Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 139 of 325
Found at i:44989047 original size:47 final size:47
Alignment explanation
Indices: 44988822--44989063 Score: 180
Period size: 46 Copynumber: 5.2 Consensus size: 47
44988812 TGTGTGAGCT
* * *
44988822 AGTGTAAGA-CATGTCTGGGACATGCATCAAC-C-ATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGAT-A-AGCC
* * * ** *
44988868 AGTGTAAGACCATGTTTGGGACATGGCATC-AGCATTGAGACGA-GGGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGA-C-TCGAGATGATAAGCC
*
44988916 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GACTCGAGATGATAAGCC
* * * *
44988962 AATGTAA-AACATGTCTGGGACATGCATCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGATGATAAGCC
* * * *
44989008 AGTGTAAGACCATGTTTGGGACATAACATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATGATAAGCC
44989055 AGTGTAAGA
1 AGTGTAAGA
44989064 ATGTGTCTAG
Statistics
Matches: 156, Mismatches: 25, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
45 4 0.03
46 65 0.42
47 60 0.38
48 24 0.15
51 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGATAAGCC
Found at i:44989047 original size:93 final size:94
Alignment explanation
Indices: 44988822--44989087 Score: 215
Period size: 94 Copynumber: 2.8 Consensus size: 94
44988812 TGTGTGAGCT
* * * * * *
44988822 AGTGTAAGACATGTCTGGGACATGCATC-AAC-C-ATATTATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATACATCGGACTCGAGA-TAT-A-AGCCAATGTAAGAACATGTC
* * * * * *
44988884 TGGGACATGGCATCAGC-ATTGAGACGA-GGGC
63 TAGGACATGGCATCGGCTA-CGAGATGATAGTC
* * * *
44988915 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAATGTAA-AACATGTCTG
1 -AGTGTAAGACATGTCTGGGACATACATCGGACTCGAGATATAAGCCAATGTAAGAACATGTCTA
44988979 GGACAT-GCATCGGCTACGAGATGATAGTC
65 GGACATGGCATCGGCTACGAGATGATAGTC
* * * * **
44989008 AGTGTAAGACCATGTTTGGGACATAACATC-GACTTGAGATATGAGCCAGTGTAAGAATGTGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGACTCGAGATATAAGCCAATGTAAGAACATGTCT
44989072 AGGACATGGCATCGGC
64 AGGACATGGCATCGGC
44989088 ACTTTAACCT
Statistics
Matches: 141, Mismatches: 22, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
92 22 0.16
93 49 0.35
94 55 0.39
95 10 0.07
96 3 0.02
97 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATACATCGGACTCGAGATATAAGCCAATGTAAGAACATGTCTAG
GACATGGCATCGGCTACGAGATGATAGTC
Found at i:44989734 original size:47 final size:47
Alignment explanation
Indices: 44989676--44989770 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
44989666 CTTATATTGT
* * *
44989676 CCACACGGGTAGGCACATGGGCGTATGTCTAGCCCGTGTGTGACACA
1 CCACACAGGTAGGCACACGGGCGTACGTCTAGCCCGTGTGTGACACA
* * * *
44989723 CCACACAGGTAGGCACACGGGTGTGCGTCTGGGCCGTGTGTGACACA
1 CCACACAGGTAGGCACACGGGCGTACGTCTAGCCCGTGTGTGACACA
44989770 C
1 C
44989771 GGTCTACCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (47 bp):
CCACACAGGTAGGCACACGGGCGTACGTCTAGCCCGTGTGTGACACA
Found at i:44992821 original size:29 final size:30
Alignment explanation
Indices: 44992787--44992850 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
44992777 CAAGTAGTTG
*
44992787 AAGCTAG-TTAAATCGCACATTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
44992816 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
44992846 AAGCT
1 AAGCT
44992851 TCTGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:45002969 original size:30 final size:29
Alignment explanation
Indices: 45002922--45002989 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
45002912 GCCTCAAGTA
* *
45002922 GCCAAAGCTAGTTAAATCGCACATTTAGT
1 GCCAAAGCTAGTTAAATCACACACTTAGT
45002951 GCCAAAGCTAGTTTAAATCACACACTTAGT
1 GCCAAAGCTAG-TTAAATCACACACTTAGT
45002981 GCCAAAGCT
1 GCCAAAGCT
45002990 TTCGATTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCACACACTTAGT
Found at i:45007581 original size:43 final size:43
Alignment explanation
Indices: 45007520--45007688 Score: 152
Period size: 43 Copynumber: 3.9 Consensus size: 43
45007510 GGATTTTTGC
* * *
45007520 TATGTG-TTCTCGTGTAAGACCACATCTAGGACGTTCGCATCGA
1 TATGTGATT-TCGAGTAAGACCACATCTGGGACGTTGGCATCGA
** *
45007563 TATGTGATTTCGAGTAAGACCATGTCTGGGACATTGGCATCG-
1 TATGTGATTTCGAGTAAGACCACATCTGGGACGTTGGCATCGA
*
45007605 TAATTGTGA-TTCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGA
1 T-A-TGTGATTTCGAGTAAGACCAC-ATCTGGGAC-GTTGGCATCGA
* * *
45007649 CATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGATTTCGA-GTAAGACCACATCTGGGACGTTGGCAT
45007689 TGTATGATAT
Statistics
Matches: 102, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 7 0.07
43 87 0.85
44 8 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
TATGTGATTTCGAGTAAGACCACATCTGGGACGTTGGCATCGA
Found at i:45007676 original size:86 final size:86
Alignment explanation
Indices: 45007529--45007688 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 86
45007519 CTATGTGTTC
* * *
45007529 TCGTGTAAGACCACATCTAGGACGTTCGCATCGATATGTGATTTCGAGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACATCTAGGACGTTCGCATCGACATGTGATTACGAGTAAGACCACGTCTGGGA
45007594 CATTGGCATCGTAATTGTGAT
66 CATTGGCATCGTAATTGTGAT
* *
45007615 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGACATGTGATTAC-ATGTAAGACCACGTCTG
1 TCGTGTAAGACCAC-ATCTAGGAC-GTTCGCATCGACATGTGATTACGA-GTAAGACCACGTCTG
*
45007677 GGACGTTGGCAT
63 GGACATTGGCAT
45007689 TGTATGATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.03
86 62 0.95
87 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (86 bp):
TCGTGTAAGACCACATCTAGGACGTTCGCATCGACATGTGATTACGAGTAAGACCACGTCTGGGA
CATTGGCATCGTAATTGTGAT
Found at i:45028702 original size:55 final size:53
Alignment explanation
Indices: 45028580--45028762 Score: 134
Period size: 55 Copynumber: 3.4 Consensus size: 53
45028570 TTACCATTGT
* * * * * *
45028580 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTATGAACTCATCATTGC
1 CATGTCTTGACATGGTCTTACATGGGATACTTGCCTTATCAACTCATCAATGC
* * * * *
45028633 CATGCCTTGGCATGGTCTTACATGGGATATTTGCCTTATCATAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATACTTGCCTTATCA-A-CTCATCAATGC
* * * * * * * *
45028688 CATGTCTTGACATGGTATTACCT-GAATTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGA-TACTTGCCTTAT-CAACTCATCAATGC
* *
45028742 CATGCCTTGGCATGGTCTTAC
1 CATGTCTTGACATGGTCTTAC
45028763 TTGGTATCCT
Statistics
Matches: 101, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 33 0.33
54 30 0.30
55 37 0.37
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATACTTGCCTTATCAACTCATCAATGC
Found at i:45033721 original size:13 final size:13
Alignment explanation
Indices: 45033703--45033732 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45033693 CTGAATCTGA
45033703 AAGAAGCCACTAC
1 AAGAAGCCACTAC
45033716 AAGAAGCCACTAC
1 AAGAAGCCACTAC
45033729 AAGA
1 AAGA
45033733 TGCTGACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.27, G:0.17, T:0.07
Consensus pattern (13 bp):
AAGAAGCCACTAC
Found at i:45042804 original size:32 final size:32
Alignment explanation
Indices: 45042768--45042834 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
45042758 GATTTCAAAA
45042768 GTTAACATTGATGTTAAATGAAGTTTTTGAAT
1 GTTAACATTGATGTTAAATGAAGTTTTTGAAT
* * *
45042800 GTTAACATTGATGTTAACTGATGTTTTTGGAT
1 GTTAACATTGATGTTAAATGAAGTTTTTGAAT
45042832 GTT
1 GTT
45042835 GCTGGTAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.46
Consensus pattern (32 bp):
GTTAACATTGATGTTAAATGAAGTTTTTGAAT
Found at i:45047754 original size:54 final size:54
Alignment explanation
Indices: 45047680--45047812 Score: 257
Period size: 54 Copynumber: 2.5 Consensus size: 54
45047670 GTCATTATAA
45047680 GGGATTTAGCCTGGACTGGTAATCCCGAAATCACTTTATGAGTTCATATAATGG
1 GGGATTTAGCCTGGACTGGTAATCCCGAAATCACTTTATGAGTTCATATAATGG
*
45047734 GGGATTTAGCCTAGACTGGTAATCCCGAAATCACTTTATGAGTTCATATAATGG
1 GGGATTTAGCCTGGACTGGTAATCCCGAAATCACTTTATGAGTTCATATAATGG
45047788 GGGATTTAGCCTGGACTGGTAATCC
1 GGGATTTAGCCTGGACTGGTAATCC
45047813 TACCATATGA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCCGAAATCACTTTATGAGTTCATATAATGG
Found at i:45048007 original size:19 final size:19
Alignment explanation
Indices: 45047983--45048021 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45047973 AAATTACATG
45047983 ATATATGATTATGTGACTA
1 ATATATGATTATGTGACTA
45048002 ATATATGATTATGTGACTA
1 ATATATGATTATGTGACTA
45048021 A
1 A
45048022 CTCATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
ATATATGATTATGTGACTA
Found at i:45049850 original size:27 final size:27
Alignment explanation
Indices: 45049819--45050135 Score: 287
Period size: 27 Copynumber: 11.7 Consensus size: 27
45049809 TTAGTTTACC
* *
45049819 AAATTAACAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
45049846 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
45049873 AAATTACTAAAATACCCTTGGTTTATT
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
45049900 AAATCACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
45049927 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
45049954 AAATTACCAAAATACCCTTGGCTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
45049981 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
45050008 AAATTATCAAAATACCCCTAGTTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
45050035 AAATTATCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
45050062 AAATTACTGAAGTA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
