Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 104 of 344
Found at i:35066205 original size:39 final size:40
Alignment explanation
Indices: 35066110--35066331 Score: 239
Period size: 39 Copynumber: 5.7 Consensus size: 40
35066100 TTGAATGATG
*
35066110 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35066148 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
35066189 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
35066228 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35066267 TCCGGGTTAAGTCCC-AAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35066305 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35066332 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.01
39 119 0.75
40 26 0.16
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35067959 original size:83 final size:80
Alignment explanation
Indices: 35067840--35068058 Score: 275
Period size: 83 Copynumber: 2.7 Consensus size: 80
35067830 TGGATGATAT
* * **
35067840 CCGGGCTAAGTCTCG-AGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
35067904 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
35067922 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTTCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
35067987 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
35068002 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
35068059 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 15 0.12
80 45 0.37
81 2 0.02
82 14 0.11
83 47 0.38
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:35067971 original size:40 final size:40
Alignment explanation
Indices: 35067836--35068058 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
35067826 TATTTGGATG
* * *
35067836 ATATCCGGGCTAAGTCTCG-AGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
35067875 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
35067918 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
35067958 ATATCCGGGCTAAGTTCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
35067998 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
35068038 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35068059 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 33 0.20
40 91 0.56
41 2 0.01
43 35 0.22
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:35076054 original size:40 final size:40
Alignment explanation
Indices: 35075922--35076141 Score: 315
Period size: 40 Copynumber: 5.5 Consensus size: 40
35075912 TATTCGGATG
*
35075922 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGC-AGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
35075960 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGTAGTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--TAGTGACT
35076001 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
35076041 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
35076081 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
35076121 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35076142 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 19 0.11
39 30 0.18
40 78 0.47
41 36 0.22
42 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:35080922 original size:48 final size:48
Alignment explanation
Indices: 35080861--35081010 Score: 201
Period size: 48 Copynumber: 3.1 Consensus size: 48
35080851 CACATAGTAG
* *
35080861 GATGCCAATGCCATATCCTGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCTAGATATGGTCTTACATGGGATCACATATC
* * * ** * *
35080909 GATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATT
1 GATGCCAATGCCATGTCCTAGATATGGTCTTACATGGGATCACATATC
* *
35080957 GATGCCAATGCCATGTCCTAGATATGGTATTACATGAGATCACATATC
1 GATGCCAATGCCATGTCCTAGATATGGTCTTACATGGGATCACATATC
35081005 GATGCC
1 GATGCC
35081011 GATAGCCCAG
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCTAGATATGGTCTTACATGGGATCACATATC
Found at i:35082847 original size:42 final size:42
Alignment explanation
Indices: 35082766--35082852 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
35082756 CAGTGTCAGG
* ** *
35082766 GCCATGCCCCAGACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATGCCCCAAACATGGTCTTATACGAAACCACATATCGAT
* * *
35082808 GCCATGTCCCAAACATGGTCTTATACGAAATCACTTATCGAT
1 GCCATGCCCCAAACATGGTCTTATACGAAACCACATATCGAT
35082850 GCC
1 GCC
35082853 GAAGCCATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (42 bp):
GCCATGCCCCAAACATGGTCTTATACGAAACCACATATCGAT
Found at i:35082926 original size:48 final size:48
Alignment explanation
Indices: 35082803--35082935 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 48
35082793 GGACCTCATA
* * *
35082803 TCGATGCCATGTCCCAAACATGGTCTTATACGAAATCACTTATCGATG
1 TCGATGCCATGTCCCAAACATGGTCTTACACGAGATCACATATCGATG
* * * ** * * *
35082851 CCGAAGCCATATCCCTGATATGATCTTACACGAGATCGCATATCGATG
1 TCGATGCCATGTCCCAAACATGGTCTTACACGAGATCACATATCGATG
*
35082899 TCGATGCCATGTCCCAAACATGGTCTTACACGGGATC
1 TCGATGCCATGTCCCAAACATGGTCTTACACGAGATC
35082936 TCGTTAATCA
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TCGATGCCATGTCCCAAACATGGTCTTACACGAGATCACATATCGATG
Found at i:35086771 original size:18 final size:18
Alignment explanation
Indices: 35086748--35086785 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35086738 CGGTTAAGGA
35086748 TACCATGTAAGACCATGT
1 TACCATGTAAGACCATGT
35086766 TACCATGTAAGACCATGT
1 TACCATGTAAGACCATGT
35086784 TA
1 TA
35086786 AGACATGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (18 bp):
TACCATGTAAGACCATGT
Found at i:35086792 original size:10 final size:10
Alignment explanation
Indices: 35086749--35086789 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
35086739 GGTTAAGGAT
35086749 ACCATGTAAG
1 ACCATGTAAG
*
35086759 ACCATGT--T
1 ACCATGTAAG
35086767 ACCATGTAAG
1 ACCATGTAAG
35086777 ACCATGTTAAG
1 ACCATG-TAAG
35086788 AC
1 AC
35086790 ATGGCATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.27
10 13 0.50
11 6 0.23
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (10 bp):
ACCATGTAAG
Found at i:35086954 original size:47 final size:46
Alignment explanation
Indices: 35086766--35087016 Score: 202
Period size: 47 Copynumber: 5.4 Consensus size: 46
35086756 AAGACCATGT
* *
35086766 TACCATGTAAGACCATGTTAAGACATGGCATT-GGTAAGGCAAGGA
1 TACCATGTAAGACCATGTTAGGACATGGCATTCGGTAAGACAAGGA
* * * * * * *
35086811 TCCCATGTAAGACGATGTCAAGACATGGCA-TCGGCATTGATTAAGGA
1 TACCATGTAAGACCATGTTAGGACATGGCATTCGGTA-AGA-CAAGGA
** * ** **
35086858 CT-CCATGTAAGACCACATCAGGATGTGGCATTGTCACTAAGACAAGGA
1 -TACCATGTAAGACCATGTTAGGACATGGCA-T-TCGGTAAGACAAGGA
*
35086906 TACCATGTAAGACCATGTTTGGAACATGGCATTCGGTAAGACAAGGA
1 TACCATGTAAGACCATGTTAGG-ACATGGCATTCGGTAAGACAAGGA
* * * * **
35086953 TACCATATAAGACCATGTTTGGAACATGGAATTTGGTAAGGTAAGGA
1 TACCATGTAAGACCATGTTAGG-ACATGGCATTCGGTAAGACAAGGA
*
35087000 TATCATGTAAGACCATG
1 TACCATGTAAGACCATG
35087017 CCAAGGCATG
Statistics
Matches: 164, Mismatches: 33, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
44 1 0.01
45 30 0.18
46 1 0.01
47 98 0.60
48 23 0.14
49 8 0.05
50 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (46 bp):
TACCATGTAAGACCATGTTAGGACATGGCATTCGGTAAGACAAGGA
Found at i:35087124 original size:55 final size:54
Alignment explanation
Indices: 35086989--35087191 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
35086979 TGGAATTTGG
* * * *
35086989 TAAGGTAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
35087043 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * * *
35087098 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-A
1 TAAGGC-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* *
