGCAAAATTACTATT
1 ATACCCCTATGTATGCAAAATGACTACT
36562608 ATACCCCTATGTATGCAAAATGACCT-CT
1 ATACCCCTATGTATGCAAAATGA-CTACT
36562636 ATACCCCTA
1 ATACCCCTA
36562645 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.94
29 2 0.06
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACTACT
Found at i:36562782 original size:28 final size:28
Alignment explanation
Indices: 36562749--36562838 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
36562739 GAGGAAGCTC
36562749 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGTT
* *
36562777 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGTT
*
36562804 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAATTATCTGT-T
36562833 CTGGTG
1 CTGGTG
36562839 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (28 bp):
CTGGTGGCTATGCCACAAATTATCTGTT
Found at i:36562809 original size:27 final size:28
Alignment explanation
Indices: 36562749--36562863 Score: 128
Period size: 27 Copynumber: 4.1 Consensus size: 28
36562739 GAGGAAGCTC
*
36562749 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTCTGCCACAAATT-TCTGTAT
*
36562777 CTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAAATTTCTGTAT
* *
36562804 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCTCTGCCAC-AAATTTCTGTAT
* * *
36562833 CTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTCTGCCACAAATTTCTGTAT
36562860 CTGG
1 CTGG
36562864 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 34 0.45
28 27 0.36
29 14 0.19
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTTCTGTAT
Found at i:36562855 original size:55 final size:56
Alignment explanation
Indices: 36562749--36562863 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 56
36562739 GAGGAAGCTC
* *
36562749 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACTCTGCCACATATTTCTGTAT
*
36562804 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACTCTGCCACATATTTCTGTAT
36562860 CTGG
1 CTGG
36562864 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
54 1 0.02
55 31 0.57
56 22 0.41
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACTCTGCCACATATTTCTGTAT
Found at i:36563944 original size:11 final size:10
Alignment explanation
Indices: 36563916--36563949 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
36563906 AGCCTGTAAG
36563916 TATTCTGAAT
1 TATTCTGAAT
*
36563926 TTTTCTGAAT
1 TATTCTGAAT
36563936 ATATTCTGAAT
1 -TATTCTGAAT
36563947 TAT
1 TAT
36563950 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:36569368 original size:24 final size:25
Alignment explanation
Indices: 36569310--36569369 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
36569300 TTTCTGACCA
* *
36569310 TTCTTCCTTCTCTTCTCTTCCTTTC
1 TTCTTCCTTCTTTTCTCTTCCTATC
*
36569335 TT-TTCTTTCTTTTCTC-TCC-ATC
1 TTCTTCCTTCTTTTCTCTTCCTATC
36569357 TATCTTCCTTCTT
1 T-TCTTCCTTCTT
36569370 CTTTCCCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.10
23 4 0.14
24 20 0.69
25 2 0.07
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (25 bp):
TTCTTCCTTCTTTTCTCTTCCTATC
Found at i:36570944 original size:39 final size:38
Alignment explanation
Indices: 36570885--36570984 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 38
36570875 GTAACTCATT
*
36570885 CAATGCCTTC-GGACTTAACCCGATTTTA-AAACTCGCA
1 CAATGCCTTCGGGACTTAACCCGA-ATTAGAAACTCGCA
* *
36570922 CGAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 C-AATGCCTTCGGGACTTAACCC-GAATTAGAAACTCGCA
* *
36570962 CAAAGGCTTCGGGACTTAACCCG
1 CAATGCCTTCGGGACTTAACCCG
36570985 GACATAGTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 1 0.02
38 10 0.19
39 33 0.61
40 10 0.19
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (38 bp):
CAATGCCTTCGGGACTTAACCCGAATTAGAAACTCGCA
Found at i:36607420 original size:13 final size:13
Alignment explanation
Indices: 36607402--36607426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36607392 GCCGAAACAG
36607402 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
36607415 AAAGAAAAAAAA
1 AAAGAAAAAAAA
36607427 ATGCTCATCC
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:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:36609207 original size:27 final size:27
Alignment explanation
Indices: 36609179--36609333 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
36609169 TGCTATACAA
* * *
36609179 TCAAGTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAG
* *
36609206 TCAAATCGCACACTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAG
* * * *
36609233 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAG
*
36609261 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAG
* *
36609288 TCATTTCGCACAC-TAGTGCAACATAG
1 TCAATTCGCACACTTAGTGCCACATAG
36609314 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
36609334 TGTACAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
26 20 0.19
27 63 0.60
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAG
Found at i:36609251 original size:55 final size:55
Alignment explanation
Indices: 36609158--36609334 Score: 177