45050089 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
45050116 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
45050136 ATTTATAGAA
Statistics
Matches: 243, Mismatches: 45, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 3 0.01
27 236 0.97
28 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:45049885 original size:54 final size:54
Alignment explanation
Indices: 45049819--45050135 Score: 325
Period size: 54 Copynumber: 5.9 Consensus size: 54
45049809 TTAGTTTACC
* *
45049819 AAATTAAC-AAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATT-ACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * * **
45049873 AAATTACTAAAATACCCTTGGTTTATTAAATCACCAAAATACCATTGGTTTGTA
1 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
45049927 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCTTGGCTTGTA
1 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * * * *
45049981 AAATTACCAAAATACCTTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTTTA
1 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * ** * **
45050035 AAATTA-TCAAAATACCCTTGATTTGTGAAATTACTGAAGTA-CCCTCGACTTGTA
1 AAATTACT-AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTA
* * * ** *
45050089 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTG
1 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTG
45050136 ATTTATAGAA
Statistics
Matches: 219, Mismatches: 39, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
53 6 0.03
54 208 0.95
55 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:45050185 original size:27 final size:27
Alignment explanation
Indices: 45049819--45050187 Score: 235
Period size: 27 Copynumber: 13.7 Consensus size: 27
45049809 TTAGTTTACC
* **
45049819 AAATTAACAAAATACCC-CTGGCTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
45049846 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * *
45049873 AAATTACTAAAATACCCTTGGTTTATT
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
45049900 AAATCACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
45049927 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* **
45049954 AAATTACCAAAATACCCTTGGCTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
45049981 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
45050008 AAATTATCAAAATACCC-CTAGTTTTTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
45050035 AAATTATCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** * *
45050062 AAATTACTGAAGTACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
45050089 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
45050116 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
* ****** *
45050143 GAATTATTGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
45050170 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
45050188 TGTAGGGTAG
Statistics
Matches: 277, Mismatches: 58, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.01
27 268 0.97
28 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:45050204 original size:27 final size:27
Alignment explanation
Indices: 45050171--45050606 Score: 608
Period size: 27 Copynumber: 16.2 Consensus size: 27
45050161 CGATTTATAA
*
45050171 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45050198 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45050225 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45050252 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45050279 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45050306 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45050333 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45050360 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
45050387 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45050414 AATTACC-AGAATACCCCTATAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * *
45050441 AATTACTGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45050468 AATTACCGCAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45050495 AATTACCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45050521 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45050548 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
45050575 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
45050602 AATTA
1 AATTA
45050607 ACGAGGTACC
Statistics
Matches: 370, Mismatches: 34, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
26 24 0.06
27 346 0.94
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:45051113 original size:22 final size:21
Alignment explanation
Indices: 45051061--45051125 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
45051051 TTAAAGCCTT
* *
45051061 CTGATTATGGCTTTGTGTCAA
1 CTGATTATGGCTCTGTGCCAA
* *
45051082 CTTACATATGGCTCTGTGCCAA
1 CTGA-TTATGGCTCTGTGCCAA
*
45051104 CCTGATTATGGCTGTGTGCCAA
1 -CTGATTATGGCTCTGTGCCAA
45051126 ATGTATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.83
23 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
CTGATTATGGCTCTGTGCCAA
Found at i:45051314 original size:27 final size:27
Alignment explanation
Indices: 45051284--45051385 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
45051274 ATTCTGTTAA
* *
45051284 GTGGCTTTGCCACATTTTCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
45051311 GTGGCTATT-CCACAAATATCTG-TTCTG
1 GTGGCT-TTGCCAC-AATATCTGTTTCTG
* * *
45051338 GTGGCTCTGTCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* * *
45051365 GTGACTCTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
45051386 ATAACTAAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.14
27 48 0.74
28 8 0.12
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:45051560 original size:6 final size:6
Alignment explanation
Indices: 45051545--45051647 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
45051535 ACTTTGTTAC
* * *
45051545 CTGATA CTGATT CTGATT TTGATT CT-ATT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
45051594 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CTGATT CT-AGTT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT
45051643 CTGAT
1 CTGAT
45051648 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
5 5 0.06
6 67 0.84
7 5 0.06
8 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:45051579 original size:31 final size:31
Alignment explanation
Indices: 45051541--45051632 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 31
45051531 TTTTACTTTG
*
45051541 TTACCTGATACTGATTCTGATTTTGATTCTA
1 TTACCTGATACTGATTCTGATTCTGATTCTA
*
45051572 TTACCTGATACTGATTCTGATTCTGATTCTG
1 TTACCTGATACTGATTCTGATTCTGATTCTA
* * *
45051603 TCACCTAATTCTGATTCTGATTCTGATTCT
1 TTACCTGATACTGATTCTGATTCTGATTCT
45051633 GATTCTAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
TTACCTGATACTGATTCTGATTCTGATTCTA
Found at i:45057322 original size:17 final size:17
Alignment explanation
Indices: 45057300--45057350 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
45057290 TGGTAAGACT
45057300 TTTGAGGACGAAAGTCC
1 TTTGAGGACGAAAGTCC
45057317 TTTGAGGACGAAAGTCC
1 TTTGAGGACGAAAGTCC
45057334 TTTGAGGACGAAAGTCC
1 TTTGAGGACGAAAGTCC
45057351 CTAAGGGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (17 bp):
TTTGAGGACGAAAGTCC
Found at i:45059754 original size:13 final size:13
Alignment explanation
Indices: 45059736--45059760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45059726 GTTCTCTCCC
45059736 ATGGTCGTGTGTT
1 ATGGTCGTGTGTT
45059749 ATGGTCGTGTGT
1 ATGGTCGTGTGT
45059761 CCCCTGCACT
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:0.08, C:0.08, G:0.40, T:0.44
Consensus pattern (13 bp):
ATGGTCGTGTGTT
Found at i:45064345 original size:47 final size:47
Alignment explanation
Indices: 45064291--45064384 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
45064281 ATGTACATCA
45064291 ACTACCGACAGCTCAATAAGGTGACTATAAAGAATAAATATCCTTTG
1 ACTACCGACAGCTCAATAAGGTGACTATAAAGAATAAATATCCTTTG
45064338 ACTACCGACAGCTCAATAAGGTGACTATAAAGAATAAATATCCTTTG
1 ACTACCGACAGCTCAATAAGGTGACTATAAAGAATAAATATCCTTTG
45064385 CCACAAACAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (47 bp):
ACTACCGACAGCTCAATAAGGTGACTATAAAGAATAAATATCCTTTG
Found at i:45067068 original size:13 final size:13
Alignment explanation
Indices: 45067050--45067074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45067040 TAATTAATAT
45067050 GTGTGAAAATTTC
1 GTGTGAAAATTTC
45067063 GTGTGAAAATTT
1 GTGTGAAAATTT
45067075 TATCGTTTCT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:45068291 original size:42 final size:43
Alignment explanation
Indices: 45068165--45068327 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
45068155 CATAGGATTC
* * ** *
45068165 CGATATGTGATTTCGTGTAAGACCACATTTGGGAC-GTTGGCAT
1 CGATATGAGATTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
* * * *
45068208 CAATTTGTGATTTA-GTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGAGA-TTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
45068251 CGTATATGAG-TT-CGTGTAAGACCCTGTCGGGGATAGTGGCAT
1 CG-ATATGAGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* *
45068293 CGATATGTGATTACATGTAAGACCATGTCTGGGAC
1 CGATATGAGATTACGTGTAAGACCATGTCTGGGAC
45068328 GTTGGCGTTG
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 6 0.06
42 31 0.33
43 51 0.54
44 7 0.07
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
CGATATGAGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:45068315 original size:43 final size:42
Alignment explanation
Indices: 45068223--45068327 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
45068213 TGTGATTTAG
* *
45068223 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGAGTTCA
* * * *
45068265 TGTAAGACCCTGTCGGGGATAGTGGCATCG-ATATGTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGAG-TT-CA
45068308 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
45068328 GTTGGCGTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 6 0.12
42 28 0.54
43 18 0.35
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGAGTTCA
Found at i:45072889 original size:37 final size:37
Alignment explanation
Indices: 45072840--45072913 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
45072830 TCATGAGATA
45072840 GAATTTTAATTATAGACTTAATTATATAATGCATGAT
1 GAATTTTAATTATAGACTTAATTATATAATGCATGAT
*
45072877 GAATTTTTATTATAGACTTAATTATATAATGCATGAT
1 GAATTTTAATTATAGACTTAATTATATAATGCATGAT
45072914 AATGAACTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (37 bp):
GAATTTTAATTATAGACTTAATTATATAATGCATGAT
Found at i:45073934 original size:26 final size:27
Alignment explanation
Indices: 45073905--45073967 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
45073895 TCTCATCCTT
* *
45073905 ATTTTACCCCCAG-AAAAAATTTCACG
1 ATTTTACCCCCAGTAAAAAATTTAACA
* **
45073931 ATTTTACCCTCAGTAAAATTTTTAACA
1 ATTTTACCCCCAGTAAAAAATTTAACA
45073958 ATTTTACCCC
1 ATTTTACCCC
45073968 TGGTAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (27 bp):
ATTTTACCCCCAGTAAAAAATTTAACA
Found at i:45076153 original size:46 final size:47
Alignment explanation
Indices: 45076088--45076360 Score: 261
Period size: 46 Copynumber: 6.0 Consensus size: 47
45076078 TTATCTTTGA
* * * * * *
45076088 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
***
45076134 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
45076180 CACGTTGCCATGGTATCTTTCAACCATAGTCTTACAC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
45076226 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
**
45076272 CA-GAGAGCACACATGGTATCTTTCAACCATGGTCTT--ACA----C--A-
1 CATG-TTG--C-CATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
45076313 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
45076359 CA
1 CA
45076361 GAGAGCACAC
Statistics
Matches: 193, Mismatches: 18, Indels: 32
0.79 0.07 0.13
Matches are distributed among these distances:
38 25 0.13
39 1 0.01
40 3 0.02
41 3 0.02
42 2 0.01
43 1 0.01
44 1 0.01
45 6 0.03
46 122 0.63
47 3 0.02
48 1 0.01
49 25 0.13
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:45076250 original size:92 final size:90
Alignment explanation
Indices: 45076093--45076363 Score: 313
Period size: 92 Copynumber: 3.0 Consensus size: 90
45076083 TTTGACATGA
* * * * * *
45076093 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CACTTTCTATCAGGTTGCCATGGTATCTTTCAAC
*** *
45076158 CATGGTCTTGTTCATTTCATATCACG-T
64 CATGGTCTTACACATTTCATATCA-GAG
*
45076185 TGCCATGGTATCTTTCAACCATAGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTC-TATCAGGTTGCCATGGTATCTTTCAAC
45076250 CATGGTCTTACACATTTCATATCAGAG
64 CATGGTCTTACACATTTCATATCAGAG
*
45076277 AGCACACATGGTATCTTTCAACCATGGTCTTACA----C-A-CAGGTTGCCATGGTATCTTTCAA
1 TG--C-CATGGTATCTTTCAACCATGGTCTTACACTTTCTATCAGGTTGCCATGGTATCTTTCAA
45076336 CCATGGTCTTACACATTTCATATCAGAG
63 CCATGGTCTTACACATTTCATATCAGAG
45076364 AGCACACTCC
Statistics
Matches: 160, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
87 51 0.32
88 1 0.01
90 3 0.02
91 5 0.03
92 72 0.45
94 1 0.01
95 27 0.17
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (90 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACTTTCTATCAGGTTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCATATCAGAG
Found at i:45081392 original size:46 final size:46
Alignment explanation
Indices: 45081332--45081597 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
45081322 TTTGACATGA
* * * * * *
45081332 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
45081378 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45081424 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
45081470 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45081516 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45081554 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
45081598 AGAGCACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 150 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:45081567 original size:38 final size:38
Alignment explanation
Indices: 45081511--45081586 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
45081501 CATTTCATAT
45081511 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
45081549 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
45081587 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (38 bp):
CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:45085693 original size:24 final size:25
Alignment explanation
Indices: 45085639--45085694 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
45085629 AATTAATAAA
* *
45085639 TAAAATTATCCAACCCAACCCAAAC
1 TAAAATTACCCAACCCAACCAAAAC
* *
45085664 T-CAATTACCCAACCCAA-TAAAAC
1 TAAAATTACCCAACCCAACCAAAAC
45085687 TAAAATTA
1 TAAAATTA
45085695 AAGTTTACCC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 5 0.20
24 19 0.76
25 1 0.04
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (25 bp):
TAAAATTACCCAACCCAACCAAAAC
Found at i:45085855 original size:9 final size:9
Alignment explanation
Indices: 45085839--45085890 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
45085829 GGTATTTTTC
45085839 GGTAATTCG
1 GGTAATTCG
*
45085848 GTTAATTCG
1 GGTAATTCG
*
45085857 GTTAATTCG
1 GGTAATTCG
45085866 GGTAATTCG
1 GGTAATTCG
45085875 GGTAATTCG
1 GGTAATTCG
45085884 GGTAATT
1 GGTAATT
45085891 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:45086067 original size:12 final size:12
Alignment explanation
Indices: 45086050--45086074 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45086040 AGTAATTTCG
45086050 GGTCGGTTAACC
1 GGTCGGTTAACC
45086062 GGTCGGTTAACC
1 GGTCGGTTAACC
45086074 G
1 G
45086075 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:45087154 original size:39 final size:40
Alignment explanation
Indices: 45087098--45087187 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
45087088 ACAAGTATTT
* * *
45087098 TTTTTTTGTTAATAATA-TGCTTAATATAAAATTTTGATA
1 TTTTATTGTTAAAAATATTACTTAATATAAAATTTTGATA
* *
45087137 TTTTATTGTTAAAAATATTTATTTAATTTAAAATTTTGATA
1 TTTTATTGTTAAAAATA-TTACTTAATATAAAATTTTGATA
45087178 TTGTTATTGT
1 TT-TTATTGT
45087188 CGATAACGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.35
41 21 0.49
42 7 0.16
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (40 bp):
TTTTATTGTTAAAAATATTACTTAATATAAAATTTTGATA
Found at i:45087205 original size:41 final size:41
Alignment explanation
Indices: 45087119--45087213 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
45087109 ATAATATGCT
* * * *
45087119 TAATATAAAATTTTGATATTTTATTGTTAAAAATATTTATT
1 TAATTTAAAATTTTGATATTTTATTGTCAAAAATAGTTATC
* * *
45087160 TAATTTAAAATTTTGATATTGTTATTGTCGATAA-CGTTATC
1 TAATTTAAAATTTTGATATT-TTATTGTCAAAAATAGTTATC
*
45087201 TAATTTAACATTT
1 TAATTTAAAATTT
45087214 ATGGGATAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 35 0.78
42 10 0.22
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (41 bp):
TAATTTAAAATTTTGATATTTTATTGTCAAAAATAGTTATC
Found at i:45089460 original size:24 final size:24
Alignment explanation
Indices: 45089432--45089485 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
45089422 TTGGAATTTA
* *
45089432 TTCTTCATTTTGAACCTATAGGGG
1 TTCTTCATTTCGAACCTACAGGGG
45089456 TTCTTCATTTCGAACCTACAGGGG
1 TTCTTCATTTCGAACCTACAGGGG
45089480 TT-TTCA
1 TTCTTCA
45089486 CACAGCCGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTTCATTTCGAACCTACAGGGG
Found at i:45096362 original size:42 final size:42
Alignment explanation
Indices: 45096315--45096428 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
45096305 ATTAAGATTA
*
45096315 CGTGTAAGACCATATCTAGGATATGGCATCGATAAGAGACTT
1 CGTGTAAGACCATATCTAGGATATGGCATCAATAAGAGACTT
* * * * * * *
45096357 CGTGTAAGACCATAGCTGGGCTATTGCCATTAATATGAGATTT
1 CGTGTAAGACCATATCTAGGATA-TGGCATCAATAAGAGACTT
* *
45096400 CATGTAAGACCATATCTAGGATACGGCAT
1 CGTGTAAGACCATATCTAGGATATGGCAT
45096429 TGGTATGGTA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGATATGGCATCAATAAGAGACTT
Found at i:45100991 original size:16 final size:16
Alignment explanation
Indices: 45100970--45101003 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45100960 CTGACACAAA
*
45100970 TGTGTATTTGCTTTGG
1 TGTGTATTTACTTTGG
45100986 TGTGTATTTACTTTGG
1 TGTGTATTTACTTTGG
45101002 TG
1 TG
45101004 GTTAAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.06, G:0.29, T:0.56
Consensus pattern (16 bp):
TGTGTATTTACTTTGG
Found at i:45103706 original size:21 final size:20
Alignment explanation
Indices: 45103678--45103727 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
45103668 TTTTTTAAAA
45103678 TATA-AAATTCATAAA-ATAT
1 TATAGAAATTCATAAATA-AT
*
45103697 TAATAGAAATTTATAAATAAT
1 T-ATAGAAATTCATAAATAAT
45103718 TATAGAAATT
1 TATAGAAATT
45103728 ATAGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.44
