Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 147 of 433
Found at i:45651326 original size:50 final size:50
Alignment explanation
Indices: 45651251--45651355 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
45651241 GAATATCAAT
*
45651251 GAATGAATAAAATTTTTAAAAAGTCATATTGAAGTTATTTTCTATTGACC
1 GAATGAATAAAATTTTTAAAAAGTCATATTGAAGTTATTTTCTATTGACA
45651301 GAATGAATAAAATTTTTAAAAAGTCATATTGAAGTTATTTTCTATTGACA
1 GAATGAATAAAATTTTTAAAAAGTCATATTGAAGTTATTTTCTATTGACA
45651351 GAATG
1 GAATG
45651356 TTGGCTAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (50 bp):
GAATGAATAAAATTTTTAAAAAGTCATATTGAAGTTATTTTCTATTGACA
Found at i:45657484 original size:28 final size:28
Alignment explanation
Indices: 45657452--45657516 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
45657442 ATTTACTAAA
*
45657452 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
45657480 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
45657508 ATACCCCTA
1 ATACCCCTA
45657517 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:45657665 original size:28 final size:27
Alignment explanation
Indices: 45657632--45657701 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
45657622 CTGGTGGCTA
*
45657632 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAA-TATCTGTTCTAGTGGCAC
* *
45657660 TGCCACATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTAGTGGCAC
45657687 TGCCACAAAATATCT
1 TGCCAC-AAATATCT
45657702 ATATCTGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTAGTGGCAC
Found at i:45657683 original size:27 final size:27
Alignment explanation
Indices: 45657622--45657711 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
45657612 AGGAAGCGTC
45657622 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
45657650 CTAGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
45657677 CTGGTGGCACTGCCACAAAATATCTATAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
45657706 CTGGTG
1 CTGGTG
45657712 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:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:45657722 original size:29 final size:28
Alignment explanation
Indices: 45657632--45657722 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
45657622 CTGGTGGCTA
* * * * *
45657632 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTATTCTGGTGACAC
* * *
45657660 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTATTCTGGTGACAC
*
45657687 TGCCACAAAATATCTATATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
45657716 TGTCACA
1 TGCCACA
45657723 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:45657730 original size:55 final size:56
Alignment explanation
Indices: 45657622--45657736 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
45657612 AGGAAGCGTC
* * *
45657622 CTGGTGGCTATGCCACAAATTATCTGTTCTAGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTAGTGACCCTGCCACATATATCTGTAT
* * * *
45657677 CTGGTGGC-ACTGCCACAAAATATCTATATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTAGTGACCCTGCCACATATATCTGTAT
45657733 CTGG
1 CTGG
45657737 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTAGTGACCCTGCCACATATATCTGTAT
Found at i:45658199 original size:19 final size:19
Alignment explanation
Indices: 45658175--45658213 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45658165 TTTTAATTAT
* *
45658175 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
45658194 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
45658213 T
1 T
45658214 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:45659600 original size:27 final size:27
Alignment explanation
Indices: 45659570--45659882 Score: 382
Period size: 27 Copynumber: 11.6 Consensus size: 27
45659560 AAAGTACTCC
*
45659570 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
45659597 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
45659624 CGATTTTA-A-AATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
45659650 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
45659677 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
45659704 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
45659731 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
45659758 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
45659785 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
45659812 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
45659839 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
45659866 CGATTTACAAAATTACC
1 CGATTTACAGAATTACC
45659883 AAAATACCCA
Statistics
Matches: 246, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
25 3 0.01
26 22 0.09
27 215 0.87
28 6 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:45659918 original size:81 final size:81
Alignment explanation
Indices: 45659551--45659918 Score: 206
Period size: 81 Copynumber: 4.6 Consensus size: 81
45659541 CTCGACTTGT
* * * * *** *
45659551 AAAATTACCAAAGTACTCC-CGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCG
1 AAAATTACCAAAATAC-CCATGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCG
*
45659615 TTTTACCCTCGATTT-T
65 TTTTACCCTCGATTTAC
**** ** ***** * **
45659631 AAAATTACCGTTTTACCC-TCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTA
1 AAAATTACCAAAATACCCAT-GATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCG
*
45659695 TTTTACCCTCGACTTAC
65 TTTTACCCTCGATTTAC
* **** * * **** *
45659712 AGAATTACCGTTTTACCC-TCAGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCG
1 AAAATTACCAAAATACCCATGA-TTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCG
**
45659776 TTTTACCCTCGATTTGT
65 TTTTACCCTCGATTTAC
* *** * * **** *
45659793 AAAATTACTATTTTACCCTTGATTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCG
1 AAAATTACCAAAATACCCATGATTTACAAAATTACTAAAATACCCTCGA-TTTACAAAATTACCG
45659857 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
* *
45659874 AAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCC
1 AAAATTACCAAAATACCCATGATTTACAAAATTACTAAAATACCC
45659919 CTGTAGGGTA
Statistics
Matches: 236, Mismatches: 47, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
79 2 0.01
80 64 0.27
81 168 0.71
82 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCATGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:45659931 original size:27 final size:27
Alignment explanation
Indices: 45659874--45659964 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
45659864 CTCGATTTAC
* ** *
45659874 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCAAAATACCCCT-GTAAGGT
* *
45659901 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAAGGT
*
45659928 AAAATTACCGAAATACCCCTGTAAGGT
1 AAAATTACCAAAATACCCCTGTAAGGT
*
45659955 AGAATTACCA
1 AAAATTACCA
45659965 TTTTGCCCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAAGGT
Found at i:45661896 original size:156 final size:157
Alignment explanation
Indices: 45661611--45661923 Score: 459
Period size: 156 Copynumber: 2.0 Consensus size: 157
45661601 GTTTCCTACC
* * * * **
45661611 TGGTGCACGGCTTCCGTTCACTTTAACCTACTTTTAAAAGTGTCTTTTACAATCACCAACTAAGA
1 TGGTGCACAGCTTCCATTCACCTTAACCTACTTTAAAAAGCATCTTTTACAATCACCAACTAAGA
* * *
45661676 TTTTCCAACTAAGTAATACGGAATGTTTTGAACGCTTCGATGTGGCGCACCAGATCCGGTCATAA
66 TTTTCCAACTAAGTAAAACGGAACGTTTTGAACGCATCGATGTGGCGCACCAGATCCGGTCATAA
*
45661741 CGTCTAGGTCGGGTTTGGGGTGTTACA
131 CGTCTAGGCCGGGTTTGGGGTGTTACA
* * *
45661768 TGGTGCACAGCTTCTATTCACCTTAACCTGCTTTAAAAAGCATCTTTTACAA-CCCCAACTAAG-
1 TGGTGCACAGCTTCCATTCACCTTAACCTACTTTAAAAAGCATCTTTTACAATCACCAACTAAGA
* **
45661831 TTTTCCAAACTAAGTAAAACGGAACGTTTTGAACGCATCGATGTGGCGCACCGGATTTGGTCATA
66 TTTTCC-AACTAAGTAAAACGGAACGTTTTGAACGCATCGATGTGGCGCACCAGATCCGGTCATA
45661896 ACGTCTAGGCCGGGTTTGGGGTGTTACA
130 ACGTCTAGGCCGGGTTTGGGGTGTTACA
45661924 CAGAGGATGC
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
155 6 0.04
156 89 0.64
157 44 0.32
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (157 bp):
TGGTGCACAGCTTCCATTCACCTTAACCTACTTTAAAAAGCATCTTTTACAATCACCAACTAAGA
TTTTCCAACTAAGTAAAACGGAACGTTTTGAACGCATCGATGTGGCGCACCAGATCCGGTCATAA
CGTCTAGGCCGGGTTTGGGGTGTTACA
Found at i:45664164 original size:14 final size:15
Alignment explanation