35087151 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCA
35087192 ATGGTAAGTT
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.25
54 47 0.36
55 42 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:35087221 original size:108 final size:109
Alignment explanation
Indices: 35087003--35087226 Score: 308
Period size: 108 Copynumber: 2.1 Consensus size: 109
35086993 GTAAGGATAT
* * *
35087003 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * * *
35087068 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
* * *
35087112 CATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
35087176 ATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGG-TCC
*
35087220 CAAGTAA
1 CATGTAA
35087227 TCCAAAGAGT
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
107 11 0.11
108 55 0.54
109 35 0.35
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:35087534 original size:13 final size:13
Alignment explanation
Indices: 35087516--35087540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35087506 TATGGTCTAC
35087516 GATTTCATGAAAT
1 GATTTCATGAAAT
35087529 GATTTCATGAAA
1 GATTTCATGAAA
35087541 ATTTCATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:35091669 original size:29 final size:28
Alignment explanation
Indices: 35091634--35091689 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
35091624 GGGTTATACC
35091634 GATTTGGCTTCGGGCCATGAATATCAGTT
1 GATTTGGCTTCGGGCCATGAA-ATCAGTT
35091663 GATTTGGCTTCGGGCCATGAAATCAGT
1 GATTTGGCTTCGGGCCATGAAATCAGT
35091690 ACTTCTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGAAATCAGTT
Found at i:35094700 original size:13 final size:13
Alignment explanation
Indices: 35094682--35094709 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35094672 CTTTATTTTA
35094682 TTATTTTTCATCT
1 TTATTTTTCATCT
35094695 TTATTTTTCATCT
1 TTATTTTTCATCT
35094708 TT
1 TT
35094710 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:35097143 original size:24 final size:25
Alignment explanation
Indices: 35097116--35097186 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
35097106 AGCTCGTATA
*
35097116 AGCTTACTGA-TTGCAGCTCGTGAG
1 AGCTTACTGATTTACAGCTCGTGAG
* *
35097140 AGCTTACCGATTTATAGCTCGTGAG
1 AGCTTACTGATTTACAGCTCGTGAG
* * * *
35097165 AGCATACTAATTCACAACTCGT
1 AGCTTACTGATTTACAGCTCGT
35097187 ATGAGCATAC
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 9 0.24
25 28 0.76
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTTACTGATTTACAGCTCGTGAG
Found at i:35106725 original size:79 final size:81
Alignment explanation
Indices: 35106589--35106773 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
35106579 TTGAATGATG
* *
35106589 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
35106653 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35106668 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35106730 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
35106748 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35106774 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:35106787 original size:40 final size:41
Alignment explanation
Indices: 35106589--35106773 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
35106579 TTGAATGATG
* * *
35106589 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35106629 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
35106669 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35106708 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35106749 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35106774 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35106806 original size:79 final size:79
Alignment explanation
Indices: 35106628--35106798 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
35106618 AAGTGACCAT
* * *
35106628 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATCCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
**
35106692 TGTGCGAGTTACTAA
65 TGAACGAGTTACTAA
* * * *
35106707 ATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATCCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
35106771 TTGAACGAG-TAGCTAT
64 TTGAACGAGTTA-CTAA
35106787 ATCC-GATTAAAT
1 ATCCGGATTAAAT
35106799 TCTGAAGGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
78 3 0.04
79 48 0.63
80 25 0.33
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATCCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTT
GAACGAGTTACTAA
Found at i:35110503 original size:40 final size:40
Alignment explanation
Indices: 35110325--35110502 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
35110315 GCTACTCGTT
* *
35110325 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35110364 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35110404 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
35110444 CAAATGCCTTC-GGATCTTAGTCCGGATTTGGCCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAG-TAACTCGCA
35110485 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
35110503 GCCTGGACAT
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 24 0.19
40 87 0.69
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35114067 original size:92 final size:94
Alignment explanation
Indices: 35113882--35114098 Score: 239
Period size: 93 Copynumber: 2.3 Consensus size: 94
35113872 ATGGGTAAAG
* * * * * * * *
35113882 TGCCCATGCCATATCCCAAACATGGTCTTACACTGGC-TATCATCTTCGAGGCTGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTATATTGGCTTA-CGTC-CCGAGGCAGATGCCATGTC
* *
35113946 CCAGACATGGTCTTACACCGACACATCTC-A
64 CCAAACATGGTCTTACACCAACACATCTCAA
35113976 TAGCCGATG-CATGTCCCAGACAT-GTCTTATATTGGCTTACGTCCCGAGGCAGATG-CATGTCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTATATTGGCTTACGTCCCGAGGCAGATGCCATGTCC
* *
35114038 CAAACAT-GTCTTACACTAACACTCGTCTCAA
65 CAAACATGGTCTTACACCAACA--CATCTCAA
35114069 TGCCGATGCCATGTCCCAGACATGGTCTTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTA
35114099 CACTAGCTCT
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
90 12 0.12
91 13 0.12
92 22 0.21
93 30 0.29
94 21 0.20
95 6 0.06
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTATATTGGCTTACGTCCCGAGGCAGATGCCATGTCCC
AAACATGGTCTTACACCAACACATCTCAA
Found at i:35114129 original size:94 final size:90
Alignment explanation
Indices: 35113882--35114149 Score: 270
Period size: 94 Copynumber: 2.9 Consensus size: 90
35113872 ATGGGTAAAG
* * * * *
35113882 TGCCCATGCCATATCCCAAACATGGTCTTACACTGGCTATCATCTTCGAGGCTGATGCCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCAT-GAGGCAGATG-CATGTCC
**
35113947 CAGACATGGTCTTACACCGACACATCTCA
63 CAGACAT-GTCTTACACTAACACATCTCA
* * * **
35113976 TAGCCGATG-CATGTCCCAGACAT-GTCTTATATTGGCTTACGTCCCGAGGCAGATGCATGTCCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATCATGAGGCAGATGCATGTCCC
* *
35114039 AAACATGTCTTACACTAACACTCGTCTCAA
64 AGACATGTCTTACACTAACA--CATCTC-A
* * * *
35114069 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCATGAGGCAGATGCATGTCCCA
35114134 GACATGTCTTACACTA
65 GACATGTCTTACACTA
35114150 GCTCACACAA
Statistics
Matches: 143, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
90 12 0.08
91 13 0.09
92 22 0.15
93 31 0.22
94 58 0.41
95 7 0.05
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (90 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCATGAGGCAGATGCATGTCCCAG
ACATGTCTTACACTAACACATCTCA
Found at i:35114153 original size:46 final size:44
Alignment explanation
Indices: 35113935--35114153 Score: 151
Period size: 46 Copynumber: 4.8 Consensus size: 44
35113925 CTTCGAGGCT
* * * *