21 13 0.48
22 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
TATAGAAATTCATAAATAAT
Found at i:45103731 original size:29 final size:29
Alignment explanation
Indices: 45103683--45103793 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 29
45103673 TAAAATATAA
45103683 AATTCATAAAATATTAATAGAAATTTATAAAT
1 AATT-ATAAAA-ATT-ATAGAAATTTATAAAT
* *
45103715 AATTATAGAAATTATAGAAAATTTTTAAAT
1 AATTATAAAAATTATAG-AAATTTATAAAT
* * ** *
45103745 -GTTATAAAAAAT-TAGAAAAATATAGAAA
1 AATTATAAAAATTATAGAAATTTATA-AAT
45103773 AATTATAAAAAATTATAGAAA
1 AATTAT-AAAAATTATAGAAA
45103794 AAAGTATAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
27 6 0.10
28 5 0.08
29 17 0.27
30 20 0.32
31 11 0.17
32 4 0.06
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (29 bp):
AATTATAAAAATTATAGAAATTTATAAAT
Found at i:45103736 original size:10 final size:10
Alignment explanation
Indices: 45103681--45103794 Score: 69
Period size: 10 Copynumber: 11.4 Consensus size: 10
45103671 TTTAAAATAT
45103681 AAAATTCATA-
1 AAAATT-ATAG
45103691 AAATATTAATAG
1 AAA-ATT-ATAG
*
45103703 AAATTTATA-
1 AAAATTATAG
45103712 AATAATTATAG
1 AA-AATTATAG
45103723 -AAATTATAG
1 AAAATTATAG
*
45103732 AAAATTTTTA-
1 AAAA-TTATAG
**
45103742 AATGTTATA-
1 AAAATTATAG
*
45103751 AAAAAT-TAG
1 AAAATTATAG
*
45103760 AAAAATATAG
1 AAAATTATAG
*
45103770 AAAAATTATAA
1 -AAAATTATAG
45103781 AAAATTATAG
1 AAAATTATAG
45103791 AAAA
1 AAAA
45103795 AAGTATAGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 18
0.73 0.12 0.16
Matches are distributed among these distances:
8 2 0.02
9 23 0.28
10 34 0.41
11 20 0.24
12 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (10 bp):
AAAATTATAG
Found at i:45103763 original size:8 final size:10
Alignment explanation
Indices: 45103747--45103805 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
45103737 TTTTAAATGT
45103747 TATA-AAAAA
1 TATAGAAAAA
45103756 T-TAGAAAAA
1 TATAGAAAAA
45103765 TATAGAAAAA
1 TATAGAAAAA
45103775 TTATA-AAAAA
1 -TATAGAAAAA
45103785 TTATAGAAAAAA
1 -TATAG-AAAAA
45103797 GTATAGAAA
1 -TATAGAAA
45103806 GATCTTAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
8 2 0.05
9 7 0.16
10 18 0.41
11 7 0.16
12 10 0.23
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
TATAGAAAAA
Found at i:45103774 original size:21 final size:21
Alignment explanation
Indices: 45103750--45103805 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 21
45103740 TAAATGTTAT
45103750 AAAAAATTAGAAAAA-TATAG
1 AAAAAATTAGAAAAATTATAG
*
45103770 -AAAAATTATAAAAAATTATAG
1 AAAAAATTA-GAAAAATTATAG
45103791 AAAAAAGTATAGAAA
1 AAAAAA-T-TAGAAA
45103806 GATCTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 8 0.28
20 5 0.17
21 5 0.17
22 5 0.17
23 4 0.14
24 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
AAAAAATTAGAAAAATTATAG
Found at i:45105901 original size:34 final size:35
Alignment explanation
Indices: 45105842--45105917 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
45105832 GAAACTGCAT
* * *
45105842 GACTGATACTAATACTGAGATGGGCTAAGGCCCAA
1 GACTGTTACTAATACTGAAAGGGGCTAAGGCCCAA
* *
45105877 -ACTGTTACTGATACTGAAAGGGGCTTAGGCCCAA
1 GACTGTTACTAATACTGAAAGGGGCTAAGGCCCAA
45105911 GACTGTT
1 GACTGTT
45105918 TGACTAGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 29 0.83
35 6 0.17
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (35 bp):
GACTGTTACTAATACTGAAAGGGGCTAAGGCCCAA
Found at i:45111122 original size:42 final size:42
Alignment explanation
Indices: 45111075--45111168 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
45111065 ATGAGTTTTC
* *
45111075 GTTTAACCCTAATGG-GTTCCAGTTTAGCTCTTTTGAGCTTCA
1 GTTTAACCCTAATGGAGTTCC-GTTCAGCTCTTATGAGCTTCA
* * * *
45111117 GTTTAACCCTTATGGATTTTCGTTCAGCTCTTATGAGCTTCC
1 GTTTAACCCTAATGGAGTTCCGTTCAGCTCTTATGAGCTTCA
*
45111159 GTTCAACCCT
1 GTTTAACCCT
45111169 TATTGGTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (42 bp):
GTTTAACCCTAATGGAGTTCCGTTCAGCTCTTATGAGCTTCA
Found at i:45111170 original size:21 final size:21
Alignment explanation
Indices: 45111108--45111171 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
45111098 TTAGCTCTTT
* *
45111108 TGAGCTTCAGTTTAACCCTTA
1 TGAGCTTCCGTTCAACCCTTA
* * * *
45111129 TG-GATTTTCGTTCAGCTCTTA
1 TGAG-CTTCCGTTCAACCCTTA
45111150 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCCGTTCAACCCTTA
45111171 T
1 T
45111172 TGGTTTCCCT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.41
Consensus pattern (21 bp):
TGAGCTTCCGTTCAACCCTTA
Found at i:45111179 original size:21 final size:20
Alignment explanation
Indices: 45111121--45111179 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
45111111 GCTTCAGTTT
*
45111121 AACCCTTATGGATTTTCGTTC
1 AACCCTTATGG-TTTCCGTTC
* * *
45111142 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATG-GTTTCCGTTC
45111163 AACCCTTATTGGTTTCC
1 AACCCTTA-TGGTTTCC
45111180 CTTTAGCACT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.17, C:0.27, G:0.15, T:0.41
Consensus pattern (20 bp):
AACCCTTATGGTTTCCGTTC
Found at i:45111192 original size:42 final size:42
Alignment explanation
Indices: 45111097--45111198 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
45111087 TGGGTTCCAG
* * * *
45111097 TTTAGCTCTTTTGAGCTTCAGTTTAACCCTTATGGATTTTCG
1 TTTAGCTCTTATGAGCTTCAGTTCAACCCTTATGGATTTCCC
* *
45111139 TTCAGCTCTTATGAGCTTCCGTTCAACCCTTATTGG-TTTCCC
1 TTTAGCTCTTATGAGCTTCAGTTCAACCCTTA-TGGATTTCCC
* *
45111181 TTTAGCACTTATGTGCTT
1 TTTAGCTCTTATGAGCTT
45111199 TTATGTAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 47 0.94
43 3 0.06
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTAGCTCTTATGAGCTTCAGTTCAACCCTTATGGATTTCCC
Found at i:45112702 original size:28 final size:29
Alignment explanation
Indices: 45112670--45112768 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
45112660 ATAATAAGCC
*
45112670 CGCACACTTAGTGCTTA-ATAGTTGAACT
1 CGCACACTTAGTGCTTACATAATTGAACT
* **
45112698 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATTGAACT
* *
45112726 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATTGAACT
45112755 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45112769 CAATCTCATG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.60
29 19 0.32
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATTGAACT
Found at i:45120419 original size:28 final size:28
Alignment explanation
Indices: 45120387--45120451 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
45120377 ATTTACTAGA
*
45120387 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
45120415 ATACCCCTATGTATGTAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
45120443 ATACCCCTA
1 ATACCCCTA
45120452 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:45120598 original size:28 final size:27
Alignment explanation
Indices: 45120557--45120646 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
45120547 AGGAAGCGTC
45120557 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
45120585 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
45120612 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
45120641 CTGGTG
1 CTGGTG
45120647 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:45120615 original size:27 final size:28
Alignment explanation
Indices: 45120569--45120646 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
45120559 GGTGGCTATG
* * *
45120569 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGGCACTA
**
45120597 CCAC-GTATATCTGTTCTGGTGGCACTA
1 CCACAAAATATCTGTTCTGGTGGCACTA
45120624 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
45120647 ACTCTGTCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 22 0.54
28 12 0.29
29 7 0.17
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTA
Found at i:45127138 original size:17 final size:17
Alignment explanation
Indices: 45127088--45127138 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
45127078 GAGTGTTGTG
*
45127088 CCTTT-TTTCTTTTCTGA
1 CCTTTCTTTCTTTTCT-T
* * *
45127105 CCATTCTTCCTTCTCTT
1 CCTTTCTTTCTTTTCTT
45127122 CCTTTCTTTCTTTTCTT
1 CCTTTCTTTCTTTTCTT
45127139 TTCTCTCCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.04, C:0.31, G:0.02, T:0.63
Consensus pattern (17 bp):
CCTTTCTTTCTTTTCTT
Found at i:45128255 original size:28 final size:28
Alignment explanation
Indices: 45128223--45128287 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
45128213 ATTTACTAGA
*
45128223 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
45128251 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
45128279 ATACCCCTA
1 ATACCCCTA
45128288 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:45128432 original size:27 final size:29
Alignment explanation
Indices: 45128393--45128454 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
45128383 AGGAAGCGTC
* **
45128393 CTGGTGGCCCTGCCAC-GTATATCTGT-T
1 CTGGTGGCACTGCCACAAAATATCTGTAT
45128420 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGTAT
45128449 CTGGTG
1 CTGGTG
45128455 ACTCTTTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 15 0.50
28 8 0.27
29 7 0.23
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (29 bp):
CTGGTGGCACTGCCACAAAATATCTGTAT
Found at i:45128943 original size:19 final size:19
Alignment explanation
Indices: 45128919--45128957 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45128909 TTAATTATTT