Period size: 55 Copynumber: 3.3 Consensus size: 55
36609148 ATAATGAGCC
* * * * *
36609158 CGCACACTCATTGCTATACA-A-TCAAGTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
36609212 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
36609267 CGCACACTTAGTGC-ATCATATTCATTTCGCACAC-TAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
36609320 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36609335 GTACAATTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
52 2 0.02
53 29 0.29
54 26 0.26
55 44 0.44
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36609299 original size:82 final size:80
Alignment explanation
Indices: 36609179--36609333 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
36609169 TGCTATACAA
* * *
36609179 TCAAGTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAAGTCGCACACTTAGTGCCACATAATCAAATCGCACAC-TAGTGCAACATAG-TAGAATCGCA
36609244 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * ** *
36609261 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTAGTGCAACATAGTCGAATCGCAC
1 TCAAGTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTAGTGCAACATAGTAGAATCGCAC
36609325 ACTTAGTGC
65 ACTTAGTGC
36609334 TGTACAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 18 0.28
81 14 0.22
82 32 0.50
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (80 bp):
TCAAGTCGCACACTTAGTGCCACATAATCAAATCGCACACTAGTGCAACATAGTAGAATCGCACA
CTTAGTGCCGCATGG
Found at i:36621426 original size:20 final size:21
Alignment explanation
Indices: 36621396--36621441 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
36621386 TATAGATATG
36621396 ATTTTTAATTTTTCTT-CATTT
1 ATTTTTAATTTTT-TTACATTT
*
36621417 ATTTTT-ATTTTTTTACTTTT
1 ATTTTTAATTTTTTTACATTT
36621437 ATTTT
1 ATTTT
36621442 CTTTTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 15 0.65
21 6 0.26
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (21 bp):
ATTTTTAATTTTTTTACATTT
Found at i:36623808 original size:18 final size:18
Alignment explanation
Indices: 36623764--36623797 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36623754 TTTATTTTCT
36623764 TTATTTATTTC-TTTTAG
1 TTATTTATTTCTTTTTAG
36623781 TTATTTATTTCTTTTTA
1 TTATTTATTTCTTTTTA
36623798 TCTATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (18 bp):
TTATTTATTTCTTTTTAG
Found at i:36623813 original size:17 final size:16
Alignment explanation
Indices: 36623747--36623814 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 16
36623737 GCTAATTGGT
* *
36623747 TTATTGATTTATTTTCT
1 TTATTTATTTATTTT-A
*
36623764 TTATTTATTTCTTTTA
1 TTATTTATTTATTTTA
*
36623780 GTTATTTATTTCTTTTTA
1 -TTATTTATTT-ATTTTA
*
36623798 TCTATTAATTTATTTTA
1 T-TATTTATTTATTTTA
36623815 AGATTTATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 29 0.69
18 13 0.31
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATTTATTTATTTTA
Found at i:36624540 original size:40 final size:40
Alignment explanation
Indices: 36624480--36624558 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
36624470 TTTTCAAAGC
*
36624480 CTAAAATAGGCATTGGAGAAGAAGTAATATTCAGTCAATA
1 CTAAAATAGGCATTGCAGAAGAAGTAATATTCAGTCAATA
36624520 CTAAAATAGGCATTGCAGAAGAAGTAATATTCAGTCAAT
1 CTAAAATAGGCATTGCAGAAGAAGTAATATTCAGTCAAT
36624559 CTTCCTTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (40 bp):
CTAAAATAGGCATTGCAGAAGAAGTAATATTCAGTCAATA
Found at i:36627275 original size:43 final size:45
Alignment explanation
Indices: 36627191--36627303 Score: 144
Period size: 43 Copynumber: 2.6 Consensus size: 45
36627181 CGGGCCTCGA
*
36627191 CCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGAGCTTCGGG
1 CCTAGCAAGCTATAATGCTGGTGAATAATATTATCGAGCTTCGGG
*
36627235 CCTAGCAAGCTATAATGCTGGTGAGAT-A-A-TATCGGGCTTCGGG
1 CCTAGCAAGCTATAATGCTGGTGA-ATAATATTATCGAGCTTCGGG
* * *
36627278 CCTAGCAGGCTATATTGCCGGTGAAT
1 CCTAGCAAGCTATAATGCTGGTGAAT
36627304 GAGTTCAGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 2 0.03
43 34 0.55
44 15 0.24
45 9 0.15
46 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (45 bp):
CCTAGCAAGCTATAATGCTGGTGAATAATATTATCGAGCTTCGGG
Found at i:36638620 original size:18 final size:19
Alignment explanation
Indices: 36638575--36638621 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
36638565 ATTTTTGAAG
**
36638575 ACTTTTTATTTTTATCTTT
1 ACTTTTTATTTTTATAATT
*
36638594 A-TTTATATTTTTA-AATT
1 ACTTTTTATTTTTATAATT
36638611 ACTTTTTATTT
1 ACTTTTTATTT
36638622 CTCTTTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.13
18 19 0.83
19 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
ACTTTTTATTTTTATAATT
Found at i:36643222 original size:116 final size:116
Alignment explanation
Indices: 36643018--36643247 Score: 424
Period size: 116 Copynumber: 2.0 Consensus size: 116
36643008 ATAATTGTTG
36643018 TGATACCTTTTTTATGCATTGATACTCTAATATAAAATATTGATACTTTAGTCTAGAATCTTGAG
1 TGATACCTTTTTTATGCATTGATACTCTAATATAAAATATTGATACTTTAGTCTAGAATCTTGAG
*
36643083 ATTCTGTTTCTTAAAAATTTTCTTGAAAAGTGCTAAGTATCGATACCCTTA
66 ATTCTATTTCTTAAAAATTTTCTTGAAAAGTGCTAAGTATCGATACCCTTA