35113935 GATGCCATGTCCCAGACATGGTCTTACAC-CGACACATCTCA-TAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCTAAGTGGCC
* * * ** * *
35113981 GATGCATGTCCCAGACATGTCTTATATTGGCT-TACGTCCCGAGGCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-C-T-AAGTGGCC
* *
35114027 GATGCATGTCCCAAACATGTCTTACACTAACACTCGTCTCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACT-A-GCTC-TCT-AAGTGGCC
35114073 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC-TAA-GTGGCC
35114121 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
35114154 ACACAAATGA
Statistics
Matches: 139, Mismatches: 19, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 9 0.06
45 20 0.14
46 56 0.40
47 29 0.21
48 21 0.15
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCTAAGTGGCC
Found at i:35115844 original size:21 final size:20
Alignment explanation
Indices: 35115820--35115858 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35115810 TAGGGATTAA
35115820 ATTGTGAAATGTGTAAAATTC
1 ATTGTGAAAT-TGTAAAATTC
* *
35115841 ATTGTTAAGTTGTAAAAT
1 ATTGTGAAATTGTAAAAT
35115859 AAATGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTGTGAAATTGTAAAATTC
Found at i:35119322 original size:26 final size:26
Alignment explanation
Indices: 35119261--35119327 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
35119251 CACACCTTAA
*
35119261 CTCTT-ATGAGCATCCCGATTAAAGG
1 CTCTTCATGAGCTTCCCGATTAAAGG
*
35119286 CTCTTCATGAGCTTCCCG-TTAATTGG
1 CTCTTCATGAGCTTCCCGATTAA-AGG
**
35119312 CTCTTTGTGAGCTTCC
1 CTCTTCATGAGCTTCC
35119328 TAATAGTGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (26 bp):
CTCTTCATGAGCTTCCCGATTAAAGG
Found at i:35119421 original size:24 final size:25
Alignment explanation
Indices: 35119367--35119500 Score: 77
Period size: 24 Copynumber: 5.6 Consensus size: 25
35119357 TGGCTATCCG
* *
35119367 GAGCTTCCCGA-TATGGTTCTTTGT
1 GAGCTTCCCGATTATGGCTCTTTAT
*
35119391 GAACTTCCCGATTATGGCTC-TTAT
1 GAGCTTCCCGATTATGGCTCTTTAT
* ***
35119415 GAGCTTCCC-ATTATATAGC-CCGAAT
1 GAGCTTCCCGA-T-TATGGCTCTTTAT
* *
35119440 AAGCTTCCCGA-TA-GGCTTTTTAT
1 GAGCTTCCCGATTATGGCTCTTTAT
* * * *
35119463 AAGCTTCCCGA-AATGGCTCTGTGT
1 GAGCTTCCCGATTATGGCTCTTTAT
35119487 GAGCTTCCCG-TTAT
1 GAGCTTCCCGATTAT
35119501 AAGGCTCGAG
Statistics
Matches: 83, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
22 2 0.02
23 17 0.20
24 41 0.49
25 22 0.27
26 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGATTATGGCTCTTTAT
Found at i:35121060 original size:15 final size:16
Alignment explanation
Indices: 35121040--35121069 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35121030 TGGTGCCTTG
35121040 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
35121055 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
35121070 AGTATGTTTG
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:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:35127560 original size:46 final size:46
Alignment explanation
Indices: 35127510--35127685 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
35127500 TGATTGAGCA
*
35127510 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
35127556 TCCGAACTCATTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
*
35127603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
35127649 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35127686 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 60 0.56
47 25 0.23
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35127666 original size:93 final size:93
Alignment explanation
Indices: 35127507--35127676 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
35127497 GGATGATTGA
*
35127507 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
35127572 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* * * *
35127600 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
35127665 TGAGTCCGAGTT
66 TGAGTCCGAGTT
35127677 CGCTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:35131289 original size:15 final size:15
Alignment explanation
Indices: 35131254--35131305 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35131244 TTAAGAATTT
*
35131254 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35131268 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35131282 TATTTAATAATAAT-
1 TATTTAATTATAATA
35131296 TATGTTAATT
1 TAT-TTAATT
35131306 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35131333 original size:120 final size:120
Alignment explanation
Indices: 35131192--35131421 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
35131182 TTTGAGTAAA
35131192 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
35131257 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
35131312 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
35131377 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
35131422 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:35131387 original size:61 final size:61
Alignment explanation
Indices: 35131202--35131389 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
35131192 TTATAGTATC
35131202 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
35131263 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
35131322 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
35131383 ATATATT
1 ATATATT
35131390 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:35131404 original size:16 final size:16
Alignment explanation
Indices: 35131383--35131424 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35131373 TTATTAAATT
*
35131383 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35131399 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35131414 AT-TATGTTTAA
1 ATATAT-TTTAA
35131425 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35131409 original size:15 final size:15
Alignment explanation
Indices: 35131374--35131415 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35131364 TTAAGAATTT
*
35131374 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35131388 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35131402 TATTTAATAATAAT
1 TATTTAATTATAAT
35131416 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35131650 original size:45 final size:43
Alignment explanation
Indices: 35131550--35131659 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
35131540 TTTTCCATTA
35131550 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
35131589 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
35131634 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
35131660 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:35131661 original size:16 final size:16
Alignment explanation
Indices: 35131640--35131691 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
35131630 GATTTGCTAT
*
35131640 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
35131656 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
35131672 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
35131688 TACA
1 TACA
35131692 GCGAACCAAA
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:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35136793 original size:3 final size:3
Alignment explanation
Indices: 35136787--35136819 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
35136777 ATGGTGGTTT
*
35136787 TGG TGG TGA TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
35136820 CCGGTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.64, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:35136799 original size:9 final size:9
Alignment explanation
Indices: 35136777--35136819 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