* *
45128919 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
45128938 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
45128957 T
1 T
45128958 ATGATGAAAA
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:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:45131316 original size:45 final size:45
Alignment explanation
Indices: 45131195--45131319 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
45131185 CGCATCCATA
*
45131195 ATGAACTCAGACCAACTCAACGAGCTCGGA-TGCTTCACATATACC
1 ATGAACTCAGACCAACTCAACGAGCTCGGATTTC-TCACATATACC
* ** * * *
45131240 ACGAACTTGGACCAACTCAACAAGTTCGGATTTCTCACATATATC
1 ATGAACTCAGACCAACTCAACGAGCTCGGATTTCTCACATATACC
*
45131285 ATGAACTCAGACCAAATCAACGAGCTCGGATTTCT
1 ATGAACTCAGACCAACTCAACGAGCTCGGATTTCT
45131320 TGATTCCTAG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
45 64 0.97
46 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (45 bp):
ATGAACTCAGACCAACTCAACGAGCTCGGATTTCTCACATATACC
Found at i:45134915 original size:27 final size:26
Alignment explanation
Indices: 45134871--45134922 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
45134861 CTCGCTGCAA
*
45134871 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
45134898 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
45134923 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:45134990 original size:26 final size:27
Alignment explanation
Indices: 45134961--45135020 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
45134951 CCAAATATAT
*
45134961 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
45134987 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
45135014 ATATCTG
1 ATATCTG
45135021 GCAGCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:45134998 original size:32 final size:31
Alignment explanation
Indices: 45134938--45134999 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
45134928 CTCGCTGCAA
* *
45134938 TCTGGTGGCTTCGCCAAATATATATATCTGT
1 TCTGGTGGCCTAGCCAAATATATATATCTGT
* *
45134969 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCA-AATATATATATCTG
45135000 GTGACTTCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCAAATATATATATCTGT
Found at i:45139411 original size:27 final size:26
Alignment explanation
Indices: 45139367--45139418 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
45139357 CTCGCTGCAA
*
45139367 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
45139394 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
45139419 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:45139486 original size:26 final size:27
Alignment explanation
Indices: 45139457--45139516 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
45139447 CCAAATATAT
*
45139457 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
45139483 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
45139510 ATATCTG
1 ATATCTG
45139517 GCAGCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:45139494 original size:32 final size:31
Alignment explanation
Indices: 45139434--45139495 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
45139424 CTCGCTGCAA
* *
45139434 TCTGGTGGCTTCGCCAAATATATATATCTGT
1 TCTGGTGGCCTAGCCAAATATATATATCTGT
* *
45139465 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCA-AATATATATATCTG
45139496 GTGACTTCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCAAATATATATATCTGT
Found at i:45146383 original size:39 final size:39
Alignment explanation
Indices: 45146339--45146463 Score: 205
Period size: 39 Copynumber: 3.2 Consensus size: 39
45146329 TATGAGATTG
* *
45146339 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTAGA
45146378 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTAGA
* **
45146417 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTAGA
1 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTAGA
45146456 AAAATATC
1 AAAATATC
45146464 AGGGTTAAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTAGA
Found at i:45146480 original size:78 final size:76
Alignment explanation
Indices: 45146338--45146492 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
45146328 GTATGAGATT
* * * * **
45146338 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACTTGAGGTCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCAGGACTTAAGACCCGCA
*
45146403 GGCTATATGCTA
66 GGCT-TACGCTA
* * *
45146415 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTAGAAAAATATCAGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCAGGACTT-AAGACCCG
45146479 CAGGCTTACGCTA
64 CAGGCTTACGCTA
45146492 G
1 G
45146493 TGATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 13 0.20
78 53 0.80
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCAGGACTTAAGACCCGCA
GGCTTACGCTA
Found at i:45149837 original size:27 final size:28
Alignment explanation
Indices: 45149753--45149850 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
45149743 CATGAGATTG
* * * *
45149753 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
45149782 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
45149810 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
45149837 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
45149851 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:45149861 original size:27 final size:27
Alignment explanation
Indices: 45149781--45149863 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
45149771 TAAATTGTAC
* *
45149781 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
45149809 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
45149836 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
45149863 A
1 A
45149864 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:45149864 original size:29 final size:27
Alignment explanation
Indices: 45149753--45149864 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
45149743 CATGAGATTG
** * *
45149753 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
45149782 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
45149810 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
45149837 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
45149865 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:45150542 original size:18 final size:18
Alignment explanation
Indices: 45150519--45150554 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45150509 GTTAATTTGG
45150519 ACTTTGGGTCCTATGATA
1 ACTTTGGGTCCTATGATA
45150537 ACTTTGGGTCCTATGATA
1 ACTTTGGGTCCTATGATA
45150555 CTTAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (18 bp):
ACTTTGGGTCCTATGATA
Found at i:45157151 original size:27 final size:28
Alignment explanation
Indices: 45157067--45157164 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
45157057 CATGAGATTG
* * * *
45157067 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
45157096 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
45157124 GCTCTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
45157151 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
45157165 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:45157175 original size:27 final size:27
Alignment explanation
Indices: 45157095--45157177 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
45157085 TAAATTGTAC
* *
45157095 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* * *
45157123 AGCTCTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
45157150 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
45157177 A
1 A
45157178 TTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:45157178 original size:29 final size:27
Alignment explanation
Indices: 45157067--45157178 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
45157057 CATGAGATTG
** * *
45157067 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
45157096 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* * *
45157124 GCTCTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
45157151 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
45157179 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 22 0.31
28 27 0.39
29 21 0.30
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:45160592 original size:47 final size:46
Alignment explanation
Indices: 45160521--45160690 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 46
45160511 GGAGTAAGGT
*
45160521 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACAATGGCTCATATCTCGAA
* ** * *
45160568 GTCGATGCATTGTCCCAGACATGGTCTTACGCTGACT-ATCATCTCGTA
1 GCCGATGCA-TGTCCCAGACAT-GTCTTACAATGGCTCAT-ATCTCGAA
* * *
45160616 GCCGATGCATGTCCCAAACATGTCTTACAATGGCTTC-CATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACAATGGC-TCATATCTCGAA
45160662 GCCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
45160691 CTAGCACTCG
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
46 48 0.46
47 47 0.45
48 9 0.09
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACAATGGCTCATATCTCGAA
Found at i:45160762 original size:94 final size:94
Alignment explanation
Indices: 45160521--45160792 Score: 281
Period size: 94 Copynumber: 2.9 Consensus size: 94
45160511 GGAGTAAGGT
* * *
45160521 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGC--TCATATCTCAAGTCGATGCATTGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTTTCATATGT--GGTCGATGCA-TGTCCC