* *
36643134 TGATACCTTTTTTATGCATTGATACTCTAATATAAAGTATTGATACTTTAGTCTAGTATCTTGAG
1 TGATACCTTTTTTATGCATTGATACTCTAATATAAAATATTGATACTTTAGTCTAGAATCTTGAG
*
36643199 ATTCTATTTCTTAAAAATTTTCTTGAAAAGTGCTTAGTATCGATACCCT
66 ATTCTATTTCTTAAAAATTTTCTTGAAAAGTGCTAAGTATCGATACCCT
36643248 AGTAAGGGTA
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (116 bp):
TGATACCTTTTTTATGCATTGATACTCTAATATAAAATATTGATACTTTAGTCTAGAATCTTGAG
ATTCTATTTCTTAAAAATTTTCTTGAAAAGTGCTAAGTATCGATACCCTTA
Found at i:36648511 original size:26 final size:26
Alignment explanation
Indices: 36648482--36648531 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36648472 TAATAAAATA
36648482 AAAAT-TATTAAAAACATAAAATTTAT
1 AAAATCTATTAAAAA-ATAAAATTTAT
* *
36648508 AAAATCTATTTAATAATAAAATTT
1 AAAATCTATTAAAAAATAAAATTT
36648532 CTAATAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATCTATTAAAAAATAAAATTTAT
Found at i:36677792 original size:28 final size:29
Alignment explanation
Indices: 36677760--36677873 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
36677750 TACCTGTATT
* *
36677760 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
36677788 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-CATA
*
36677817 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
36677846 TGGCCCGTTATGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
36677874 ATCATGCTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.62
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:36678116 original size:15 final size:15
Alignment explanation
Indices: 36678093--36678125 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36678083 ACTTTCGACT
*
36678093 TTTCGGCATTTCGGC
1 TTTCAGCATTTCGGC
36678108 TTTCAGCATTTCGGC
1 TTTCAGCATTTCGGC
36678123 TTT
1 TTT
36678126 TGCCGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (15 bp):
TTTCAGCATTTCGGC
Found at i:36690422 original size:49 final size:49
Alignment explanation
Indices: 36690350--36690448 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
36690340 AGGGATTATA
*
36690350 TGCTTGTGTATTCCAAAAAAGGTCTTACTCTTTTCAGTTCTATAGATTC
1 TGCTTGTGTATTCCAAAAAAGGTCTTACTATTTTCAGTTCTATAGATTC
*
36690399 TGCTTGTGTATTCCAAAAAAGGTCTTACTATTTTCGGTTCTATAGATTC
1 TGCTTGTGTATTCCAAAAAAGGTCTTACTATTTTCAGTTCTATAGATTC
36690448 T
1 T
36690449 AACTTCCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (49 bp):
TGCTTGTGTATTCCAAAAAAGGTCTTACTATTTTCAGTTCTATAGATTC
Found at i:36691710 original size:9 final size:9
Alignment explanation
Indices: 36691694--36691727 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
36691684 TTTAATTGGA
36691694 AATTAATTT
1 AATTAATTT
*
36691703 ATTTAATTT
1 AATTAATTT
*
36691712 AATTAATTA
1 AATTAATTT
36691721 AATTAAT
1 AATTAAT
36691728 AGAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:36693789 original size:18 final size:17
Alignment explanation
Indices: 36693762--36693798 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
36693752 ACTAAGTAAA
36693762 AATAATATAAAATTTAT
1 AATAATATAAAATTTAT
*
36693779 AATATATATAACATTTAT
1 AATA-ATATAAAATTTAT
36693797 AA
1 AA
36693799 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATATAAAATTTAT
Found at i:36695352 original size:22 final size:22
Alignment explanation
Indices: 36695327--36695398 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
36695317 CATTTCATAG
*
36695327 CATATCATGTATCATGTCAGAA
1 CATATCATATATCATGTCAGAA
* *
36695349 CATATCATATCA-CATGTCATAG
1 CATATCATAT-ATCATGTCAGAA
* * *
36695371 CATATCATATTTCATATTAGAA
1 CATATCATATATCATGTCAGAA
36695393 CATATC
1 CATATC
36695399 TTATCACATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 39 0.98
23 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (22 bp):
CATATCATATATCATGTCAGAA
Found at i:36695369 original size:44 final size:44
Alignment explanation
Indices: 36695316--36695421 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
36695306 ATACTAAGTA
* * *
36695316 ACATTTCATAGCATATCATGTATCATGTCAGAACATATCATATC
1 ACATATCATAGCATATCATATATCATATCAGAACATATCATATC
* * * *
36695360 ACATGTCATAGCATATCATATTTCATATTAGAACATATCTTATC
1 ACATATCATAGCATATCATATATCATATCAGAACATATCATATC
36695404 ACATATCATAGCATATCA
1 ACATATCATAGCATATCA
36695422 AATCCTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (44 bp):
ACATATCATAGCATATCATATATCATATCAGAACATATCATATC
Found at i:36695408 original size:22 final size:22
Alignment explanation
Indices: 36695343--36695421 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 22
36695333 ATGTATCATG
*
36695343 TCAGAACATATCATATCACATG
1 TCAGAACATATCATATCACATA
* * **
36695365 TCATAGCATATCATATTTCATA
1 TCAGAACATATCATATCACATA
* *
36695387 TTAGAACATATCTTATCACATA
1 TCAGAACATATCATATCACATA
* *
36695409 TCATAGCATATCA
1 TCAGAACATATCA
36695422 AATCCTACCC
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.34
Consensus pattern (22 bp):
TCAGAACATATCATATCACATA
Found at i:36697100 original size:46 final size:46
Alignment explanation
Indices: 36697033--36697161 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