Indices: 45664147--45664176 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
45664137 TGACATGAGA
45664147 TAAGTATATT-TTGG
1 TAAGTATATTCTTGG
45664161 TAAGTATATTCTTGG
1 TAAGTATATTCTTGG
45664176 T
1 T
45664177 CTATATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (15 bp):
TAAGTATATTCTTGG
Found at i:45670272 original size:33 final size:33
Alignment explanation
Indices: 45670235--45670301 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
45670225 CGCCCGTGTG
45670235 TTAGGCCGTGTCCTCCACATTGCTGAGACACAC
1 TTAGGCCGTGTCCTCCACATTGCTGAGACACAC
45670268 TTAGGCCGTGTCCTCCACATTGCTGAGACACAC
1 TTAGGCCGTGTCCTCCACATTGCTGAGACACAC
45670301 T
1 T
45670302 ACCATGTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (33 bp):
TTAGGCCGTGTCCTCCACATTGCTGAGACACAC
Found at i:45672197 original size:30 final size:30
Alignment explanation
Indices: 45672163--45672226 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
45672153 ATTTGTCCAT
*
45672163 TTATATGTTTTTGGACTAAATTGTGTGAAA
1 TTATATGTTTTTGGACTAAATTGAGTGAAA
45672193 TTATATGTTTTTGGACTAAATTGAGTGAAA
1 TTATATGTTTTTGGACTAAATTGAGTGAAA
45672223 TTAT
1 TTAT
45672227 GTTTGAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (30 bp):
TTATATGTTTTTGGACTAAATTGAGTGAAA
Found at i:45672725 original size:43 final size:42
Alignment explanation
Indices: 45672570--45672723 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
45672560 GTGGTCTCAA
* * * *
45672570 GTAAGACCACGCCTGGGACGTTGCCATCGCTATGTGATTACAT
1 GTAAGACCACGTCTGGGACGTTGGCATCG-TATATGATTGCAT
* * * *
45672613 TTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTG--T
1 GTAAGACCACGTCTGGGACGTTGGCATCGTATATGA-TTGCAT
* *
45672654 GTAAGACC-CTGTCTAGGACAG-TGGCATTGATATATGATTGCAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATATGATTGCAT
45672697 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
45672724 TGTACGATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 26 0.29
42 13 0.15
43 49 0.55
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGTATATGATTGCAT
Found at i:45675096 original size:184 final size:184
Alignment explanation
Indices: 45674787--45675140 Score: 654
Period size: 184 Copynumber: 1.9 Consensus size: 184
45674777 TGGATCCTGA
* *
45674787 TGTCGAGAGTATAGCGCCTACTCCCACACAAGGGGCAGCACCGGTTAATTCTCGACCAGCTTTGA
1 TGTCGAGAGTATAGCGCCTACTCCCACACAAGGGGCAGCACCGGTTAATTCTCAACCAACTTTGA
45674852 GTAACCAAGAGGGAGAGGCTAAACAAGCATTTTACTAAATGAAGAATGACTAGTTTATTCAGTAT
66 GTAACCAAGAGGGAGAGGCTAAACAAGCATTTTACTAAATGAAGAATGACTAGTTTATTCAGTAT
*
45674917 ATCCGGACGAATCTGGCTACACAACAACTTACACCCCCGAGCCGTAGCTCATGT
131 ATCCGGACGAATCTGGCTACACAACAACCTACACCCCCGAGCCGTAGCTCATGT
* *
45674971 TGTCGAGAGTATAGCGCCTGCTCCCGCACAAGGGGCAGCACCGGTTAATTCTCAACCAACTTTGA
1 TGTCGAGAGTATAGCGCCTACTCCCACACAAGGGGCAGCACCGGTTAATTCTCAACCAACTTTGA
*
45675036 GTAACCAAGAGGGAGAGGCTAAACAAGCATTTTACTAAATGATGAATGACTAGTTTATTCAGTAT
66 GTAACCAAGAGGGAGAGGCTAAACAAGCATTTTACTAAATGAAGAATGACTAGTTTATTCAGTAT
45675101 ATCCGGACGAATCTGGCTACACAACAACCTACACCCCCGA
131 ATCCGGACGAATCTGGCTACACAACAACCTACACCCCCGA
45675141 CTAATCCTTC
Statistics
Matches: 164, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 164 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (184 bp):
TGTCGAGAGTATAGCGCCTACTCCCACACAAGGGGCAGCACCGGTTAATTCTCAACCAACTTTGA
GTAACCAAGAGGGAGAGGCTAAACAAGCATTTTACTAAATGAAGAATGACTAGTTTATTCAGTAT
ATCCGGACGAATCTGGCTACACAACAACCTACACCCCCGAGCCGTAGCTCATGT
Found at i:45677495 original size:53 final size:54
Alignment explanation
Indices: 45677287--45677494 Score: 231
Period size: 55 Copynumber: 3.9 Consensus size: 54
45677277 TTGGTAAGAT
* *
45677287 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * * *
45677341 AAGAAAATCATGTAAGACCATGTCAAAACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
45677396 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
45677449 AAGGATACCACGTAACACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
45677495 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 40 0.31
55 42 0.32
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:45688261 original size:41 final size:42
Alignment explanation
Indices: 45688152--45688263 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 42
45688142 GTGTCTTCAA
* *
45688152 GTAAGACCATGTTTGGGGCATCGGCATCGATATTTGATTATGT
1 GTAAGACCATGTCTGGGACAT-GGCATCGATATTTGATTATGT
* * * *
45688195 TTAAGACCATGTCTAGTAAATTGGCATCG-TATTTGATT-TGT
1 GTAAGACCATGTCTGGGACA-TGGCATCGATATTTGATTATGT
*
45688236 GTAAGACCTTGTCTGGGACAGTGGCATC
1 GTAAGACCATGTCTGGGACA-TGGCATC
45688264 AATTTGTGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
41 25 0.45
42 9 0.16
43 21 0.38
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATGGCATCGATATTTGATTATGT
Found at i:45689661 original size:32 final size:32
Alignment explanation
Indices: 45689620--45689685 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
45689610 GTTTGATACT
45689620 TAGTTAATAAGATTATGTACTTATATATTTTC
1 TAGTTAATAAGATTATGTACTTATATATTTTC
45689652 TAGTTAATAAGATTATGTACTTATATATTTTC
1 TAGTTAATAAGATTATGTACTTATATATTTTC
45689684 TA
1 TA
45689686 TATATGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (32 bp):
TAGTTAATAAGATTATGTACTTATATATTTTC
Found at i:45690024 original size:48 final size:48
Alignment explanation
Indices: 45689953--45690129 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 48
45689943 CAGTCTCAAT
* *
45689953 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTTCATATCATG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATG
* * *
45690001 GCCGATG-CATCGTCCCAAACATGGTCTTACACTAGCTCTCGT-TACATT
1 GCCGATGCCAT-GTCCCAAACATGGTCTTACACTGGCTCTCATAT-CATG
* * * **
45690049 GCCGATGCCATGTTCCAGACATGGTCTTGCACTGGCTCTCATATTGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATG
* *
45690097 GCCAATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
45690130 AGCACACATG
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
47 4 0.04
48 101 0.93
49 4 0.04
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATG
Found at i:45690119 original size:96 final size:96
Alignment explanation
Indices: 45689952--45690132 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
45689942 ACAGTCTCAA
* *
45689952 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTTCATATCATGGCCGATGCATCGTCCC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCATCGTCCC
45690017 AAACATGGTCTTACACTAGCTCTCGTTACAT
66 AAACATGGTCTTACACTAGCTCTCGTTACAT
* * **
45690048 TGCCGATGCCATGTTCCAGACATGGTCTTGCACTGGCTCTCATATTGTGGCCAATGCCAT-GTCC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATG-CATCGTCC
*
45690112 CAGACATGGTCTTACACTAGC
65 CAAACATGGTCTTACACTAGC
45690133 ACACATGTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 74 0.96
97 3 0.04
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCATCGTCCC
AAACATGGTCTTACACTAGCTCTCGTTACAT
Found at i:45694547 original size:13 final size:13
Alignment explanation
Indices: 45694529--45694553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45694519 GGACACTGCC
45694529 GTGTGCCACGCCT
1 GTGTGCCACGCCT
45694542 GTGTGCCACGCC
1 GTGTGCCACGCC
45694554 CGTATGCAAG
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:0.40, G:0.32, T:0.20
Consensus pattern (13 bp):
GTGTGCCACGCCT
Found at i:45702441 original size:55 final size:55
Alignment explanation
Indices: 45702318--45702455 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 55
45702308 TGTGGCATGG
* **
45702318 CCGTGGGTGAACCTACCAAAACAACACGGACGTGTGACACGCCCGTGCCTTCAAA
1 CCGTGGGTGAACCTACCAAAACAACACGGACGTGCGACACGCCCGTGCCAACAAA
* * * ** * * *
45702373 CCGTGGCTAAACCTATCAAATTAACACGGGCGTGCGACATGCCCGTGCCAACCAA
1 CCGTGGGTGAACCTACCAAAACAACACGGACGTGCGACACGCCCGTGCCAACAAA
*
45702428 CCGTGGGTGAACCTGCCAAAACAACACG
1 CCGTGGGTGAACCTACCAAAACAACACG
45702456 AGCGTGGACC
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.30, C:0.33, G:0.23, T:0.14
Consensus pattern (55 bp):
CCGTGGGTGAACCTACCAAAACAACACGGACGTGCGACACGCCCGTGCCAACAAA
Found at i:45709715 original size:79 final size:81
Alignment explanation
Indices: 45709606--45709788 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
45709596 TACTCGTTCA
* * *
45709606 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCGG
* *
45709669 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
45709686 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGA
*
45709749 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
45709765 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
45709789 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:45709788 original size:40 final size:40
Alignment explanation
Indices: 45709585--45709788 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
45709575 CGGAATTTAA
** *
45709585 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45709625 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45709665 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45709704 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
45709744 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45709784 CCGGA
1 CCGGA
45709789 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 95 0.68
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45712877 original size:24 final size:24
Alignment explanation
Indices: 45712827--45712880 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
45712817 AATCGAATTT
*
45712827 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
45712851 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
45712875 GCACAC
1 GCACAC
45712881 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:45718539 original size:65 final size:65
Alignment explanation
Indices: 45718430--45718561 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
45718420 AAAGGATAAT
45718430 AAGATTCGTCATAGGGTTCATCTCCCTTAGGTATTTAGGAAGTTTAGTTCATAATAATAATGGAA
1 AAGATTCGTCATAGGGTTCATCTCCCTTAGGTATTTAGGAAGTTTAGTTCATAATAATAATGGAA
*
45718495 AAGATTCGTCATAGGGTTCATCTCCCTTAGGTATTTAGGGAGTTTAGTTCATAATAATAATGGAA
1 AAGATTCGTCATAGGGTTCATCTCCCTTAGGTATTTAGGAAGTTTAGTTCATAATAATAATGGAA
45718560 AA
1 AA
45718562 CATCTCAAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (65 bp):
AAGATTCGTCATAGGGTTCATCTCCCTTAGGTATTTAGGAAGTTTAGTTCATAATAATAATGGAA
Found at i:45718936 original size:30 final size:30
Alignment explanation
Indices: 45718895--45718969 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
45718885 ACGGCCATGA
* * *
45718895 CACAAGGGCGTGTGGTCTACCCGTGTGCCT
1 CACACGGGCGTGTGGTCTACCCATATGCCT
*
45718925 TACACGGGCGTGTGGTCTACCCATATGCCT
1 CACACGGGCGTGTGGTCTACCCATATGCCT
*
45718955 CACACGGGCATGTGG
1 CACACGGGCGTGTGG
45718970 ATTGCCCATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.16, C:0.29, G:0.32, T:0.23
Consensus pattern (30 bp):
CACACGGGCGTGTGGTCTACCCATATGCCT
Found at i:45726751 original size:14 final size:14
Alignment explanation
Indices: 45726732--45726771 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45726722 CTAAATACAA
*
45726732 AAATTAATGAATTT
1 AAATTAATAAATTT
45726746 AAATTAA-AAATTT
1 AAATTAATAAATTT
*
45726759 AAAATAATAAATT
1 AAATTAATAAATT
45726772 AATAACACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
AAATTAATAAATTT
Found at i:45731876 original size:16 final size:16
Alignment explanation
Indices: 45731855--45731885 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45731845 AAACGAGGAA
45731855 GACCTTGCAACAGAAG
1 GACCTTGCAACAGAAG
*
45731871 GACCTTGCAATAGAA
1 GACCTTGCAACAGAA
45731886 AAGAAAGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (16 bp):
GACCTTGCAACAGAAG
Found at i:45733184 original size:2 final size:2
Alignment explanation
Indices: 45733177--45733204 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45733167 CGGCTCTAGC
45733177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45733205 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45734133 original size:40 final size:40
Alignment explanation
Indices: 45734078--45734285 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
45734068 TGAATGATAC
* *
45734078 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
45734118 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
45734158 CCGGGCTAAGACTCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
45734198 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
45734238 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
45734278 CC-GGCTAA
1 CCGGGCTAA
45734286 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:45735938 original size:22 final size:22
Alignment explanation
Indices: 45735903--45735962 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
45735893 TTAAATATTA
* *
45735903 AATTTTTTAGTTTTTTATCTTTT
1 AATTTTTAAATTTTTTAT-TTTT
45735926 -ATTTTTAAATTTTTTATTTTT
1 AATTTTTAAATTTTTTATTTTT
*
45735947 AAATTTTAAATTTTTT
1 AATTTTTAAATTTTTT
45735963 TGAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
AATTTTTAAATTTTTTATTTTT
Found at i:45735951 original size:15 final size:15
Alignment explanation
Indices: 45735900--45735953 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
45735890 ATATTAAATA
45735900 TTAAATTTTTTAGTTT
1 TTAAATTTTTTA-TTT
* *
45735916 TT-TATCTTTTATTT
1 TTAAATTTTTTATTT
45735930 TTAAATTTTTTATTT
1 TTAAATTTTTTATTT
45735945 TTAAATTTT
1 TTAAATTTT
45735954 AAATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 5 0.15
15 26 0.79
16 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (15 bp):
TTAAATTTTTTATTT
Found at i:45735952 original size:8 final size:8
Alignment explanation
Indices: 45735926--45735987 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 8
45735916 TTTATCTTTT
45735926 ATTTTTAA
1 ATTTTTAA
*
45735934 ATTTTT-T
1 ATTTTTAA
45735941 ATTTTTAA
1 ATTTTTAA
45735949 A-TTTTAA
1 ATTTTTAA
45735956 ATTTTTTTGAA
1 A--TTTTT-AA
45735967 TATTTTTATA
1 -ATTTTTA-A
45735977 ATTTTTAA
1 ATTTTTAA
45735985 ATT
1 ATT
45735988 AACATATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
7 13 0.29
8 11 0.24
9 8 0.18
10 10 0.22
11 2 0.04
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:45735959 original size:15 final size:15
Alignment explanation
Indices: 45735926--45735961 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45735916 TTTATCTTTT
**
45735926 ATTTTTAAATTTTTT
1 ATTTTTAAATTTTAA
45735941 ATTTTTAAATTTTAA
1 ATTTTTAAATTTTAA
45735956 ATTTTT
1 ATTTTT
45735962 TTGAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTAAATTTTAA
Found at i:45736755 original size:21 final size:22
Alignment explanation
Indices: 45736731--45736794 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
45736721 AAACCTAACA
*
45736731 CTTAACCCCTAA-CCCTTAAAC
1 CTTAAACCCTAAGCCCTTAAAC
45736752 CTTAAACCC-AAGCCCTTAAAC
1 CTTAAACCCTAAGCCCTTAAAC
* *
45736773 CTTAAACCATAATCCC-TAAAC
1 CTTAAACCCTAAGCCCTTAAAC
45736794 C
1 C
45736795 CATAATCCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 31 0.82
22 5 0.13
ACGTcount: A:0.38, C:0.39, G:0.02, T:0.22
Consensus pattern (22 bp):
CTTAAACCCTAAGCCCTTAAAC
Found at i:45736857 original size:14 final size:14
Alignment explanation
Indices: 45736833--45736877 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
45736823 TCATACACTT
*
45736833 TAAATCCTAAACTA
1 TAAACCCTAAACTA
* *
45736847 TATACCCTAAACCA
1 TAAACCCTAAACTA
45736861 TAAACCCTAAACTA
1 TAAACCCTAAACTA
45736875 TAA
1 TAA
45736878 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:45736983 original size:7 final size:7
Alignment explanation
Indices: 45736971--45737091 Score: 57
Period size: 7 Copynumber: 17.0 Consensus size: 7
45736961 ACTAATTAAT
45736971 CTAAACC
1 CTAAACC
45736978 CTAAACTC
1 CTAAAC-C
* *
45736986 TTAATCC
1 CTAAACC
45736993 CTAAACC
1 CTAAACC
* *
45737000 ATGAACC
1 CTAAACC
* *
45737007 ATAAATC
1 CTAAACC
*
45737014 CTAAAAC
1 CTAAACC
*
45737021 ATAAACC
1 CTAAACC
45737028 CTAAACC
1 CTAAACC
* *
45737035 ATGAACC
1 CTAAACC
45737042 ACT-AACC
1 -CTAAACC
*
45737049 CTTAACC
1 CTAAACC
**
45737056 CCCAACAC
1 CTAAAC-C
45737064 CTAAACC
1 CTAAACC
*
45737071 TTAAACC
1 CTAAACC
*
45737078 C-CAACC
1 CTAAACC
45737084 CTTAAACC
1 C-TAAACC
45737092 ACCCTTAAAC
Statistics
Matches: 84, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
6 7 0.08
7 62 0.74
8 15 0.18
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:45737067 original size:21 final size:21
Alignment explanation
Indices: 45737043--45737091 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