35136767 GGGAGTGGGA
*
35136777 ATGGTGGTT
1 ATGGTGGTG
*
35136786 TTGGTGGTG
1 ATGGTGGTG
35136795 ATGGTGGTG
1 ATGGTGGTG
*
35136804 GTGGTGGTG
1 ATGGTGGTG
*
35136813 GTGGTGG
1 ATGGTGG
35136820 CCGGTAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.05, C:0.00, G:0.58, T:0.37
Consensus pattern (9 bp):
ATGGTGGTG
Found at i:35146911 original size:10 final size:10
Alignment explanation
Indices: 35146876--35146921 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
35146866 TATATTCCGA
35146876 CACATATCAAT
1 CACATAT-AAT
*
35146887 CACATATAAG
1 CACATATAAT
35146897 CACATATAAT
1 CACATATAAT
* *
35146907 TACATACAAT
1 CACATATAAT
35146917 CACAT
1 CACAT
35146922 TTAGTCACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (10 bp):
CACATATAAT
Found at i:35148694 original size:42 final size:42
Alignment explanation
Indices: 35148638--35148789 Score: 205
Period size: 42 Copynumber: 3.6 Consensus size: 42
35148628 ACTGAGATTA
* * *
35148638 CGTGTAAGAGCATATCTAGGATATGGCATCGATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
*
35148680 CGTGTAAGACCATATCTGGGATATGGCATCGATGCGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
* * * * *
35148722 TGTGTAAGACCGTAGCTGGGCTATTGGCATCGATACGAGATTT
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATACGAGACTT
*
35148765 CATGTAAGACCATATCTGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
35148790 ACATTGTATG
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 59 0.63
43 35 0.37
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
Found at i:35151415 original size:27 final size:27
Alignment explanation
Indices: 35151385--35151562 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35151375 ATATTGAGTC
* * * *
35151385 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35151412 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35151439 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35151467 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35151494 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35151521 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35151548 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35151563 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35151524 original size:82 final size:81
Alignment explanation
Indices: 35151406--35151561 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35151396 TGCTATATAA
* *
35151406 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35151471 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35151488 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35151552 CACTTAGTGC
65 CACTTAGTGC
35151562 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35164141 original size:43 final size:43
Alignment explanation
Indices: 35164054--35164194 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
35164044 ATACTTGAAA
* * * * *
35164054 ACACATATATCACATA-CAATGCC-ATATCCCATATATGGTCTT
1 ACACATA-ATCACATATCGATGCCAATGTCCCAGACAGGGTCTT
** * ** *
35164096 ACATGTTATCACATATCGATGCCTCTGTCTCAGACAGGGTCTT
1 ACACATAATCACATATCGATGCCAATGTCCCAGACAGGGTCTT
* *
35164139 ACACATAATCTCATATCGATGCCAATGTCCCAGACATGGTCTT
1 ACACATAATCACATATCGATGCCAATGTCCCAGACAGGGTCTT
35164182 ACAC-TAAATCACA
1 ACACAT-AATCACA
35164195 CCTCGAAAGT
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
41 8 0.10
42 11 0.14
43 58 0.75
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (43 bp):
ACACATAATCACATATCGATGCCAATGTCCCAGACAGGGTCTT
Found at i:35167498 original size:18 final size:18
Alignment explanation
Indices: 35167456--35167498 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
35167446 GCCCATTCCG
* *
35167456 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
35167474 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
35167492 AAGTATG
1 AAGTATG
35167499 CCCATTCAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:35168004 original size:27 final size:27
Alignment explanation
Indices: 35167973--35168150 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
35167963 TAAATTGTAC
35167973 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35168000 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35168026 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35168054 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
35168082 AGCAGTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35168109 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35168136 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35168151 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35168091 original size:82 final size:81
Alignment explanation
Indices: 35167974--35168129 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
35167964 AAATTGTACA
* *
35167974 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35168038 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
35168055 GCACTAAGTGTGCGAGTTTGACTATGTAGCAGTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35168120 TGCGAGTTGA
65 TGCGAATTGA
35168130 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35168141 original size:82 final size:81
Alignment explanation
Indices: 35167970--35168150 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
35167960 GATTAAATTG
* *
35167970 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35168035 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
35168051 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCAGTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35168115 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35168133 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35168151 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35187732 original size:20 final size:19
Alignment explanation
Indices: 35187709--35187773 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
35187699 AAGCTCAAAC
35187709 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
35187729 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * *
35187749 AAGCTCATGTGAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
35187769 GAGCT
1 GAGCT
35187774 GGGAAAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 31 0.84
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:35187733 original size:10 final size:10
Alignment explanation
Indices: 35187709--35187773 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
35187699 AAGCTCAAAC
*
35187709 GAGCTAAAGT
1 GAGCTAAATT
*
35187719 AAGCTAAATT
1 GAGCTAAATT
*
35187729 GAGCTCAAA-C
1 GAGCT-AAATT
35187739 GAGCTAAATT
1 GAGCTAAATT
* *
35187749 AAGCT-CATGT
1 GAGCTAAAT-T
35187759 GAGCTAAATT
1 GAGCTAAATT
35187769 GAGCT
1 GAGCT
35187774 GGGAAAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
9 5 0.12
10 32 0.76
11 5 0.12
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (10 bp):
GAGCTAAATT
Found at i:35188357 original size:10 final size:10
Alignment explanation
Indices: 35188344--35188377 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
35188334 AGCTCACTTG
35188344 AGCTTGTTTT
1 AGCTTGTTTT
*
35188354 AGCTTGTTTG
1 AGCTTGTTTT
35188364 AGCTTGATTTT
1 AGCTTG-TTTT
35188375 AGC
1 AGC
35188378 CCGTTTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.15, C:0.12, G:0.24, T:0.50
Consensus pattern (10 bp):
AGCTTGTTTT
Found at i:35188357 original size:20 final size:21
Alignment explanation
Indices: 35188334--35188377 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
35188324 AGCTCCAACC
35188334 AGCTCACTTGAGCTTG-TTTT
1 AGCTCACTTGAGCTTGATTTT
***
35188354 AGCTTGTTTGAGCTTGATTTT
1 AGCTCACTTGAGCTTGATTTT