36697023 TGTAACCCGC
* * * *
36697033 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36697079 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36697125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36697162 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:36697180 original size:46 final size:45
Alignment explanation
Indices: 36697041--36697180 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
36697031 GCCCATAAGC
* ** * *
36697041 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
36697087 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
36697133 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
36697179 GA
1 GA
36697181 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:36704580 original size:46 final size:46
Alignment explanation
Indices: 36704513--36704641 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
36704503 TGTAACCCGC
* * * *
36704513 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36704559 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36704605 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36704642 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:36704660 original size:46 final size:45
Alignment explanation
Indices: 36704521--36704660 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
36704511 GCCCATAAGC
* ** * *
36704521 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
36704567 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
36704613 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
36704659 GA
1 GA
36704661 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:36724009 original size:14 final size:14
Alignment explanation
Indices: 36723952--36724011 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
36723942 TTGTGTTCCT
*
36723952 TGGACTTTTATGTA
1 TGGACTTGTATGTA
*
36723966 TGTACTTGTATGTA
1 TGGACTTGTATGTA
* * * *
36723980 TGAAATAAG-ATTTA
1 TGGACT-TGTATGTA
36723994 TGGACTTGTATGTA
1 TGGACTTGTATGTA
36724008 TGGA
1 TGGA
36724012 TAACATGAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
13 1 0.03
14 32 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.43
Consensus pattern (14 bp):
TGGACTTGTATGTA
Found at i:36724331 original size:53 final size:53
Alignment explanation
Indices: 36724269--36724427 Score: 201
Period size: 53 Copynumber: 3.0 Consensus size: 53
36724259 TGGCACTAAG
* * *
36724269 AGACCATATCGTGTAAGACTGTAACTAGTGGGTTATGGCCTCATTTAGAAAGA
1 AGACCATATCGTGTAAGACCGTAACTAGTGGGTTATGGCATCATATAGAAAGA
* ** * *
36724322 AGACCATATCGTGTAAGACCGTAACTAGTGGCTTATGATATCATATGGAAATA
1 AGACCATATCGTGTAAGACCGTAACTAGTGGGTTATGGCATCATATAGAAAGA
* * * * *
36724375 AAACCATATTGTTTAAGACCATAACTGGTGGGTTATGGCATCATATAGAAAGA
1 AGACCATATCGTGTAAGACCGTAACTAGTGGGTTATGGCATCATATAGAAAGA
36724428 TTCAAGGAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 88 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (53 bp):
AGACCATATCGTGTAAGACCGTAACTAGTGGGTTATGGCATCATATAGAAAGA
Found at i:36732527 original size:25 final size:25
Alignment explanation
Indices: 36732499--36732549 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
36732489 TAAAAGATAA
36732499 AACCAGAAATATGAATTTTCATGGG
1 AACCAGAAATATGAATTTTCATGGG
36732524 AACCAGAAATATGAATTTTCATGGG
1 AACCAGAAATATGAATTTTCATGGG
36732549 A
1 A
36732550 TAATATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (25 bp):
AACCAGAAATATGAATTTTCATGGG
Found at i:36737348 original size:16 final size:16
Alignment explanation
Indices: 36737327--36737378 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
36737317 TTTGGTTCGC
36737327 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36737343 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
36737359 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
36737375 TGTA
1 TGTA
36737379 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:36737425 original size:45 final size:44
Alignment explanation
Indices: 36737359--36737453 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
36737349 GGATTAGAGG
* *
36737359 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
36737404 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
36737448 TGTAAT
1 TGTAAT
36737454 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:36737764 original size:124 final size:127
Alignment explanation
Indices: 36737534--36737764 Score: 396
Period size: 124 Copynumber: 1.8 Consensus size: 127
36737524 ATGATTATTG
36737534 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
36737599 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTAGCAGAAATTTGTTTTGGTAAA
64 ACATAATTACTATTAAATATATTTTAATTAAAATATATAATTAGCAGAAATTTGTTTTGGTAAA
*
36737663 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
36737725 ATAATTACTATTAAATATATTTTAATTAAAATATATAATT
66 ATAATTACTATTAAATATATTTTAATTAAAATATATAATT
36737765 TAATAAAATT
Statistics
Matches: 99, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
124 70 0.71
125 1 0.01
128 23 0.23