45737033 CCATGAACCA
* *
45737043 CTAACCCTTAACCCCCAACAC
1 CTAAACCTTAAACCCCAACAC
45737064 CTAAACCTTAAACCCCAAC-C
1 CTAAACCTTAAACCCCAACAC
45737084 CTTAAACC
1 C-TAAACC
45737092 ACCCTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (21 bp):
CTAAACCTTAAACCCCAACAC
Found at i:45737114 original size:25 final size:25
Alignment explanation
Indices: 45737069--45737116 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
45737059 AACACCTAAA
*
45737069 CCTTAAACCCCAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
45737094 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
45737117 CATAATCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:45737119 original size:15 final size:15
Alignment explanation
Indices: 45737097--45737131 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45737087 AAACCACCCT
*
45737097 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
45737111 TAAACCCATAATCCA
1 TAAACCCATAATCCA
45737126 TAAACC
1 TAAACC
45737132 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:45737136 original size:22 final size:22
Alignment explanation
Indices: 45737092--45737136 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45737082 CCCTTAAACC
* *
45737092 ACCCTTAAACCATAATCCCTAA
1 ACCCATAAACCATAAACCCTAA
* *
45737114 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCCTAA
45737136 A
1 A
45737137 ATAGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCATAAACCATAAACCCTAA
Found at i:45739502 original size:40 final size:40
Alignment explanation
Indices: 45739419--45739503 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
45739409 TCGAATGATG
* * *
45739419 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCTTCGTGCTAAGTGACTAAA
* *
45739459 TCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGC-TTCGTGCTAAGTGACTAAA
45739499 TCCGG
1 TCCGG
45739504 GTTGTAACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
40 31 0.82
41 7 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCTTCGTGCTAAGTGACTAAA
Found at i:45741002 original size:29 final size:28
Alignment explanation
Indices: 45740968--45741070 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
45740958 TACTCAATCA
*
45740968 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
45740997 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
45741026 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
45741055 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
45741071 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:45742767 original size:40 final size:39
Alignment explanation
Indices: 45742711--45742814 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 39
45742701 GGCTGTCACA
45742711 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA-C
45742751 CGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGTTAAGTC-CGAAGGCATTTGTGCGAGTTACTATAAC
* *
45742791 CGGGCTATGTGCCGAAGGCATTTG
1 CGGGTTAAGT-CCGAAGGCATTTG
45742815 AACGAGTAGC
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
39 1 0.02
40 55 0.93
41 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (39 bp):
CGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:45746382 original size:27 final size:27
Alignment explanation
Indices: 45746314--45746371 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
45746304 GACTCTAACA
45746314 CATTTTCAATCAATTTCAGAATTATGG
1 CATTTTCAATCAATTTCAGAATTATGG
45746341 CATTTTCAATCAATTTCAGAATTATGG
1 CATTTTCAATCAATTTCAGAATTATGG
45746368 -ATTT
1 CATTT
45746372 CACATTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (27 bp):
CATTTTCAATCAATTTCAGAATTATGG
Found at i:45747383 original size:27 final size:28
Alignment explanation
Indices: 45747353--45747409 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
45747343 ATTTTTGATG
45747353 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
45747380 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
45747409 A
1 A
45747410 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:45747891 original size:44 final size:43
Alignment explanation
Indices: 45747828--45747978 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 43
45747818 CTTAATTATC
*
45747828 GTGTAAGACCGTATCTGGGACACAAGCATCGATTTGAAATTTAA
1 GTGTAAGACCATATCTGGGACACAAGCATCGATTTG-AATTTAA
* * **
45747872 GTGTAAGACCATGTCTGGGACATC-AGCATCGTATCT--ATTTTC
1 GTGTAAGACCATATCTGGGACA-CAAGCATCG-ATTTGAATTTAA
* * * * *
45747914 GTATAAGACCTTGTCTGGGACAGAGGCATCGATATTGAA-TTACA
1 GTGTAAGACCATATCTGGGACACAAGCATCGAT-TTGAATTTA-A
45747958 -TGTAAGACCATATCTGGGACA
1 GTGTAAGACCATATCTGGGACA
45747979 TCGGCATTGT
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 31 0.36
43 20 0.24
44 28 0.33
45 4 0.05
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACACAAGCATCGATTTGAATTTAA
Found at i:45751203 original size:40 final size:39
Alignment explanation
Indices: 45751038--45751221 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
45751028 AAATTGAATG
* * *
45751038 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
45751078 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
45751118 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
45751158 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
45751197 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
45751222 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:45751246 original size:80 final size:81
Alignment explanation
Indices: 45751078--45751266 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
45751068 GCTGGAAATT
* * * *
45751078 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
45751143 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
45751159 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
45751222 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
45751238 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
45751267 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:45759319 original size:40 final size:39
Alignment explanation
Indices: 45759155--45759337 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
45759145 AAATTGAATG
* *
45759155 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
45759194 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
45759234 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
45759274 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
45759313 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
45759338 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:45759320 original size:80 final size:80
Alignment explanation
Indices: 45759198--45759346 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
45759188 GAAATTATAA
* * * *
45759198 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
45759263 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
45759278 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
45759342 GTGCG
65 GTGCG
45759347 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:45759362 original size:80 final size:81
Alignment explanation
Indices: 45759194--45759365 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
45759184 GCTGGAAATT
* * * *
45759194 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
45759259 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
45759275 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
45759338 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
45759354 ATAACCGGGCTA
1 ATAACCGGGCTA
45759366 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:45761003 original size:13 final size:13
Alignment explanation
Indices: 45760985--45761009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45760975 CGCTGAGGTA
45760985 TTTTCAATTTCTT
1 TTTTCAATTTCTT
45760998 TTTTCAATTTCT
1 TTTTCAATTTCT
45761010 GTCATAAAAA
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:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTCAATTTCTT
Found at i:45761189 original size:86 final size:85
Alignment explanation
Indices: 45761090--45762103 Score: 674
Period size: 72 Copynumber: 12.9 Consensus size: 85
45761080 GTTCATCAAA
* *
45761090 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGA-GTATTTCCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTT-CAATTT