*
45160584 AGACATGGTCTTACGCT-G-ACTATCATCTCGTA
63 AGACAT-GTCTTACACTAGCAC-ATCATCTCGTA
* * * * *
45160616 GCCGATG-CATGTCCCAAACAT-GTCTTACAATGGCTTCCATCTCGAGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTTTCATAT-GTGGTCGATGCATGTCCCAG
* *
45160679 ACATGTCTTACACTAGCAC-TCGTCTTG-A
65 ACATGTCTTACACTAGCACATCATCTCGTA
* * *
45160707 TGTCGATGCCATATCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGTCGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTTTCAT-ATGTGGTCGATGCATGTCCCA
*
45160772 AACATGTCTTACACTAGCACA
64 GACATGTCTTACACTAGCACA
45160793 CAATAACCCC
Statistics
Matches: 147, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
91 1 0.01
92 21 0.14
93 37 0.25
94 76 0.52
95 12 0.08
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTTTCATATGTGGTCGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCATCTCGTA
Found at i:45165261 original size:56 final size:56
Alignment explanation
Indices: 45165176--45165336 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
45165166 AGTCTACAAG
**
45165176 GACTATTC--CATGTAAGAGT-TCACATGGACTATCATTCAAACAAGAGTCTGCATA
1 GACTATTCTTCATGTAAGAGTCT-ACATGGACTATCATTCAAACAAGAGTCCCCATA
* * * *
45165230 GACTATTCTTCATGTTAGAGTCTACAAGGACTATCATTCCAACAAGAGTCCCCATG
1 GACTATTCTTCATGTAAGAGTCTACATGGACTATCATTCAAACAAGAGTCCCCATA
* * * * * **
45165286 GACTATCCTTCAGGCAAGAGTCCACATGGACTATCTTTCAAGTAAGAGTCC
1 GACTATTCTTCATGTAAGAGTCTACATGGACTATCATTCAAACAAGAGTCC
45165337 ACATGAACTA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 8 0.09
56 79 0.90
57 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
GACTATTCTTCATGTAAGAGTCTACATGGACTATCATTCAAACAAGAGTCCCCATA
Found at i:45165341 original size:28 final size:28
Alignment explanation
Indices: 45165189--45165346 Score: 131
Period size: 28 Copynumber: 5.6 Consensus size: 28
45165179 TATTCCATGT
* * *
45165189 AAGAGTTCACATGGACTATCATTCAAAC
1 AAGAGTCCACATGGACTATCTTTCAAGC
** * * *
45165217 AAGAGTCTGCATAGACTAT-TCTTCATGT
1 AAGAGTCCACATGGACTATCT-TTCAAGC
* * * *
45165245 TAGAGTCTACAAGGACTATCATTCCAA-C
1 AAGAGTCCACATGGACTATC-TTTCAAGC
* * *
45165273 AAGAGTCCCCATGGACTATCCTTCAGGC
1 AAGAGTCCACATGGACTATCTTTCAAGC
*
45165301 AAGAGTCCACATGGACTATCTTTCAAGT
1 AAGAGTCCACATGGACTATCTTTCAAGC
*
45165329 AAGAGTCCACATGAACTA
1 AAGAGTCCACATGGACTA
45165347 ATTAATGAGT
Statistics
Matches: 99, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 3 0.03
28 92 0.93
29 3 0.03
30 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGAGTCCACATGGACTATCTTTCAAGC
Found at i:45166327 original size:30 final size:31
Alignment explanation
Indices: 45166272--45166339 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
45166262 GACCCCCAAA
*
45166272 AAGTTTAAGTACCAACTTAAGAAAAAGTGCC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGCC
* * *
45166303 GAGTTTAGGTACCAAATT-AGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGCC
45166333 AAGTTTA
1 AAGTTTA
45166340 CGTATCAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGCC
Found at i:45168644 original size:45 final size:47
Alignment explanation
Indices: 45168591--45168691 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 47
45168581 TCTATATAGA
* * *
45168591 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTTAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGGTTTTTCAACCTT
*
45168636 ATTACACTTCATCTATTTGATATTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGGTTTTTCAACCTT
45168685 ACTACAC
1 ACTACAC
45168692 CCCTTCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 15 0.32
47 4 0.09
49 28 0.60
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.47
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGGTTTTTCAACCTT
Found at i:45170450 original size:27 final size:27
Alignment explanation
Indices: 45170420--45170560 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
45170410 TTGACGAAGT
*
45170420 CACCAGATACAAATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
45170447 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
45170474 CACCAGAT-CAGATAATTGTGGCACAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
* *
45170501 CACCAG-GACAGATATATATGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
45170528 CACCAGAT-CAGATAATTATGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
45170555 CACCAG
1 CACCAG
45170561 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 9 0.09
27 87 0.87
28 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:45170561 original size:54 final size:54
Alignment explanation
Indices: 45170420--45170563 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
45170410 TTGACGAAGT
* * * *
45170420 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
45170474 CACCAGATCAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
1 CACCAGATCAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
* *
45170528 CACCAGATCAGATAATTATGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCACAGCCACCAGGAC
45170564 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 79 0.95
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
Found at i:45172189 original size:26 final size:26
Alignment explanation
Indices: 45172158--45172239 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
45172148 TGAAATGCCC
*
45172158 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45172184 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45172210 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45172236 ATCA
1 ATCA
45172240 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45175952 original size:29 final size:29
Alignment explanation
Indices: 45175896--45175954 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
45175886 TCATGGAAGA
* * * **
45175896 GGTGGAGAACTTGTTCGTTGAGTGTTCGT
1 GGTGAAGAACTTATTCATTGAGAATTCGT
45175925 GGTGAAGAACTTATTCATTGAGAATTCGT
1 GGTGAAGAACTTATTCATTGAGAATTCGT
45175954 G
1 G
45175955 TCAAGGTGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (29 bp):
GGTGAAGAACTTATTCATTGAGAATTCGT
Found at i:45176312 original size:23 final size:23
Alignment explanation
Indices: 45176277--45176323 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
45176267 TGGTAAGGAG
**
45176277 TTAGCTTGTTGGAGGACCTGTGT
1 TTAGCTTACTGGAGGACCTGTGT
45176300 TTAGCTTACTGGAGGACCTGTGT
1 TTAGCTTACTGGAGGACCTGTGT
45176323 T
1 T
45176324 CGAATTCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.32, T:0.38
Consensus pattern (23 bp):
TTAGCTTACTGGAGGACCTGTGT
Found at i:45178833 original size:19 final size:20
Alignment explanation
Indices: 45178809--45178847 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
45178799 CCGAATGTAC
45178809 TTTTCATATACA-CATATAT
1 TTTTCATATACATCATATAT
*
45178828 TTTTCATTTACATCATATAT
1 TTTTCATATACATCATATAT
45178848 GAATTGCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTCATATACATCATATAT
Found at i:45186501 original size:41 final size:43
Alignment explanation
Indices: 45186398--45186501 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 43
45186388 CAATGTTTAC
* * * * *
45186398 GTCCCAGACGTGGTCTTACATGCTATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGCAATCAAATATCGATACCAAT
* * *
45186441 ATCCCAAACA-GAGTATTACACG-AATCAAATA-CGATACCAAT
1 GTCCCAGACATG-GTCTTACACGCAATCAAATATCGATACCAAT
45186482 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
45186502 TGTAGCCACA
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
41 23 0.48
42 10 0.21
43 15 0.31
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGCAATCAAATATCGATACCAAT
Found at i:45192521 original size:31 final size:32
Alignment explanation
Indices: 45192485--45192546 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
45192475 TTTTATACAA
45192485 CTGAACCACAATCAAAGTTT-TATGTATAAAT
1 CTGAACCACAATCAAAGTTTATATGTATAAAT
*
45192516 CTGAACTACAATCAAAGTTTCATATGTATAA
1 CTGAACCACAATCAAAGTTT-ATATGTATAA
45192547 TTGGACCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 19 0.68
33 9 0.32
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CTGAACCACAATCAAAGTTTATATGTATAAAT
Found at i:45193282 original size:6 final size:7
Alignment explanation
Indices: 45193264--45193292 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
45193254 GAAAGGGCCA
45193264 ATTTTTT
1 ATTTTTT
45193271 ATTTTTT
1 ATTTTTT
45193278 ATTTTTT
1 ATTTTTT
45193285 ATTTTTT
1 ATTTTTT
45193292 A
1 A
45193293 GTCAATAAAA
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
ATTTTTT
Found at i:45193480 original size:18 final size:18
Alignment explanation
Indices: 45193454--45193512 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
45193444 ACCACAGGTG
45193454 AAAAA-GATAATATCT-TT
1 AAAAATGATAATAT-TATT
*
45193471 TAAAATGATAATATTATT
1 AAAAATGATAATATTATT
*
45193489 AAAAATAATAATATTATT
1 AAAAATGATAATATTATT
45193507 AAAAAT
1 AAAAAT
45193513 AATTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.14
18 32 0.86
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAATGATAATATTATT
Found at i:45193498 original size:15 final size:16
Alignment explanation
Indices: 45193455--45193521 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 16
45193445 CCACAGGTGA
*
45193455 AAAAGATAATATCTTTT
1 AAAAGATAATAT-TATT
45193472 AAAATGATAATATTATT
1 AAAA-GATAATATTATT
*
45193489 AAAAATAATAATATTATT
1 -AAAA-GATAATATTATT
*
45193507 AAAA-ATAATTTTATT