35188375 AGC
1 AGC
35188378 CCGTTTCAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (21 bp):
AGCTCACTTGAGCTTGATTTT
Found at i:35188383 original size:21 final size:20
Alignment explanation
Indices: 35188341--35188388 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
35188331 ACCAGCTCAC
**
35188341 TTGAGCTTGTTTTAGCTTGT
1 TTGAGCTTGTTTTAGCCCGT
35188361 TTGAGCTTGATTTTAGCCCGT
1 TTGAGCTTG-TTTTAGCCCGT
*
35188382 TTCAGCT
1 TTGAGCT
35188389 CATTTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.48
Consensus pattern (20 bp):
TTGAGCTTGTTTTAGCCCGT
Found at i:35199556 original size:18 final size:19
Alignment explanation
Indices: 35199533--35199571 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
35199523 TTTATCTCAA
*
35199533 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
35199551 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
35199570 TT
1 TT
35199572 GTCTCTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:35199604 original size:36 final size:36
Alignment explanation
Indices: 35199564--35199635 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
35199554 CTTGTTCACA
**
35199564 TTCTTTTTGTCTCTCGAA-CTCTTTTTCATTCTCTTT
1 TTCTTTTTCACTCTC-AATCTCTTTTTCATTCTCTTT
* *
35199600 TTCTTTTTCACTCTCAATCTCTTTTTCTTTTTCTTT
1 TTCTTTTTCACTCTCAATCTCTTTTTCATTCTCTTT
35199636 CATTTCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.08, C:0.25, G:0.03, T:0.64
Consensus pattern (36 bp):
TTCTTTTTCACTCTCAATCTCTTTTTCATTCTCTTT
Found at i:35199622 original size:18 final size:18
Alignment explanation
Indices: 35199582--35199626 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
35199572 GTCTCTCGAA
* **
35199582 CTCTTTTTCATTCTCTTT
1 CTCTTTTTCACTCTCAAT
*
35199600 TTCTTTTTCACTCTCAAT
1 CTCTTTTTCACTCTCAAT
35199618 CTCTTTTTC
1 CTCTTTTTC
35199627 TTTTTCTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.29, G:0.00, T:0.62
Consensus pattern (18 bp):
CTCTTTTTCACTCTCAAT
Found at i:35199685 original size:42 final size:42
Alignment explanation
Indices: 35199630--35199726 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
35199620 CTTTTTCTTT
* *
35199630 TTCTTTCA-TTTCTTTGTTTCTTTTCTCTATTTCATTCAAGA
1 TTCTTTCATTTTCTTTGTTTCTTCTCTCTATTTCATTCAAAA
*
35199671 TTCTCTCATTTTCTTTGTTTCTTCTCTCTATTTCATTCAAAA
1 TTCTTTCATTTTCTTTGTTTCTTCTCTCTATTTCATTCAAAA
*
35199713 TCCTTTCATTTTCT
1 TTCTTTCATTTTCT
35199727 CTCATAATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 7 0.14
42 43 0.86
ACGTcount: A:0.14, C:0.23, G:0.03, T:0.60
Consensus pattern (42 bp):
TTCTTTCATTTTCTTTGTTTCTTCTCTCTATTTCATTCAAAA
Found at i:35199704 original size:21 final size:21
Alignment explanation
Indices: 35199637--35199704 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
35199627 TTTTTCTTTC
*
35199637 ATTTCTTTGTTTCTTTTCTCT
1 ATTTCTTTGTTTCTTCTCTCT
* *****
35199658 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCT
35199678 ATTTTCTTTGTTTCTTCTCTCT
1 A-TTTCTTTGTTTCTTCTCTCT
35199700 ATTTC
1 ATTTC
35199705 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCT
Found at i:35199774 original size:17 final size:17
Alignment explanation
Indices: 35199745--35199791 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
35199735 CTTTTCTTGC
*
35199745 CTCTCTTTTCTTTTGAT
1 CTCTCTTTTCTTTTCAT
35199762 CTCT-TTTTGCTTTTCAT
1 CTCTCTTTT-CTTTTCAT
35199779 CTTCTTCTTTTCT
1 C-TC-TCTTTTCT
35199792 CGCTTGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 2 0.08
19 3 0.12
20 4 0.16
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (17 bp):
CTCTCTTTTCTTTTCAT
Found at i:35201485 original size:20 final size:20
Alignment explanation
Indices: 35201462--35201508 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
35201452 GGGTTAAGAT
**
35201462 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCAAG
* *
35201482 TGAGTTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
35201502 TGAGCTG
1 TGAGCTG
35201509 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:35204563 original size:7 final size:7
Alignment explanation
Indices: 35204551--35204580 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
35204541 ATTTGTAAAG
35204551 GACTTTT
1 GACTTTT
35204558 GACTTTT
1 GACTTTT
35204565 GACTTTT
1 GACTTTT
35204572 GACTTTT
1 GACTTTT
35204579 GA
1 GA
35204581 TCATTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (7 bp):
GACTTTT
Found at i:35205243 original size:12 final size:12
Alignment explanation
Indices: 35205226--35205292 Score: 75
Period size: 12 Copynumber: 5.5 Consensus size: 12
35205216 TTGGAGTAAC
*
35205226 AAAAAAAA-TAA
1 AAAAAAAATTGA
35205237 AAAAAAAGAGTTCGA
1 AAAAAAA-A-TT-GA
35205252 AAAAAAAATTGA
1 AAAAAAAATTGA
35205264 AAAAAAAATTGA
1 AAAAAAAATTGA
*
35205276 AAAAAAAA-AGA
1 AAAAAAAATTGA
35205287 AAAAAA
1 AAAAAA
35205293 TTGCATACGG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
11 15 0.30
12 23 0.46
13 2 0.04
14 2 0.04
15 8 0.16
ACGTcount: A:0.79, C:0.01, G:0.09, T:0.10
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:35206373 original size:18 final size:18
Alignment explanation
Indices: 35206335--35206376 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35206325 AAATCGAAAG
* **
35206335 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
35206353 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
35206371 AAAAGA
1 AAAAGA
35206377 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:35208941 original size:7 final size:7
Alignment explanation
Indices: 35208929--35208958 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
35208919 ATTTGTAAAG
35208929 GACTTTT
1 GACTTTT
35208936 GACTTTT
1 GACTTTT
35208943 GACTTTT
1 GACTTTT
35208950 GACTTTT
1 GACTTTT
35208957 GA
1 GA
35208959 TCATTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (7 bp):
GACTTTT
Found at i:35210061 original size:22 final size:22
Alignment explanation
Indices: 35210033--35210076 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
35210023 TTTTGAACCA
35210033 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
35210055 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
35210077 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:35210819 original size:13 final size:13
Alignment explanation
Indices: 35210801--35210825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35210791 TAACCTACAA
35210801 AATTAAATAACAT
1 AATTAAATAACAT
35210814 AATTAAATAACA
1 AATTAAATAACA
35210826 CAACTATTCA
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:35211802 original size:30 final size:30
Alignment explanation
Indices: 35211768--35211854 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
35211758 AGCTCACTCC
35211768 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
35211798 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* *
35211828 CAGCTCAACTTTAGCTCACGAGCTAAA
1 TAGCTCAACTTCAGCTCACGAGCTAAA
35211855 GCTCATTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 44 0.98
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:35216824 original size:30 final size:30
Alignment explanation
Indices: 35216790--35216886 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35216780 AGCTCACTCC
35216790 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
35216820 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
35216850 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
35216880 TAGCTCA
1 TAGCTCA
35216887 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:35219602 original size:37 final size:37
Alignment explanation
Indices: 35219551--35219621 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