45761154 CTGTTTTCAATTTCTGTTCGTC
65 CTGTTTTCAATTTCT-TTCGTC
* * *
45761176 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGTTGAGGTAATTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGT-ATTTCAATTT
***
45761239 CTG--TTC-A------TCAAA
65 CTGTTTTCAATTTCTTTCGTC
*
45761251 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTA-TTTCAATTT
45761316 CTGTTTTTCAATTTCTATTCGTC
65 CTG-TTTTCAATTTCT-TTCGTC
**
45761339 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA-TTTGAGGTAATTTCAA-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTCAATT
45761399 TCTGTTTTC-A-----------
64 TCTGTTTTCAATTTCTTTCGTC
*
45761409 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTCAATT
45761471 TCTGTTTTC-A-----------
64 TCTGTTTTCAATTTCTTTCGTC
* ** *
45761481 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGTA-TTTCAATT
*
45761543 TCTGTTTTCAA----------A
64 TCTGTTTTCAATTTCTTTCGTC
* * * *
45761555 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATT-TCAATTT
***
45761620 CTGTCTTTCAA--------AAA
65 CTGT-TTTCAATTTCTTTCGTC
* * *
45761634 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGTTGA-GTAATTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGT-ATTTCAATTT
***
45761696 CTG--TTC-A------TCAAA
65 CTGTTTTCAATTTCTTTCGTC
* * *
45761708 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTA-TTTCAATTT
45761773 CTGTTTTTCAATTTCTGTTCGTC
65 CTG-TTTTCAATTTCT-TTCGTC
* * *
45761796 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGTTGAGGTAATTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGT-ATTTCAATTT
***
45761859 CTG--TTC-A------TCAAA
65 CTGTTTTCAATTTCTTTCGTC
*
45761871 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTA-TTTCAATTT
45761936 CTGTTTTTCAATTTCTGTTCGTC
65 CTG-TTTTCAATTTCT-TTCGTC
*
45761959 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTCAATT
45762021 TCTGTTTTC-A-----------
64 TCTGTTTTCAATTTCTTTCGTC
*
45762031 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTCAATT
45762093 TCTGTTTTCAA
64 TCTGTTTTCAA
45762104 AATTCAACTC
Statistics
Matches: 800, Mismatches: 62, Indels: 145
0.79 0.06 0.14
Matches are distributed among these distances:
70 43 0.05
71 16 0.02
72 149 0.19
73 6 0.01
74 73 0.09
75 82 0.10
76 43 0.05
77 73 0.09
79 38 0.05
80 9 0.01
81 3 0.00
82 3 0.00
83 11 0.01
84 13 0.02
85 27 0.03
86 90 0.11
87 2 0.00
88 115 0.14
89 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (85 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTCAATTTC
TGTTTTCAATTTCTTTCGTC
Found at i:45761515 original size:72 final size:72
Alignment explanation
Indices: 45761321--45762212 Score: 773
Period size: 72 Copynumber: 11.8 Consensus size: 72
45761311 AATTTCTGTT
* * *
45761321 TTTCAATTTCTATTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA-TT
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
45761384 TGAGGTAA
65 TGAGGTAA
45761392 TTTCAA-TTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
45761456 GAGGTAA
66 GAGGTAA
* **
45761463 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
45761528 GAGGTAT
66 GAGGTAA
* *
45761535 TTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 TTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
45761599 ATGCTGAGGT-A
61 ACGTTGAGGTAA
*
45761610 TTCTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TT-TCAATTTCTGT-TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
45761675 CACGTTGA-GTAA
60 CACGTTGAGGTAA
* * * *
45761687 TTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCA
1 TTTCAATTTCTGTT-TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---A
* * *
45761751 CGCGCTGAGGTAT
60 CACGTTGAGGTAA
*** * * * * *
45761764 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATAT-TGCGAGAG-GTGAGTTG
1 TTTCAATTTCTG-TTTTCAA-------AAATC-AACTC-A-T-AT-TGCGAGAG-GTGAG-TT-G
*
45761827 AGCCTCAGGACACGTTGAGGTAA
50 AGCCTCAAGACACGTTGAGGTAA
* * *
45761850 TTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCA
1 TTTCAATTTCTGTT-TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---A
* *
45761914 CACGCTGAGGTAT
60 CACGTTGAGGTAA
*** * * * * *
45761927 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATAT-TGCGAGAG-GTGAGTTG
1 TTTCAATTTCTG-TTTTCAA-------AAATC-AACTC-A-T-AT-TGCGAGAG-GTGAG-TT-G
45761990 AGCCTCAAGACACGTTGAGGTAA
50 AGCCTCAAGACACGTTGAGGTAA
45762013 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
45762078 GAGGTAA
66 GAGGTAA
* **
45762085 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
45762150 GAGGTAT
66 GAGGTAA
*
45762157 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
45762213 GGTTCACATG
Statistics
Matches: 672, Mismatches: 85, Indels: 126
0.76 0.10 0.14
Matches are distributed among these distances:
69 2 0.00
70 49 0.07
71 21 0.03
72 187 0.28
73 39 0.06
74 81 0.12
75 14 0.02
76 46 0.07
77 67 0.10
78 7 0.01
79 40 0.06
80 6 0.01
81 2 0.00
82 3 0.00
83 8 0.01
84 2 0.00
85 11 0.02
86 64 0.10
87 6 0.01
88 14 0.02
89 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:45761782 original size:14 final size:14
Alignment explanation
Indices: 45761763--45761791 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45761753 CGCTGAGGTA
45761763 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
45761777 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
45761791 T
1 T
45761792 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:45761903 original size:163 final size:161
Alignment explanation
Indices: 45761634--45762250 Score: 853
Period size: 163 Copynumber: 3.9 Consensus size: 161
45761624 CTTTCAAAAA
*
45761634 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGA-GTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTCT
* * *
45761698 GTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTA
66 GTT-ATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTA
45761763 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
129 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
*
45761796 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTCT
*
45761861 GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTA
66 GTT-ATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTA
45761926 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
129 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
*
45761959 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTCT
* * *
45762024 GTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAA
66 GTTATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGTAT
45762085 TTTCAATTTCTG-TTTTC-A------------
130 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
* **
45762103 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTTC
* * * * *
45762167 TGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGA-GTAT
65 TGTTATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTAT
* *
45762231 TCTCAATTTCTGTCTTTCAA
130 TTTCAATTTCTGTTTTTCAA
45762251 AAAAAAAAAA
Statistics
Matches: 427, Mismatches: 19, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
143 4 0.01
144 63 0.15
145 37 0.09
146 14 0.03
147 11 0.03
148 1 0.00
156 1 0.00
157 5 0.01
158 24 0.06
160 37 0.09
161 2 0.00
162 51 0.12
163 177 0.41
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (161 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTCT
GTTATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATT
TTCAATTTCTGTTTTTCAATTTCTGTTCGTC
Found at i:45761945 original size:14 final size:14
Alignment explanation
Indices: 45761926--45761954 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45761916 CGCTGAGGTA
45761926 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
45761940 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
45761954 T
1 T
45761955 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:45762684 original size:44 final size:45
Alignment explanation
Indices: 45762601--45762699 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
45762591 TTGAACTGTT
* *
45762601 AATCTTATAT-TTCTGAAGTCACAGTAAAGCAGATCGAAGCTACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* * ** *
45762645 AATCTTATATCCT-TGAAGTTACATTAAAGTGGATTGAAGCCACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* *