1 AAAAGATAATATTATT
45193522 TTGAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.22
17 11 0.24
18 24 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAGATAATATTATT
Found at i:45193521 original size:18 final size:18
Alignment explanation
Indices: 45193472--45193515 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
45193462 AATATCTTTT
*
45193472 AAAATGATAATATTATTA
1 AAAATAATAATATTATTA
45193490 AAAATAATAATATTATTA
1 AAAATAATAATATTATTA
45193508 AAAATAAT
1 AAAATAAT
45193516 TTTATTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATAATAATATTATTA
Found at i:45193685 original size:35 final size:35
Alignment explanation
Indices: 45193635--45193704 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
45193625 TATTGAGCTG
45193635 GTAGCTTTTTACACGTATATATCAATTAAAATATA
1 GTAGCTTTTTACACGTATATATCAATTAAAATATA
*
45193670 GTAGTTTTTTACACGTATATATCAATTAAAATATA
1 GTAGCTTTTTACACGTATATATCAATTAAAATATA
45193705 ATATACTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (35 bp):
GTAGCTTTTTACACGTATATATCAATTAAAATATA
Found at i:45196357 original size:15 final size:16
Alignment explanation
Indices: 45196339--45196368 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45196329 AATTGTTTTA
45196339 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
45196354 TTACATAATTTCACT
1 TTACATAATTTCACT
45196369 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:45196696 original size:50 final size:50
Alignment explanation
Indices: 45196578--45196857 Score: 231
Period size: 50 Copynumber: 5.6 Consensus size: 50
45196568 ATTCGGTACG
* * * * ***
45196578 CATAGTAGCCTGTACTTAGTACTACACATGCGACC-AACAATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
** * *
45196627 TGTAGTACCCTGCACTTAGTACTACACACGTGGCCTAACCATCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
* * * *** *** *
45196677 CATAGTAGCATGCACTTAGTACTACACACGTGATCAAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTAATACA
* * * * *
45196728 CATAGTAGCCTGCACTTAGTACTACATATGCGACCTAACTATCTAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
* * *
45196778 CGTAGTAACCTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAA-ACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATC-TAATACA
* *
45196830 AATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
45196858 TGTGTTCTCA
Statistics
Matches: 180, Mismatches: 46, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
49 28 0.16
50 80 0.44
51 37 0.21
52 33 0.18
53 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
Found at i:45196751 original size:101 final size:101
Alignment explanation
Indices: 45196629--45196810 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
45196619 CCGGTACATG
* * *
45196629 TAGTACCCTGCACTTAGTACTACACACGTGGCCTAACCATCTAATACACATAGTAGCATGCACTT
1 TAGTACCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATACACATAGTAACATGCACTT
45196694 AGTACTACACACGTGATCAAAGTTGTCGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTGTCGGGTACGCA
* * * * * * *
45196730 TAGTAGCCTGCACTTAGTACTACATATGCGACCTAACTATCTAGTACACGTAGTAACCTGCACTT
1 TAGTACCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATACACATAGTAACATGCACTT
*
45196795 AGTACTACACATGTGA
66 AGTACTACACACGTGA
45196811 CCTAAAACCA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTACCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATACACATAGTAACATGCACTT
AGTACTACACACGTGATCAAAGTTGTCGGGTACGCA
Found at i:45204877 original size:46 final size:48
Alignment explanation
Indices: 45204747--45204963 Score: 205
Period size: 46 Copynumber: 4.6 Consensus size: 48
45204737 TGAGACTGAC
* *
45204747 GCCATGTCCCAGACATGGTCTTACGCTAGCTCTCACATATCTATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCTCTATGCCGAT
* ** * *
45204797 GCCATGTCCTAGTTATGGTCTTAAACTAAC--ACATCTCGTA-GCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTC-TATGCCGAT
* * *
45204843 G-CATGTCCTAGACAT-GTCTTACACTAGCTTACATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCTATGCCGAT
* * * * * * *
45204889 G-CATGTCCAAGAAAT-GTCTTACACTAGCTTTCGTTTCAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCTATGCCGAT
45204935 GCCATGTCCCAGACATGGTCTTACACTAG
1 GCCATGTCCCAGACATGGTCTTACACTAG
45204964 TGCACAAATA
Statistics
Matches: 139, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 65 0.47
47 14 0.10
48 12 0.09
50 24 0.17
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCTATGCCGAT
Found at i:45210194 original size:15 final size:15
Alignment explanation
Indices: 45210176--45210232 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
45210166 TATCTGTTTT
45210176 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
45210191 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
45210206 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
45210221 ATGGAA-TTATAT
1 ATTGAATTTATAT
45210233 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:45210211 original size:30 final size:28
Alignment explanation
Indices: 45210147--45210230 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 28
45210137 GATAAGTTTA
* *
45210147 TATTGAATTGAT-TT-ATGAATATCTGTTT
1 TATTGAATTTATATTGATGAA-AT-TATTT
45210175 TATTGAATTTATATTGATTGAAATTATTT
1 TATTGAATTTATATTGA-TGAAATTATTT
*
45210204 TGATTGAATTTATATTGATGGAATTAT
1 T-ATTGAATTTATATTGATGAAATTAT
45210231 ATAATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 11 0.22
29 15 0.31
30 19 0.39
31 4 0.08
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.52
Consensus pattern (28 bp):
TATTGAATTTATATTGATGAAATTATTT
Found at i:45210652 original size:20 final size:20
Alignment explanation
Indices: 45210627--45210664 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45210617 GTGTCGTATT
*
45210627 TCAGGCACCTCGTGTGTCTA
1 TCAGGCACATCGTGTGTCTA
45210647 TCAGGCACATCGTGTGTC
1 TCAGGCACATCGTGTGTC
45210665 GTTTTAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.29
Consensus pattern (20 bp):
TCAGGCACATCGTGTGTCTA
Found at i:45213479 original size:102 final size:101
Alignment explanation
Indices: 45213329--45213608 Score: 305
Period size: 101 Copynumber: 2.7 Consensus size: 101
45213319 CTTTTTGGCC
* * * *
45213329 AAGTATTGATATTTTTTTGAATTATCGATA-CCCTCTCTTAAAAATGATACCAAAGTGGCATTAT
1 AAGTATTGATA-ATTTTTGAATTATTGATACCCCT-TCTT-AAAATGATACCAAAATGACATTAT
* * *
45213393 GTTTTCACAAACCCTAATAAGTGTCGATACCTTTTGATT
63 GTTTTCACAAACCCTAATAAGTATCAATACCATTTGATT
* * * *
45213432 AAGTATTGATAATTTTTGAAATATTAATACCCCTTCTTAAAAGTGATATCAAAATGACATTTTGT
1 AAGTATTGATAATTTTTGAATTATTGATACCCCTTCTTAAAA-TGATACCAAAATGACATTATGT
* *
45213497 TTT-TCAAACCCTAATAATTATCAATACCATTTGATT
65 TTTCACAAACCCTAATAAGTATCAATACCATTTGATT
* ** * *
45213533 ATGTATCAAT-ATTTTCTGAATTATTGATACCCCTTCTTAAATATGATACTAAAAATAACATTAT
1 AAGTATTGATAATTTT-TGAATTATTGATACCCCTTCTTAAA-ATGATAC-CAAAATGACATTAT
45213597 GTTTCTCACAAA
63 GTTT-TCACAAA
45213609 ACTTACAAAG
Statistics
Matches: 147, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
100 5 0.03
101 67 0.46
102 55 0.37
103 16 0.11
104 4 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (101 bp):
AAGTATTGATAATTTTTGAATTATTGATACCCCTTCTTAAAATGATACCAAAATGACATTATGTT
TTCACAAACCCTAATAAGTATCAATACCATTTGATT
Found at i:45214932 original size:36 final size:36
Alignment explanation
Indices: 45214892--45215000 Score: 90
Period size: 36 Copynumber: 3.2 Consensus size: 36
45214882 CATGATCATA
*
45214892 TAATAATATTGATAAATTATTATTCTGATGCTAATT
1 TAATAATATTGATAAATTATTATTATGATGCTAATT
* * * * *
45214928 TAATAATA-TAATTAA-CA--ATAAT-AT-C--ATA
1 TAATAATATTGATAAATTATTATTATGATGCTAATT
* *
45214956 TAATAATATTGATAAATTATTATTTTGATGTTAATT
1 TAATAATATTGATAAATTATTATTATGATGCTAATT
45214992 TAATAATAT
1 TAATAATAT
45215001 AATTAACAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 16
0.64 0.16 0.20
Matches are distributed among these distances:
28 10 0.19
29 5 0.10
30 2 0.04
31 2 0.04
32 6 0.12
33 2 0.04
34 1 0.02
35 5 0.10
36 19 0.37
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TAATAATATTGATAAATTATTATTATGATGCTAATT
Found at i:45214936 original size:64 final size:64
Alignment explanation
Indices: 45214886--45215014 Score: 208
Period size: 64 Copynumber: 2.0 Consensus size: 64
45214876 TTTAATCATG
45214886 ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATA-TAATTAACAATAAT
1 ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATATTAATT-ACAATAAT
* *
45214950 ATCATATAATAATATTGATAAATTATTATTTTGATGTTAATTTAATAATA-TAATTAACAATAAT
1 ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATATTAATT-ACAATAAT
45215014 A
1 A
45215015 GATATTCTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (64 bp):
ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATATTAATTACAATAAT
Found at i:45215129 original size:22 final size:23
Alignment explanation
Indices: 45215087--45215129 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
45215077 ATAAATTTAG
*
45215087 ATTATAAATTATACATAAATACT
1 ATTATAAATAATACATAAATACT
*
45215110 ATTATAAA-AATATATAAATA
1 ATTATAAATAATACATAAATA
45215130 GCAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTATAAATAATACATAAATACT
Found at i:45215463 original size:42 final size:43
Alignment explanation
Indices: 45215416--45215514 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 43
45215406 TTTCTTAAAA
45215416 ATATATTTATATTATTTTTA-ATTTA-ATAT-TTAATAATTTTAT
1 ATATATTTATATTATTTTTATATTTAGATATCTTAAT-ATTTT-T