35219541 CATTCTTGTA
35219551 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
35219588 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
35219622 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:35219621 original size:6 final size:6
Alignment explanation
Indices: 35219561--35219610 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
35219551 AAGAGAAAAC
*
35219561 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
35219610 A
1 A
35219611 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:35219703 original size:11 final size:12
Alignment explanation
Indices: 35219671--35219701 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35219661 TTGAGAGAAC
35219671 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35219683 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35219695 TTGAAAA
1 TTGAAAA
35219702 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:35221915 original size:30 final size:30
Alignment explanation
Indices: 35221879--35221975 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
35221869 AGCTCACTCC
*
35221879 TAGCTCATA-TTTAGCTCACAAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
35221909 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
35221939 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
35221969 TAGCTCA
1 TAGCTCA
35221976 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:35227509 original size:30 final size:30
Alignment explanation
Indices: 35227474--35227537 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
35227464 AGCTCGAATT
*
35227474 AGCTCACA-TGAGCTTAATTTAGCTTGTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCGTTTG
* *
35227504 AGCTCAATTTAGCTTACTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
35227534 AGCT
1 AGCT
35227538 TGGCTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:35227527 original size:20 final size:20
Alignment explanation
Indices: 35227482--35227528 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35227472 TTAGCTCACA
* *
35227482 TGAGCTTAATTTAGCTTGTT
1 TGAGCTCAATTTAGCTTCTT
35227502 TGAGCTCAATTTAGCTTACTT
1 TGAGCTCAATTTAGCTT-CTT
35227523 T-AGCTC
1 TGAGCTC
35227529 GTTTGAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (20 bp):
TGAGCTCAATTTAGCTTCTT
Found at i:35230329 original size:13 final size:14
Alignment explanation
Indices: 35230300--35230338 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
35230290 AAAGTGAGAG
35230300 AAAGAAAATGAAGA
1 AAAGAAAATGAAGA
*
35230314 AAAGAAAATTAA-A
1 AAAGAAAATGAAGA
*
35230327 AAAGAAATTGAA
1 AAAGAAAATGAA
35230339 AGAGAGCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (14 bp):
AAAGAAAATGAAGA
Found at i:35230377 original size:33 final size:33
Alignment explanation
Indices: 35230336--35230398 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
35230326 AAAAGAAATT
35230336 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
35230369 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
35230399 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:35234036 original size:13 final size:12
Alignment explanation
Indices: 35234018--35234050 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
35234008 CGTATGCAAT
35234018 TTTTTTTTTCAAA
1 TTTTTTTTTC-AA
35234031 TTTTTTTTTCAA
1 TTTTTTTTTCAA
35234043 TTTTTTTT
1 TTTTTTTT
35234051 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:35247151 original size:20 final size:21
Alignment explanation
Indices: 35247116--35247154 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35247106 CAGCTCGTTG
35247116 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
35247137 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
35247155 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:35247562 original size:13 final size:13
Alignment explanation
Indices: 35247544--35247569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35247534 TGTGTCCTAA
35247544 TATGAATTAAATT
1 TATGAATTAAATT
35247557 TATGAATTAAATT
1 TATGAATTAAATT
35247570 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:35248127 original size:26 final size:26
Alignment explanation
Indices: 35248098--35248149 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35248088 ATTAAGCTGA
35248098 TTGCTTTGAGTTCATTCGGCTGGAAC
1 TTGCTTTGAGTTCATTCGGCTGGAAC
35248124 TTGCTTTGAGTTCATTCGGCTGGAAC
1 TTGCTTTGAGTTCATTCGGCTGGAAC
35248150 ATATTCAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.38
Consensus pattern (26 bp):
TTGCTTTGAGTTCATTCGGCTGGAAC
Found at i:35248717 original size:9 final size:9
Alignment explanation
Indices: 35248705--35248749 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
35248695 GAAGTAAGTG
35248705 ATTAAAAAA
1 ATTAAAAAA
35248714 ATTAAAAAA
1 ATTAAAAAA
*
35248723 AATAAAAAA
1 ATTAAAAAA
35248732 A-TAAAAAA
1 ATTAAAAAA
*
35248740 AGTAAAAAA
1 ATTAAAAAA
35248749 A
1 A
35248750 ATTCGTGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 8 0.24
9 26 0.76
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:35248729 original size:7 final size:8
Alignment explanation
Indices: 35248707--35248749 Score: 59
Period size: 8 Copynumber: 5.0 Consensus size: 8
35248697 AGTAAGTGAT
35248707 TAAAAAAA
1 TAAAAAAA
35248715 TTAAAAAAAA
1 -T-AAAAAAA
35248725 TAAAAAAA
1 TAAAAAAA
35248733 TAAAAAAA
1 TAAAAAAA
35248741 GTAAAAAAA
1 -TAAAAAAA
35248750 ATTCGTGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.47
9 10 0.31
10 7 0.22
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:35248731 original size:17 final size:17
Alignment explanation
Indices: 35248707--35248749 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
35248697 AGTAAGTGAT
35248707 TAAAAAAATTAAAAAAAA
1 TAAAAAAA-TAAAAAAAA
*
35248725 TAAAAAAATAAAAAAAG
1 TAAAAAAATAAAAAAAA
35248742 TAAAAAAA
1 TAAAAAAA
35248750 ATTCGTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (17 bp):
TAAAAAAATAAAAAAAA
Found at i:35249729 original size:6 final size:6
Alignment explanation
Indices: 35249720--35249800 Score: 56
Period size: 6 Copynumber: 13.0 Consensus size: 6
35249710 AAGTGAAGAG
* * ** *
35249720 GAAAAA GAAAACA -AAAAA GAAAAA GCAAAC GAAAAA GTGAGA GAAAAA
1 GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
* *
35249768 GAAAAT GAAGAAAA GAAAATT GAAAAA GAAAAA
1 GAAAAA G-A-AAAA GAAAA-A GAAAAA GAAAAA
35249801 TACGAAAATG
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
5 1 0.02
6 43 0.77
7 8 0.14
8 4 0.07
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:35249783 original size:14 final size:13
Alignment explanation
Indices: 35249762--35249799 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
35249752 AAAAGTGAGA
35249762 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
35249774 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
35249789 GAAAAAGAAAA
1 GAAAAAGAAAA
35249800 ATACGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:35249796 original size:13 final size:12
Alignment explanation
Indices: 35249702--35249799 Score: 56
Period size: 12 Copynumber: 7.9 Consensus size: 12
35249692 CAATGAATTC
*
35249702 GAAAAAGAAAGT
1 GAAAAAGAAAAT
* * *
35249714 GAAGAGGAAAAA
1 GAAAAAGAAAAT
*
35249726 GAAAACA-AAAAA
1 GAAAA-AGAAAAT
* *
35249738 GAAAAAGCAAAC
1 GAAAAAGAAAAT
* *
35249750 GAAAAAGTGAGA-
1 GAAAAAG-AAAAT
35249762 GAAAAAGAAAAT
1 GAAAAAGAAAAT
35249774 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAA-T
35249789 GAAAAAGAAAA
1 GAAAAAGAAAA
35249800 ATACGAAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
11 3 0.04
12 40 0.60
13 12 0.18
14 10 0.15
15 2 0.03
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.05