129 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (127 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTACTATTAAATATATTTTAATTAAAATATATAATTAGCAGAAATTTGTTTTGGTAAA
Found at i:36737766 original size:18 final size:17
Alignment explanation
Indices: 36737739--36737773 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36737729 TTACTATTAA
*
36737739 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36737757 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36737774 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:36737803 original size:124 final size:125
Alignment explanation
Indices: 36737547--36737932 Score: 390
Period size: 124 Copynumber: 3.0 Consensus size: 125
36737537 TTGTTATTTA
*
36737547 AATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTAT
1 AATTTTAATAAGATTA---ATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTAT
* ** ** ** * *
36737612 TTAATATATTTTAATTAAAATATATAA-TTAGCAGAAATT-TGTTTTGGTAAATTATT-TTATTT
63 TAAATATATTTTAATTAAAATATATAATTTAATA-AAATTCT-TAATAATTAA-TATTCTTATAT
*
36737674 A
125 G
*
36737675 AATTTTAATAAGATTAA-TATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAA
1 AATTTTAATAAGATTAATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
36737739 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATG
66 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATG
* * * * * * * * **
36737799 AA-TTTACTCAA-ACCATAATTATTATTAAATATGATACTGTAA-AATATAAAATAACATAATTA
1 AATTTTAAT-AAGA--TTAATTATCAAT-AATA-AATAATTTAATCATAT-TTA-AACATAATTA
* *
36737861 TTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
59 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
36737926 TG
124 TG
36737928 AATTT
1 AATTT
36737933 ACTCAAATCA
Statistics
Matches: 221, Mismatches: 25, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
123 10 0.05
124 87 0.39
125 9 0.04
126 5 0.02
127 8 0.04
128 24 0.11
129 76 0.34
130 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (125 bp):
AATTTTAATAAGATTAATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATG
Found at i:36737889 original size:18 final size:17
Alignment explanation
Indices: 36737868--36737902 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36737858 TTATTATTAA
36737868 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
36737886 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
36737903 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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:36737965 original size:17 final size:16
Alignment explanation
Indices: 36737943--36737989 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
36737933 ACTCAAATCA
36737943 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
36737960 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
36737974 TAAATATATGATTTAA
1 T-AATATATGATTTAA
36737990 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:36737990 original size:17 final size:17
Alignment explanation
Indices: 36737962--36737995 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36737952 ATTATAACTA
*
36737962 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
36737979 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
36737996 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:36738138 original size:93 final size:91
Alignment explanation
Indices: 36738028--36738221 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
36738018 GATTATAGTT
* *
36738028 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
36738091 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
36738121 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
36738186 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
36738212 TATGAATTTA
1 TATGAATTTA
36738222 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:36742632 original size:44 final size:45
Alignment explanation
Indices: 36742579--36742681 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
36742569 TGTCTTTGAC
* * * *
36742579 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
** * *
36742623 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCTATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATA-TTATAAT
36742669 ATGGACTTACATG
1 ATGGACTTACATG
36742682 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
Found at i:36755247 original size:21 final size:20
Alignment explanation
Indices: 36755223--36755274 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
36755213 AATATAGGTC
* *
36755223 CAAACAACTACAAAGTATAAT
1 CAAACAAC-ACAAAGCATAAA
36755244 CAAACCAACACAAAGCATAAA
1 CAAA-CAACACAAAGCATAAA
36755265 CAAACGAACA
1 CAAAC-AACA
36755275 ACTTGAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.60, C:0.25, G:0.06, T:0.10
Consensus pattern (20 bp):
CAAACAACACAAAGCATAAA
Found at i:36757928 original size:19 final size:19
Alignment explanation
Indices: 36757904--36757942 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
36757894 CAATTAAGGG
*
36757904 TAATTAATGACTTAATTGA
1 TAATTAAGGACTTAATTGA
* *