45762689 AAGCATATATC
1 AATCTTATATC
45762700 AGAAGATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
Found at i:45763052 original size:32 final size:32
Alignment explanation
Indices: 45763009--45763069 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
45762999 CACTTGCCTC
45763009 TTCCCACTCTCCCATGCTGTCTGCCACCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCACCA
*
45763041 TTCCCATTCTCCCATGCTGTCTGCCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCA
45763070 ACACCATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.15, C:0.48, G:0.10, T:0.28
Consensus pattern (32 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCACCA
Found at i:45764079 original size:3 final size:3
Alignment explanation
Indices: 45764071--45764107 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
45764061 TGCATTTCAA
45764071 TAT TAT TA- TAT TAT ATAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T
45764108 GAAATACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:45764216 original size:3 final size:3
Alignment explanation
Indices: 45764208--45764255 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
45764198 TGTGTTTCAA
45764208 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45764256 ATATCCTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:45764500 original size:31 final size:28
Alignment explanation
Indices: 45764465--45764533 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 28
45764455 TAATATTATG
* *
45764465 TATATATTTTAATATTATCAGTTATATA
1 TATATATTTTAATACTATCATTTATATA
*
45764493 TACTATATTTTCTAATACTATTATTTATATA
1 TA-TATA-TTT-TAATACTATCATTTATATA
45764524 TATATATTTT
1 TATATATTTT
45764534 CTTAGTACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 3 0.09
29 7 0.20
30 7 0.20
31 18 0.51
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (28 bp):
TATATATTTTAATACTATCATTTATATA
Found at i:45764512 original size:15 final size:16
Alignment explanation
Indices: 45764489--45764535 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
45764479 TTATCAGTTA
45764489 TATATACTATATTTTC
1 TATATACTATATTTTC
*
45764505 TA-ATACTAT-TATTTA
1 TATATACTATAT-TTTC
45764520 TATATA-TATATTTTC
1 TATATACTATATTTTC
45764535 T
1 T
45764536 TAGTACCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 1 0.04
15 19 0.73
16 6 0.23
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATACTATATTTTC
Found at i:45764555 original size:33 final size:31
Alignment explanation
Indices: 45764487--45764557 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
45764477 TATTATCAGT
* *
45764487 TATATATACTATATTTTCTAATACTATTATT
1 TATATATACTATATTTTCTAATACCATTATG
*
45764518 TATATATA-TATATTTTCTTAGTACCACATTATG
1 TATATATACTATATTTTC-TAATA-C-CATTATG
45764551 TATATAT
1 TATATAT
45764558 CATGTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 12 0.35
32 1 0.03
33 12 0.35
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (31 bp):
TATATATACTATATTTTCTAATACCATTATG
Found at i:45771604 original size:39 final size:39
Alignment explanation
Indices: 45771495--45771656 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
45771485 TATGGTAACC
* *
45771495 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
45771535 TGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
45771573 CGCACAATTGCCTTCGGGCTTAGCTCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45771612 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45771651 CGCACA
1 CGCACA
45771657 TTCATTCACA
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 32 0.29
39 65 0.59
40 13 0.12
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45775756 original size:40 final size:40
Alignment explanation
Indices: 45775707--45775914 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
45775697 TCTTCGGAAT
* *
45775707 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
45775746 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
45775786 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
45775826 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
45775866 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
45775906 TTAGCCCGG
1 TTAGCCCGG
45775915 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:45782609 original size:93 final size:93
Alignment explanation
Indices: 45782497--45782668 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45782487 GCCCATAAGT
* *
45782497 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45782562 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45782590 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45782655 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45782669 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45782664 original size:46 final size:46
Alignment explanation
Indices: 45782489--45782664 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
45782479 TGTAACCCGC
* * *
45782489 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
45782535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
45782585 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
45782628 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45782665 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:45786633 original size:40 final size:40
Alignment explanation
Indices: 45786584--45786791 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
45786574 TCTTCGGAAT
* *
45786584 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
45786623 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
45786663 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * * * *
45786703 TTAGCCCTGATATAATCACTAGCATAAATGCCTTTGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * ** * *
45786743 TTATCCTGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
45786783 TTAGCCCGG
1 TTAGCCCGG
45786792 GTATCATTCA
Statistics
Matches: 135, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 5 0.04
40 128 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:45789457 original size:38 final size:39
Alignment explanation
Indices: 45789335--45789477 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
45789325 CCGCACAAAG
*
45789335 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
45789375 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
45789414 GCCTTCGGGCTTAGCCCGGGTATC-CAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
45789452 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
45789478 TCGAACATTC
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
38 34 0.37
39 50 0.54
40 9 0.10
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:45789461 original size:77 final size:79
Alignment explanation
Indices: 45789295--45789476 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 79
45789285 TCGTTCAAAC
* * **
45789295 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
45789360 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
45789375 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATC-
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
45789438 CAATTTGCACAATT
66 CAATTTGCACAATT
45789452 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
45789477 CTCGAACATT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 39 0.42
78 13 0.14
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:45806949 original size:15 final size:15
Alignment explanation
Indices: 45806929--45806958 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45806919 AGCCGTGTCT
45806929 CTACCCGTGTGTTTA
1 CTACCCGTGTGTTTA
45806944 CTACCCGTGTGTTTA
1 CTACCCGTGTGTTTA
45806959 TGACTTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.40
Consensus pattern (15 bp):
CTACCCGTGTGTTTA
Found at i:45814394 original size:46 final size:46
Alignment explanation
Indices: 45814226--45814445 Score: 233
Period size: 46 Copynumber: 5.0 Consensus size: 46
45814216 TTTGACGTGA
* * * * * *
45814226 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
45814272 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
45814318 TGCTATGGTATCTTTCAACCATGGTCTTACACATCTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45814364 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