Consensus pattern (12 bp):
GAAAAAGAAAAT
Found at i:35249843 original size:17 final size:18
Alignment explanation
Indices: 35249818--35249857 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
35249808 ATGAGATTTC
35249818 AAAAACAAAA-GAGAGTG
1 AAAAACAAAATGAGAGTG
* *
35249835 AAAAGCAAAATGAGATTG
1 AAAAACAAAATGAGAGTG
35249853 AAAAA
1 AAAAA
35249858 GAAAGAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.65, C:0.05, G:0.20, T:0.10
Consensus pattern (18 bp):
AAAAACAAAATGAGAGTG
Found at i:35251168 original size:20 final size:21
Alignment explanation
Indices: 35251133--35251171 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35251123 CAGCTCGTTG
35251133 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
35251154 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
35251172 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:35251579 original size:13 final size:13
Alignment explanation
Indices: 35251561--35251586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35251551 TGTGTCCTAA
35251561 TATGAATTAAATT
1 TATGAATTAAATT
35251574 TATGAATTAAATT
1 TATGAATTAAATT
35251587 GCTTTTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:35252992 original size:13 final size:13
Alignment explanation
Indices: 35252974--35252998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35252964 GTATTGATCA
35252974 TGTGTTCACACCT
1 TGTGTTCACACCT
35252987 TGTGTTCACACC
1 TGTGTTCACACC
35252999 ATGATGTCCA
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:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:35260577 original size:13 final size:13
Alignment explanation
Indices: 35260559--35260583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35260549 TGGTCATCAT
35260559 GGTGTGAACACAA
1 GGTGTGAACACAA
35260572 GGTGTGAACACA
1 GGTGTGAACACA
35260584 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:35263714 original size:9 final size:10
Alignment explanation
Indices: 35263701--35263734 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
35263691 TTTTTTTCCT
*
35263701 TTTTTTTTGA
1 TTTTTTTTAA
35263711 TTTTTTTTAA
1 TTTTTTTTAA
35263721 TTTTTTTTGAA
1 TTTTTTTT-AA
35263732 TTT
1 TTT
35263735 CTTCTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:35263714 original size:10 final size:10
Alignment explanation
Indices: 35263701--35263730 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
35263691 TTTTTTTCCT
35263701 TTTTTTTTGA
1 TTTTTTTTGA
*
35263711 TTTTTTTTAA
1 TTTTTTTTGA
35263721 TTTTTTTTGA
1 TTTTTTTTGA
35263731 ATTTCTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:35263716 original size:20 final size:20
Alignment explanation
Indices: 35263691--35263749 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
35263681 TTGTCACTTC
35263691 TTTTTTTCCTTTTTTTTTGA
1 TTTTTTTCCTTTTTTTTTGA
***
35263711 TTTTTTTTAATTTTTTTTGA
1 TTTTTTTCCTTTTTTTTTGA
* *
35263731 ATTTCTTCTCTTTTTTTTT
1 TTTTTTTC-CTTTTTTTTT
35263750 AAATCCAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTTTTCCTTTTTTTTTGA
Found at i:35264813 original size:13 final size:13
Alignment explanation
Indices: 35264795--35264819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35264785 TGGTCATCAT
35264795 GGTGTGAACACAA
1 GGTGTGAACACAA
35264808 GGTGTGAACACA
1 GGTGTGAACACA
35264820 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:35270268 original size:14 final size:15
Alignment explanation
Indices: 35270242--35270294 Score: 69
Period size: 13 Copynumber: 3.8 Consensus size: 15
35270232 TTTTCTTGCC
*
35270242 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
35270257 TCTCTTTT-TTTTCA
1 TCTCTTTTCTTTTCA
35270271 TCT-TTTTCTTTTC-
1 TCTCTTTTCTTTTCA
35270284 TC-CTTTTCTTT
1 TCTCTTTTCTTT
35270295 CTACAAGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
13 14 0.40
14 13 0.37
15 8 0.23
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.72
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:35270290 original size:13 final size:14
Alignment explanation
Indices: 35270230--35270294 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
35270220 TCTCTCATAA
**
35270230 TCTTTTCTTGCCTC
1 TCTTTTCTTTTCTC
*
35270244 TCTTTTCTTTTGATC
1 TCTTTTCTTTT-CTC
35270259 TCTTTT-TTTTCATC
1 TCTTTTCTTTTC-TC
35270273 T-TTTTCTTTTCTC
1 TCTTTTCTTTTCTC
35270286 -CTTTTCTTT
1 TCTTTTCTTT
35270295 CTACAAGAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
13 14 0.33
14 21 0.49
15 8 0.19
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.69
Consensus pattern (14 bp):
TCTTTTCTTTTCTC
Found at i:35274866 original size:15 final size:15
Alignment explanation
Indices: 35274846--35274893 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
35274836 TCAAAGATGG
35274846 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
35274861 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
35274876 -TTTATGGATATAAA
1 GTTTATGGATATGAA
35274890 GTTT
1 GTTT
35274894 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:35274873 original size:29 final size:29
Alignment explanation
Indices: 35274840--35274899 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
35274830 AAGGATTCAA
* *
35274840 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
35274869 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
35274898 AG
1 AG
35274900 GTTTGTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:35275918 original size:14 final size:14
Alignment explanation
Indices: 35275876--35275920 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
35275866 TTAAAGAAGC
35275876 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
35275890 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
35275903 AACTCATTTAATTA
1 AACTCATTAAATTA
35275917 AACT
1 AACT
35275921 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:35280869 original size:12 final size:12
Alignment explanation
Indices: 35280853--35280926 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 12
35280843 TTTTTGCTCG
35280853 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
35280865 CTTTTTTTTTGA
1 ATTTTTTTTTCA
35280877 ATTTTTTTTTCAATCA
1 A-TTTTTTTT---TCA
35280893 ATTTTTTTTTCGAA
1 ATTTTTTTTTC--A
*
35280907 ATTTTTTTTT-G
1 ATTTTTTTTTCA
35280918 ATTTTTTTT
1 ATTTTTTTT
35280927 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
11 9 0.18
12 12 0.24
13 8 0.16
14 11 0.22
15 8 0.16
16 3 0.06
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:35280869 original size:24 final size:24
Alignment explanation
Indices: 35280842--35280888 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35280832 TCTTTTCTTT
35280842 TTTTTTGCTCG-ATTTTTTTTTCAC
1 TTTTTT-CTCGAATTTTTTTTTCAC
* *
35280866 TTTTTTTTTGAATTTTTTTTTCA
1 TTTTTTCTCGAATTTTTTTTTCA
35280889 ATCAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTTTCTCGAATTTTTTTTTCAC
Found at i:35280883 original size:14 final size:13
Alignment explanation
Indices: 35280866--35280926 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
35280856 TTTTTTTCAC
35280866 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
35280879 TTTTTTTTCAATCAAT
1 TTTTTTTT---TGAAT
* *
35280895 TTTTTTTTCGAAA
1 TTTTTTTTTGAAT
35280908 TTTTTTTTTG-AT
1 TTTTTTTTTGAAT
35280920 TTTTTTT
1 TTTTTTT
35280927 GTTACTCCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
12 8 0.21
13 19 0.49
16 12 0.31
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:35280895 original size:16 final size:14
Alignment explanation
Indices: 35280876--35280916 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
35280866 TTTTTTTTTG
35280876 AATTTTTTTTTCAA