36757923 TAATTAGGGATTTAATTGA
1 TAATTAAGGACTTAATTGA
36757942 T
1 T
36757943 TAGAGCCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (19 bp):
TAATTAAGGACTTAATTGA
Found at i:36760130 original size:46 final size:45
Alignment explanation
Indices: 36760006--36760131 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 45
36759996 TGATATGTGT
* * *
36760006 GCTAGTGTAAGACATGTCTAGGACATGCATCAGACATAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATAGCACGAGA
*
36760052 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG-ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-T-AGCACGAGA
36760098 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
36760132 CTCGCGATAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
45 3 0.04
46 68 0.93
47 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.21
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGCACGAGA
Found at i:36761527 original size:21 final size:20
Alignment explanation
Indices: 36761501--36761540 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
36761491 GTCATAATAG
*
36761501 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
36761522 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
36761541 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:36764251 original size:16 final size:17
Alignment explanation
Indices: 36764230--36764262 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
36764220 AAGTGAGTAG
36764230 AAAAAGAAA-AAAAATA
1 AAAAAGAAAGAAAAATA
36764246 AAAAAGAAAGAAAAATA
1 AAAAAGAAAGAAAAATA
36764263 CTCATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAAAGAAAGAAAAATA
Found at i:36767411 original size:77 final size:78
Alignment explanation
Indices: 36767324--36767485 Score: 236
Period size: 77 Copynumber: 2.1 Consensus size: 78
36767314 CAGTGATGTT
* * * *
36767324 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGAC-TAGGGTCCGCAGACTA
1 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGACTA
* * *
36767388 TGTGCTGGAATTA
66 CGTGCTAGAAATA
*
36767401 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGACTA
36767466 CGTGCTAGAAATA
66 CGTGCTAGAAATA
*
36767479 TGTCCGG
1 TATCCGG
36767486 GCTAAAGTCC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 45 0.60
78 30 0.40
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGACTA
CGTGCTAGAAATA
Found at i:36767429 original size:39 final size:39
Alignment explanation
Indices: 36767324--36767485 Score: 220
Period size: 39 Copynumber: 4.2 Consensus size: 39
36767314 CAGTGATGTT
* *
36767324 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTA
*
36767363 TATCCGGAC-TAGGGTCCGC-AGACTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAAG-CTATGTGCTGGAATTA
36767401 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTA
* * * * *
36767440 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAATA
1 TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTA
*
36767479 TGTCCGG
1 TATCCGG
36767486 GCTAAAGTCC
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.01
38 35 0.32
39 73 0.66
40 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAATTA
Found at i:36775009 original size:22 final size:22
Alignment explanation
Indices: 36774984--36775026 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
36774974 ACTAGTTTAT
36774984 AATTTTTGAATTTAAGCTCAAA
1 AATTTTTGAATTTAAGCTCAAA
36775006 AATTTTTGAATTTAAGCTCAA
1 AATTTTTGAATTTAAGCTCAA
36775027 CAGCAAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (22 bp):
AATTTTTGAATTTAAGCTCAAA
Found at i:36775543 original size:39 final size:39
Alignment explanation
Indices: 36775432--36775592 Score: 198
Period size: 39 Copynumber: 4.2 Consensus size: 39
36775422 CAGTGATGTT
* *
36775432 TATCCGGACTTAGGGTCCATAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTA
* * * *
36775471 TATTCGGA-GTAGGGCCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTA
* *
36775509 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTA
* * * *
36775548 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTA
*
36775587 TGTCCG
1 TATCCG
36775593 TGCTAAAGTC
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 33 0.31
39 72 0.69
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTA
Found at i:36777205 original size:45 final size:46
Alignment explanation
Indices: 36777101--36777191 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
36777091 ATTAATGACT
36777101 TAGTTTGATAATTA-GGATTTAATTGATTAGAGGCTATGAGCTAGC
1 TAGTTTGATAATTAGGGATTTAATTGATTAGAGGCTATGAGCTAGC
* *
36777146 TAGTTTGATAATTAGGGATTTAATTGATTAGAGGCTGTGTGCTAGC
1 TAGTTTGATAATTAGGGATTTAATTGATTAGAGGCTATGAGCTAGC
36777192 ATCGTTGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 14 0.33
46 29 0.67
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (46 bp):
TAGTTTGATAATTAGGGATTTAATTGATTAGAGGCTATGAGCTAGC
Found at i:36780221 original size:57 final size:57
Alignment explanation
Indices: 36780115--36780275 Score: 234
Period size: 57 Copynumber: 2.8 Consensus size: 57
36780105 AAGGCTGCCC
* * * *