45814402 TGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
45814446 AGAGCATACT
Statistics
Matches: 150, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
38 32 0.21
39 2 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 6 0.04
46 102 0.68
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:45814411 original size:38 final size:38
Alignment explanation
Indices: 45814360--45814435 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
45814350 ATCTCATATA
45814360 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
*
45814398 AGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
45814436 TTCATATCAG
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:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:45816622 original size:27 final size:28
Alignment explanation
Indices: 45816556--45816622 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
45816546 TCTTTATATA
*
45816556 CTAATAAAATAATAAAATAATATCTTAT
1 CTAATTAAATAATAAAATAATATCTTAT
* *
45816584 -TAAAGT-ATTAATAAAATAATAT-TTAT
1 CT-AATTAAATAATAAAATAATATCTTAT
45816610 CTAATTAAATAAT
1 CTAATTAAATAAT
45816623 TATAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
26 7 0.23
27 22 0.71
28 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
CTAATTAAATAATAAAATAATATCTTAT
Found at i:45818414 original size:48 final size:48
Alignment explanation
Indices: 45818343--45818657 Score: 402
Period size: 48 Copynumber: 6.6 Consensus size: 48
45818333 TAAAGTACCA
* * * * *
45818343 ATGCCATGTCCCCGACATGGTCTTATA-T-GAATCCACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCG
*
45818391 ATGCCATGTCCCAGACATGGTCTTATACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
45818439 ATGCCATGTCCCACATC-TGGTCTTACACTGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGA-CATGGTCTTACACTGGCACACATATCATCGCCG
* * * *
45818487 ATGCCATGTCCCACACATGGTCTTACACAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * * *
45818535 ATGCCATGTCCCAGACATAGTCTTACACAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
45818583 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCACCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
45818631 ATGCCATGCCCCAGACATGGTGTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
45818658 TAAGAACATT
Statistics
Matches: 244, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.00
48 239 0.98
49 2 0.01
50 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
Found at i:45823154 original size:38 final size:38
Alignment explanation
Indices: 45823098--45823177 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
45823088 GATGTGTATT
* * *
45823098 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
45823136 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
45823174 CGGG
1 CGGG
45823178 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:45823352 original size:128 final size:129
Alignment explanation
Indices: 45823170--45823409 Score: 374
Period size: 128 Copynumber: 1.9 Consensus size: 129
45823160 GCTGGTATTA
*
45823170 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTACCAGTGATGTGTATTCGGGCCTTCGTGCCTAGC
**
45823235 AGGCTTAGTACCGGTGATGTGTATTCGGGTGTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
66 AGGCTTAGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * **
45823299 TATTCGGGCTTTCGTGCCTAG-CGGCTTCGTACTGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTACCAGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* * *
45823363 GGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
66 AGGCTTAGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
45823410 GTAATGCCGG
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 80 0.80
129 20 0.20
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (129 bp):
TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTACCAGTGATGTGTATTCGGGCCTTCGTGCCTAGC
AGGCTTAGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:45823369 original size:85 final size:86
Alignment explanation
Indices: 45823170--45823409 Score: 392
Period size: 85 Copynumber: 2.8 Consensus size: 86
45823160 GCTGGTATTA
* * *
45823170 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
45823235 AGGCTTAGTACCGGTGATGTG
66 AGGCTTAGTACCGGTGATGTG
** *
45823256 TATTCGGGTGTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCTTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* *
45823321 -GGCTTCGTACTGGTGATGTG
66 AGGCTTAGTACCGGTGATGTG
*
45823341 TATTCGGGCCTTCGTGCCTAGCGGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
45823406 AGGC
66 AGGC
45823410 GTAATGCCGG
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
85 79 0.56
86 62 0.44
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (86 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
AGGCTTAGTACCGGTGATGTG
Found at i:45823418 original size:43 final size:43
Alignment explanation
Indices: 45823149--45823422 Score: 374
Period size: 43 Copynumber: 6.4 Consensus size: 43
45823139 GATAAATCCC
* * *
45823149 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
45823190 GTAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* **
45823233 GCAGGCTTAGTACCGGTGATGTGTATTCGGGTGTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
45823276 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCTTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
45823319 GC-GGCTTCGTACTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
45823361 GCGGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
45823404 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
45823423 AATGATATGT
Statistics
Matches: 207, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 13 0.06
42 41 0.20
43 153 0.74
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:45823806 original size:45 final size:42
Alignment explanation
Indices: 45823739--45823846 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
45823729 TTGACTTGAT
* *
45823739 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
** *
45823784 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
45823826 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
45823847 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:45829368 original size:48 final size:48
Alignment explanation
Indices: 45829338--45829564 Score: 402
Period size: 48 Copynumber: 4.7 Consensus size: 48
45829328 ATTCGAGAAG
*
45829338 TGTGTCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
45829386 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
45829434 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
* * *
45829482 TGTGCCTGTGTAAGACCATGTCTGGTACATGGCATCGGTGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
45829530 TGTGCCAT-TGTAAGACCATGTCTGGGACATGGCAT
1 TGTGCC-TGTGTAAGACCATGTCTGGGACATGGCAT
45829565 TGGTACTTTA
Statistics
Matches: 173, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 172 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATA
Found at i:45832915 original size:19 final size:19
Alignment explanation
Indices: 45832891--45832929 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45832881 ACTAGAGAGA
45832891 AGGTTTCCTTGTAAGCAAT
1 AGGTTTCCTTGTAAGCAAT
*
45832910 AGGTTTCCTTGTAATCAAT
1 AGGTTTCCTTGTAAGCAAT
45832929 A
1 A
45832930 CCTTGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
AGGTTTCCTTGTAAGCAAT
Found at i:45838195 original size:48 final size:48
Alignment explanation
Indices: 45838137--45838562 Score: 518
Period size: 48 Copynumber: 8.6 Consensus size: 48
45838127 TGATCCTGTA
*
45838137 TAAGACCATGTCTGGGACATGGCATCGACATTTTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
* *
45838185 TAAGACCATGTGTGGGACATGGCATC-AGCATTGTTATGTGAACCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGA-CATTGTTATGTGAGCCAGTG
** * *
45838233 TAAGACTGTGCCTGGGACATGGCATTGGCATTGCTATGTGATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCA-T--C---G--A---CATTGTTATGTGAGCCAGTG
* * * *
45838292 TAAGACCGTGTCTGGGACATGGCATTGGCATTGCTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
* *
45838340 TAAGACCATGTCTGGGACATGGCATC-AGTATTGTTATGTGAGCCGGTG
1 TAAGACCATGTCTGGGACATGGCATCGA-CATTGTTATGTGAGCCAGTG
* *