1 AATTTTTTTTTCAA
*
35280890 TCAATTTTTTTTTCGA
1 --AATTTTTTTTTCAA
35280906 AATTTTTTTTT
1 AATTTTTTTTT
35280917 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (14 bp):
AATTTTTTTTTCAA
Found at i:35284402 original size:20 final size:20
Alignment explanation
Indices: 35284356--35284402 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
35284346 AGCTCGTTTG
*
35284356 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
35284376 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
35284396 CAGCTCA
1 CAGCTCA
35284403 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:35286159 original size:13 final size:13
Alignment explanation
Indices: 35286143--35286202 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
35286133 TTTTGCTCGA
*
35286143 TTTTTTTTCACTT
1 TTTTTTTTCAATT
*
35286156 TTTTTTTTGAA-T
1 TTTTTTTTCAATT
*
35286168 TTTTTTTTCAATCAA
1 TTTTTTTTCAAT--T
35286183 TTTTTTTTCGAATT
1 TTTTTTTTC-AATT
35286197 TTTTTT
1 TTTTTT
35286203 GATTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 11 0.29
13 9 0.24
14 6 0.16
15 9 0.24
16 3 0.08
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTTTTCAATT
Found at i:35286207 original size:10 final size:11
Alignment explanation
Indices: 35286181--35286213 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
35286171 TTTTTCAATC
35286181 AATTTTTTTTCG
1 AATTTTTTTT-G
35286193 AATTTTTTTTG
1 AATTTTTTTTG
35286204 -ATTTTTTTTG
1 AATTTTTTTTG
35286214 TTACTCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 1 0.05
12 10 0.48
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:35290107 original size:18 final size:18
Alignment explanation
Indices: 35290086--35290135 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
35290076 AAACTCTTTT
35290086 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
35290104 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
35290122 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
35290136 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:35290141 original size:24 final size:24
Alignment explanation
Indices: 35290061--35290138 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
35290051 CTTGTTCACA
*
35290061 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
35290085 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
35290109 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
35290133 TTCTTT
1 TTCTTT
35290139 TTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:35300502 original size:30 final size:30
Alignment explanation
Indices: 35300468--35300564 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35300458 TAAACTAAAA
*
35300468 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
35300498 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35300528 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35300557 ATGAGCTA
1 -TGAGCTA
35300565 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:35302759 original size:12 final size:12
Alignment explanation
Indices: 35302744--35302774 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35302734 TTCTTTTTGC
35302744 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35302756 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35302768 TTTTCAA
1 TTTTCAA
35302775 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:35302851 original size:6 final size:6
Alignment explanation
Indices: 35302835--35302884 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
35302825 TTTCTTTTTA
*
35302835 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
35302884 T
1 T
35302885 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:35302867 original size:37 final size:37
Alignment explanation
Indices: 35302824--35302894 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
35302814 CTTGCCTCTC
35302824 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
35302861 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
35302895 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:35302895 original size:16 final size:16
Alignment explanation
Indices: 35302820--35302880 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
35302810 GCCTCTTGCC
*
35302820 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
35302836 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
35302852 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
35302868 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
35302881 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:35303825 original size:12 final size:11
Alignment explanation
Indices: 35303810--35303839 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
35303800 TTTAACTCGA
35303810 TTTTTTTTTCAC
1 TTTTTTTTTC-C
35303822 TTTTTTTTTCC
1 TTTTTTTTTCC
35303833 TTTTTTT
1 TTTTTTT
35303840 CGATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:35303846 original size:19 final size:19
Alignment explanation
Indices: 35303824--35303878 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
35303814 TTTTTCACTT
35303824 TTTTTTTCCTTTTTTTCGA
1 TTTTTTTCCTTTTTTTCGA
** *
35303843 TTTTTTTTATTTTTTTTGA
1 TTTTTTTCCTTTTTTTCGA
* *
35303862 ATTTCTTCTCTTTTTTT
1 TTTTTTTC-CTTTTTTT
35303879 TAAATCCAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTTTCCTTTTTTTCGA
Found at i:35303865 original size:20 final size:19
Alignment explanation
Indices: 35303823--35303879 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
35303813 TTTTTTCACT
*
35303823 TTTTTTTTCCTTTTTTTCGA
1 TTTTTTTT-CTTTTTTTTGA
*
35303843 TTTTTTTTATTTTTTTTGAA
1 TTTTTTTTCTTTTTTTTG-A
* *
35303863 TTTCTTCTCTTTTTTTT
1 TTTTTTTTCTTTTTTTT
35303880 AAATCCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTTGA
Found at i:35305615 original size:30 final size:30
Alignment explanation
Indices: 35305581--35305677 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35305571 TAAACTAAAA
*
35305581 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
35305611 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35305641 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35305670 ATGAGCTA
1 -TGAGCTA
35305678 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:35306353 original size:15 final size:15
Alignment explanation
Indices: 35306333--35306380 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
35306323 TTAAAGATGG
35306333 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
35306348 GTTTATGTAGATGCA
1 GTTTATGGATATGAA
*
35306363 -TTTATGGATATAAA
1 GTTTATGGATATGAA
35306377 GTTT
1 GTTT
35306381 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:35308602 original size:20 final size:21
Alignment explanation
Indices: 35308554--35308602 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
35308544 TTAGCTCGTT
* *
35308554 TCCAGCTCACTCGAGCTTAAG
1 TCCAGCTCACTCAAGCTCAAG
35308575 TCCA-CTCACTCAAGCTCAA-
1 TCCAGCTCACTCAAGCTCAAG
*
35308594 TTCAGCTCA
1 TCCAGCTCA
35308603 ATCTTAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (21 bp):
TCCAGCTCACTCAAGCTCAAG
Found at i:35310091 original size:12 final size:12
Alignment explanation
Indices: 35310074--35310141 Score: 75
Period size: 12 Copynumber: 5.5 Consensus size: 12
35310064 TTGGAGTAAC
35310074 AAAAAAATTCAA
1 AAAAAAATTCAA
35310086 AAAAAAATTCAA
1 AAAAAAATTCAA
*
35310098 AAAAAATTGATT-GA
1 AAAAAA---ATTCAA
35310112 AAAAAAATTCAA
1 AAAAAAATTCAA
* *
35310124 AAAAAAAGTGAA
1 AAAAAAATTCAA
35310136 AAAAAA
1 AAAAAA
35310142 TCGAGCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 3 0.06
12 35 0.73
14 7 0.15
15 3 0.06
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Done.