36780115 TTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTTCCATAA-GGGTTGTCCT
1 TTAATAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTTTCCACAAGGGGTT-TCCT
* *
36780172 TTAATAGGTTCGCCACAAAGGCTTACCTTTCCAGACTTTTGCCACAAGGGGTTTCCT
1 TTAATAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTTTCCACAAGGGGTTTCCT
**
36780229 TTAATAGGTTCGCCACAAATTCTTACCTTTCCAGAGTTTTTCCACAA
1 TTAATAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTTTCCACAA
36780276 AGGTATCTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
57 88 0.95
58 5 0.05
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (57 bp):
TTAATAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTTTCCACAAGGGGTTTCCT
Found at i:36780244 original size:28 final size:28
Alignment explanation
Indices: 36780160--36780247 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 28
36780150 GTTTTTCCAT
36780160 AAGGGTTGTCCTTTAATAGGTTCGCCACA
1 AAGGGTT-TCCTTTAATAGGTTCGCCACA
* * * * ** *
36780189 AAGGCTTACCTTTCCAGACTTTTGCCACA
1 AAGGGTTTCCTTT-AATAGGTTCGCCACA
*
36780218 AGGGGTTTCCTTTAATAGGTTCGCCACA
1 AAGGGTTTCCTTTAATAGGTTCGCCACA
36780246 AA
1 AA
36780248 TTCTTACCTT
Statistics
Matches: 42, Mismatches: 16, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
28 16 0.38
29 26 0.62
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (28 bp):
AAGGGTTTCCTTTAATAGGTTCGCCACA
Found at i:36780502 original size:53 final size:53
Alignment explanation
Indices: 36780427--36780585 Score: 194
Period size: 53 Copynumber: 3.0 Consensus size: 53
36780417 TTCTTTAAAA
* *
36780427 TTTT-CCATATGATGCTATAACCCACTAGTTATAGTCTTACACGATATGATTT
1 TTTTCCCATATGATGCCATAACCCACTAGTTATGGTCTTACACGATATGATTT
* * * **
36780479 TTTTCCCACATGATGCCATAACCCAGTAGTTATGGTCTTACACGATTTGACCT
1 TTTTCCCATATGATGCCATAACCCACTAGTTATGGTCTTACACGATATGATTT
* * * * * *
36780532 TCTTCTCATATGATGCCATAACCTACCAGTTACGGTCTTACACAATATGATTT
1 TTTTCCCATATGATGCCATAACCCACTAGTTATGGTCTTACACGATATGATTT
36780585 T
1 T
36780586 ATTCAGCACC
Statistics
Matches: 88, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
52 4 0.05
53 84 0.95
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (53 bp):
TTTTCCCATATGATGCCATAACCCACTAGTTATGGTCTTACACGATATGATTT
Found at i:36782768 original size:46 final size:47
Alignment explanation
Indices: 36782677--36782849 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 47
36782667 TGGGTAAGGT
* *
36782677 ACCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTA
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CGTCTCG-A
36782725 ACCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGA
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
* * * *
36782770 GGCTGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCT-CGTCTC-A
1 -ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACGTCTCGA
36782815 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 A--CCGATGCCATGTCCCAGACATGGTCTTACACT
36782850 AGCTCTCCTA
Statistics
Matches: 109, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
45 2 0.02
46 60 0.55
47 30 0.28
48 17 0.16
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (47 bp):
ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
Found at i:36782879 original size:94 final size:91
Alignment explanation
Indices: 36782678--36782898 Score: 243
Period size: 94 Copynumber: 2.4 Consensus size: 91
36782668 GGGTAAGGTA
*
36782678 CCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTAACCGATGCATGTCCCAG
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTAG-CTATCATCTCG-AACCGATGCATGTCCCAG
* * *
36782742 ACATGTCTTACACTGGCTTACGTCTCGAGG
62 ACATGTCTTACACTAGCTTACCTATCGAGG
* * *
36782772 CTGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTC-AATGCCGATGCCATGTCCCAGA
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCTATCATCTCGAA--CCGATG-CATGTCCCAGA
*
36782836 CATGGTCTTACACTAGCTCT-CCTAAT-GTGG
63 CAT-GTCTTACACTAGCT-TACCT-ATCGAGG
*
36782866 CCGATGCATGTCCTGGACATGTCTTACACTAGC
1 CCGATGCATGTCCTAGACATGTCTTACACTAGC
36782899 AAACAATAAC
Statistics
Matches: 110, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
90 2 0.02
92 24 0.22
93 28 0.25
94 54 0.49
95 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (91 bp):
CCGATGCATGTCCTAGACATGTCTTACACTAGCTATCATCTCGAACCGATGCATGTCCCAGACAT
GTCTTACACTAGCTTACCTATCGAGG
Found at i:36787563 original size:27 final size:26
Alignment explanation
Indices: 36787533--36787595 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
36787523 AATTACTTGA
*
36787533 ATACCCCTATGTATG-AAAATTACTAAT
1 ATACCCCTA-G-ATGCAAAATTACCAAT
* *
36787560 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCAAT
36787586 ATACCCCTAG
1 ATACCCCTAG
36787596 GGTTAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCAAT
Found at i:36787748 original size:27 final size:27
Alignment explanation
Indices: 36787701--36787811 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
36787691 GGAAGCGTCT
* * *
36787701 TGGTGACTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACATATATCTGATC
* *