* *
45215458 ATATATTTAT-TAAATTTTTATATTTAGTTATCTTAATATTTTT
1 ATATATTTATAT-TATTTTTATATTTAGATATCTTAATATTTTT
*
45215501 A-ATTTTTATATTAT
1 ATATATTTATATTAT
45215515 AGTAATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
41 1 0.02
42 26 0.54
43 8 0.17
44 8 0.17
45 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (43 bp):
ATATATTTATATTATTTTTATATTTAGATATCTTAATATTTTT
Found at i:45215465 original size:19 final size:19
Alignment explanation
Indices: 45215437--45215480 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45215427 TTATTTTTAA
45215437 TTTA-ATATTTAAT-AATT
1 TTTATATATTTAATAAATT
*
45215454 TTATATATATTTATTAAATT
1 TT-TATATATTTAATAAATT
45215474 TTTATAT
1 TTTATAT
45215481 TTAGTTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 2 0.09
19 13 0.57
20 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATATTTAATAAATT
Found at i:45215468 original size:23 final size:23
Alignment explanation
Indices: 45215442--45215540 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 23
45215432 TTTAATTTAA
45215442 TATTTAATAATTTTATATATATT
1 TATTTAATAATTTTATATATATT
* * *
45215465 TA-TTAA-ATTTTTATATTTAGT
1 TATTTAATAATTTTATATATATT
*
45215486 TATCTTAAT-ATTTT-TA-ATTTT
1 TAT-TTAATAATTTTATATATATT
*
45215507 TATATTATAGTAATATTATATATTATT
1 TAT-TTA-A-TAATTTTATATA-TATT
45215534 T-TTTAAT
1 TATTTAAT
45215541 TTTTATGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
21 22 0.39
22 7 0.12
23 12 0.21
24 5 0.09
25 5 0.09
26 2 0.04
27 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTAATAATTTTATATATATT
Found at i:45215481 original size:36 final size:34
Alignment explanation
Indices: 45215421--45215546 Score: 127
Period size: 32 Copynumber: 3.7 Consensus size: 34
45215411 TAAAAATATA
* *
45215421 TTTATAT-TATTTTTAA-TTTAATATTTAATAAT
1 TTTATATATATTTTTAATTTTTATATTTAGTAAT
*
45215453 TTTATATATATTTATTAAATTTTTATATTTAGTTA-
1 TTTATATATATTT-TT-AATTTTTATATTTAGTAAT
*
45215488 TCT-TA-ATATTTTTAATTTTTATATTATAGTAAT
1 TTTATATATATTTTTAATTTTTATATT-TAGTAAT
*
45215521 ATTATATATTATTTTTTAATTTTTAT
1 TTTATATA-TA-TTTTTAATTTTTAT
45215547 GTATTATAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
31 12 0.16
32 14 0.18
33 12 0.16
34 6 0.08
35 5 0.06
36 14 0.18
37 14 0.18
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (34 bp):
TTTATATATATTTTTAATTTTTATATTTAGTAAT
Found at i:45215488 original size:21 final size:23
Alignment explanation
Indices: 45215428--45215505 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 23
45215418 ATATTTATAT
* *
45215428 TATTTTTA-ATTTA-ATATTTAA
1 TATTTTTATATTTAGTTACTTAA
* * *
45215449 TAATTTTATATATATTTA-TTAA
1 TATTTTTATATTTAGTTACTTAA
45215471 -ATTTTTATATTTAGTTATCTTAA
1 TATTTTTATATTTAGTTA-CTTAA
45215494 TATTTTTA-ATTT
1 TATTTTTATATTT
45215506 TTATATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 21 0.46
22 8 0.17
23 10 0.22
24 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (23 bp):
TATTTTTATATTTAGTTACTTAA
Found at i:45227339 original size:42 final size:42
Alignment explanation
Indices: 45227293--45227414 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
45227283 TACCATACCA
* * * *
45227293 ATGCCATATCTCAGATATGGTCTTACATG-GGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * *
45227335 ATGCCAATAGCCCAGCTATAGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
45227378 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
45227415 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.46
43 35 0.52
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:45234414 original size:46 final size:46
Alignment explanation
Indices: 45234352--45234522 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
45234342 ACATCTTATA
45234352 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
* * * * * * * *
45234398 GCCGATGTATATCCCAGACATGTCTCACACTAGCTTATGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
* * * * * *
45234444 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCACGAG
45234492 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
45234523 AGCACACAAA
Statistics
Matches: 98, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 54 0.55
47 24 0.24
48 19 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
Found at i:45248331 original size:79 final size:80
Alignment explanation
Indices: 45248208--45248379 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 80
45248198 GGACTAAGAT
45248208 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGA-TACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGA-ATTACT
*
45248272 A-ATTCCGGGCTA-AGC
65 ATA-ACCGGGCTATAGC
* * ** **
45248287 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGTGAATTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTACGAATTACT
*
45248351 ATAACCGGGCTATATC
65 ATAACCGGGCTATAGC
45248367 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45248380 AACGAGGAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 63 0.78
80 16 0.20
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAATTACTA
TAACCGGGCTATAGC
Found at i:45248342 original size:40 final size:40
Alignment explanation
Indices: 45248155--45248379 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
45248145 TTGAATGATG
* * * *
45248155 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAA
* * *
45248195 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAA
* ** * *
45248235 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAA
45248275 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
* *
45248314 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-AA
45248355 -CCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGGGCTA-AGTCCCGAAGGCATTTG
45248380 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
Found at i:45248398 original size:119 final size:120
Alignment explanation
Indices: 45248155--45248385 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
45248145 TTGAATGATG
*
45248155 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
45248220 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * **
45248275 TCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
45248337 TTGTGTGA-ATTACTATAA-CCGGGCT-ATATCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAG
45248386 GAGCTATATC
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
118 5 0.05
119 72 0.75
120 19 0.20
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:45256640 original size:17 final size:17
Alignment explanation
Indices: 45256618--45256652 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45256608 ATAAACACTT
*
45256618 AGATTTTGGGGCATTAC
1 AGATTTTAGGGCATTAC
*
45256635 AGATTTTAGGGCGTTAC
1 AGATTTTAGGGCATTAC
45256652 A
1 A
45256653 AATAGCATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (17 bp):
AGATTTTAGGGCATTAC
Found at i:45259370 original size:20 final size:20
Alignment explanation
Indices: 45259342--45259385 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
45259332 TACCAACTTG
*
45259342 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
45259362 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
45259382 CAAC
1 CAAC
45259386 TTAAACGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:45259592 original size:42 final size:41
Alignment explanation
Indices: 45259471--45259592 Score: 111
Period size: 43 Copynumber: 2.9 Consensus size: 41
45259461 TACCATACCA
* * **
45259471 ATGCCATATCTCAGATATAGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGATATAGTCTTACAT-GAATCTCATATCC
* * *
45259513 ATGCCA-ATTGCCCAGTTATTGTTTTACATGAAGTCTCATATCC
1 ATGCCATA-T-CCCAGATATAGTCTTACATGAA-TCTCATATCC
* *
45259556 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATAGTCTTACATG-AATCTCA
45259593 ACTAACCCTA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.47
43 32 0.50
44 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (41 bp):
ATGCCATATCCCAGATATAGTCTTACATGAATCTCATATCC
Found at i:45262178 original size:17 final size:17
Alignment explanation
Indices: 45262156--45262190 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45262146 CCAAAATGAC
45262156 CATAAATCCTATACATG
1 CATAAATCCTATACATG
45262173 CATAAATCCTATACATG
1 CATAAATCCTATACATG
45262190 C
1 C
45262191 CATATAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (17 bp):
CATAAATCCTATACATG
Found at i:45273598 original size:8 final size:8
Alignment explanation
Indices: 45273558--45273600 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
45273548 TACTTATTAA
45273558 ATAATAA-
1 ATAATAAT
45273565 ATAATAATT
1 ATAATAA-T
45273574 ATAATAAT
1 ATAATAAT
*
45273582 TTAATAAT
1 ATAATAAT
45273590 ATAATAAT
1 ATAATAAT
45273598 ATA
1 ATA
45273601 TATGTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 7 0.22
8 18 0.56
9 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:45273611 original size:25 final size:25
Alignment explanation
Indices: 45273558--45273619 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
45273548 TACTTATTAA
45273558 ATAATAAATAATAATTATAATAATT
1 ATAATAAATAATAATTATAATAATT
*
45273583 -TAATAATATAATAA-TAT-ATATGTT
1 ATAATAA-ATAATAATTATAATA-ATT
45273607 ATAATAAAGTAAT
1 ATAATAAA-TAAT
45273620 TAAATAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 3 0.09
24 12 0.38
25 17 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (25 bp):
ATAATAAATAATAATTATAATAATT
Done.