36787728 TGGAGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACATATATCTGATC
*
36787755 TGGTGGCTCTGCCACGA-CTATCTGTATC
1 TGGTGGCTCTGCCAC-ATATATCTG-ATC
* * *
36787783 TGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTCTGCCACATATATCTGATC
36787809 TGG
1 TGG
36787812 CAACCATGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.07
27 49 0.70
28 16 0.23
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATATCTGATC
Found at i:36787804 original size:54 final size:54
Alignment explanation
Indices: 36787701--36787811 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
36787691 GGAAGCGTCT
*
36787701 TGGTGACTATGCCACAAATATCTGATCTGGAGGCTCTGCCACATATATCTGTTC
1 TGGTGACTATGCCACAAATATCTGATCTGGAGACTCTGCCACATATATCTGTTC
* * * * * *
36787755 TGGTGGCTCTGCCACGACTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGACTATGCCACAAATATCTG-ATCTGGAGACTCTGCCACATATATCTGTTC
36787809 TGG
1 TGG
36787812 CAACCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (54 bp):
TGGTGACTATGCCACAAATATCTGATCTGGAGACTCTGCCACATATATCTGTTC
Found at i:36795617 original size:27 final size:27
Alignment explanation
Indices: 36795579--36795673 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 27
36795569 GTGTCCAGGT
*
36795579 GGCTATGCCACA-ATCATCTGATCTGGA
1 GGCTCTGCCACATAT-ATCTGATCTGGA
* *
36795606 GGCTCTGCCACATATATCTGTTCTGGT
1 GGCTCTGCCACATATATCTGATCTGGA
*
36795633 GGCTCTG-C-CATGACTATCTGTATCTGGT
1 GGCTCTGCCACAT-A-TATCTG-ATCTGGA
*
36795661 GACTCTGCCACAT
1 GGCTCTGCCACAT
36795674 TATTTGTTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
25 3 0.05
26 2 0.04
27 34 0.60
28 14 0.25
29 1 0.02
30 3 0.05
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (27 bp):
GGCTCTGCCACATATATCTGATCTGGA
Found at i:36800686 original size:47 final size:48
Alignment explanation
Indices: 36800597--36800720 Score: 157
Period size: 47 Copynumber: 2.6 Consensus size: 48
36800587 GGGTAAGGTG
**
36800597 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-AA
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAACTCACATCTCATAA
* *
36800644 TCAATGCCATGTCCTAGACATGGTCTTACACTAACT-ATCATCTCATAA
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAACTCA-CATCTCATAA
* *
36800692 CCGATG-CATGTCCCAAACAT-GTCTTACAC
1 CCAATGCCATGTCCCAGACATGGTCTTACAC
36800721 AGGCCTACGT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 10 0.15
47 51 0.76
48 6 0.09
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTAACTCACATCTCATAA
Found at i:36800804 original size:47 final size:47
Alignment explanation
Indices: 36800595--36800805 Score: 148
Period size: 47 Copynumber: 4.5 Consensus size: 47
36800585 GTGGGTAAGG
* * *
36800595 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAA
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATC-CCAA
* * * *
36800644 T--CAATGCCATGTCCTAGACATGGTCTTACACTAACTATCATCTC-A
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCCCAA
* * * * * **
36800689 TAACCGATG-CATGTCCCAAACATGTCTTACAC-AGGC-CTACGTCTCGG
1 T-GCCAATGCCATGTCCCAGACATGTCTTACACTA-GCTCT-CATCCCAA
* * * *
36800736 GGCCAAT-ACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAA
1 TGCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAA
*
36800782 TGCCGATGCCATGTCCCAGACATG
1 TGCCAATGCCATGTCCCAGACATG
36800806 GCGTCTCGGG
Statistics
Matches: 126, Mismatches: 26, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
45 4 0.03
46 52 0.41
47 65 0.52
48 4 0.03
49 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (47 bp):
TGCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAA
Found at i:36800824 original size:79 final size:79
Alignment explanation
Indices: 36800728--36800885 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
36800718 CACAGGCCTA
36800728 CGTCTCGGGGCCAATACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAATGCCGATGCCA
1 CGTCTCGGGGCCAATACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAATGCCGATGCCA
36800793 TGTCCCAGACATGG
66 TGTCCCAGACATGG
*
36800807 CGTCTCGGGGCCGATACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAATGCCGATGCCA
1 CGTCTCGGGGCCAATACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAATGCCGATGCCA
36800872 TGTCCCAGACATGG
66 TGTCCCAGACATGG
36800886 TCTTACACTG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (79 bp):
CGTCTCGGGGCCAATACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAATGCCGATGCCA
TGTCCCAGACATGG
Found at i:36800880 original size:47 final size:45
Alignment explanation
Indices: 36800815--36800943 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 45
36800805 GGCGTCTCGG
* * *
36800815 GGCCGATACATGTTCCAGACATGTCTTACACTAGCTCTCGTCCCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT---AAGT
*
36800862 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GT
* *
36800909 GGCCGATGTATGTCCCGGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
36800944 CAACAATAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.03
46 18 0.26
47 26 0.37
48 24 0.34
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGT
Done.