45838388 TAAGACCATGTTTGGGACATGGCATCGACATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
*
45838436 TAAGACCATGTCTGGGACATGGCATC-AGTATTGTTATGTGAGCC-GATG
1 TAAGACCATGTCTGGGACATGGCATCGA-CATTGTTATGTGAGCCAG-TG
* *
45838484 TAAGACCATGTTTGGGACATGGCATCGACATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
*
45838532 TAAGACCATGTCTGGGACATCGCATCGACAT
1 TAAGACCATGTCTGGGACATGGCATCGACAT
45838563 GAGGCATTGT
Statistics
Matches: 326, Mismatches: 34, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
47 3 0.01
48 275 0.84
49 4 0.01
51 1 0.00
53 1 0.00
57 1 0.00
58 1 0.00
59 40 0.12
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
Found at i:45838291 original size:59 final size:59
Alignment explanation
Indices: 45838214--45838332 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
45838204 TGGCATCAGC
*
45838214 ATTGTTATGTGAACCAGTGTAAGACTGTGCCTGGGACATGGCATTGGCATTGCTATGTG
1 ATTGTTATGTGAACCAGTGTAAGACCGTGCCTGGGACATGGCATTGGCATTGCTATGTG
* *
45838273 ATTGTTATGTGAGCCAGTGTAAGACCGTGTCTGGGACATGGCATTGGCATTGCTATGTG
1 ATTGTTATGTGAACCAGTGTAAGACCGTGCCTGGGACATGGCATTGGCATTGCTATGTG
45838332 A
1 A
45838333 GCCAGTGTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (59 bp):
ATTGTTATGTGAACCAGTGTAAGACCGTGCCTGGGACATGGCATTGGCATTGCTATGTG
Found at i:45843409 original size:42 final size:42
Alignment explanation
Indices: 45843362--45843483 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
45843352 TAGGGTTAGT
*
45843362 TGAGATTACGTATAAGACCATATCTAGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
** * * *
45843404 TGAGATTTTGTGTAAGACCATAGCTACGATTTTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGA-TATGGCATCGATA
** * * *
45843447 TGAGATCCCATGTAAGACCATATGTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
45843484 TGGTATGGTA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:45846501 original size:64 final size:64
Alignment explanation
Indices: 45846420--45846603 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
45846410 AGACATTATG
* * * *
45846420 ATGTAGCTAGGTGGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
45846484 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGAGAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
45846549 AA
63 AA
* * * *
45846551 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCTTGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
45846604 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 24 0.25
66 21 0.22
67 32 0.34
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:45848919 original size:21 final size:22
Alignment explanation
Indices: 45848873--45848922 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
45848863 CTTTCACGAT
* * *
45848873 TCACACGGCCTGGCCATTGACG
1 TCACACGGCCTGGACAATCACG
45848895 -CACACGGCCT-GACAATCACG
1 TCACACGGCCTGGACAATCACG
45848915 TCACACGG
1 TCACACGG
45848923 TCGTGTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (22 bp):
TCACACGGCCTGGACAATCACG
Found at i:45851947 original size:40 final size:40
Alignment explanation
Indices: 45851892--45852149 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
45851882 TGGATGATAA
* * *
45851892 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
45851932 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45851972 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45852012 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
45852052 CTGGGCTATGTCCCGAAGGCATTCGAGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
45852092 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45852132 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45852150 TACTTGGCTT
Statistics
Matches: 202, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
39 16 0.08
40 186 0.92
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45857838 original size:17 final size:17
Alignment explanation
Indices: 45857816--45857848 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45857806 TAAATTACAT
45857816 ATTCTAT-TCATAATATA
1 ATTCTATCTC-TAATATA
45857833 ATTCTATCTCTAATAT
1 ATTCTATCTCTAATAT
45857849 TTTTAGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTCTATCTCTAATATA
Found at i:45863958 original size:40 final size:40
Alignment explanation
Indices: 45863850--45863959 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
45863840 ATTGAATGAT
* * * * *
45863850 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * * *
45863890 ATCCGGGTTAAGACCCGAAGGCAATTGTGGTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
*
45863930 ATCCGGGCTAAGACTCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
45863960 AAATTGTGAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:45869907 original size:17 final size:18
Alignment explanation
Indices: 45869876--45869913 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45869866 AAACACATTT
45869876 CACCTATGGGTTTTTTTC
1 CACCTATGGGTTTTTTTC
45869894 CACCTATGGGTTTTTTTC
1 CACCTATGGGTTTTTTTC
45869912 CA
1 CA
45869914 AATATAAACC
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:0.13, C:0.24, G:0.16, T:0.47
Consensus pattern (18 bp):
CACCTATGGGTTTTTTTC
Found at i:45873410 original size:15 final size:15
Alignment explanation
Indices: 45873382--45873415 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45873372 GTAATTGATG
*
45873382 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
45873397 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
45873412 TGTG
1 TGTG
45873416 TGTATATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:45882552 original size:20 final size:18
Alignment explanation
Indices: 45882505--45882592 Score: 51
Period size: 20 Copynumber: 4.8 Consensus size: 18
45882495 CAAGATAAAC
45882505 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
45882522 ATCAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
45882542 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
45882561 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
45882578 ATTAAATTTAATATT
1 ATTAAA-TTAATATT
45882593 AAACCTATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 19
0.69 0.08 0.24
Matches are distributed among these distances:
16 1 0.02
17 14 0.25
18 8 0.15
19 15 0.27
20 17 0.31
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45885969 original size:2 final size:2
Alignment explanation
Indices: 45885962--45885987 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45885952 GACATTGTAC
45885962 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
45885988 TCGGCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45886529 original size:28 final size:28
Alignment explanation
Indices: 45886460--45886560 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
45886450 GACAAGATTG
* * * *
45886460 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
45886490 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
45886518 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
45886547 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
45886561 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:45886554 original size:29 final size:28
Alignment explanation
Indices: 45886489--45886560 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
45886479 AAAATTGTAC
*
45886489 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
45886517 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
45886546 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45886561 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:45892247 original size:27 final size:28
Alignment explanation
Indices: 45892217--45892423 Score: 143
Period size: 27 Copynumber: 7.8 Consensus size: 28
45892207 TACCTTACAG
**
45892217 GGGTATTTCGGTAATTTTACACTA-TAA
1 GGGTATTTCGGTAATTTTACAAAACTAA
*
45892244 GGGTATTTCGGTAATTTTA-AAAACTGA
1 GGGTATTTCGGTAATTTTACAAAACTAA
*
45892271 GGGTATTTCAGTAATTTTAC-AAACT-A
1 GGGTATTTCGGTAATTTTACAAAACTAA
* * **
45892297 GGGTTATTTCGATTATTTTAC-AAAC-CG
1 GGG-TATTTCGGTAATTTTACAAAACTAA
* * *
45892324 GGAGTATTTCGATAATTTTAC-AAATTAG
1 GG-GTATTTCGGTAATTTTACAAAACTAA
* *
45892352 GGGTATTTCAGTAATTTT----AACT-G
1 GGGTATTTCGGTAATTTTACAAAACTAA
* *
45892375 GGAGTATTTCGATAATTTTAC-AAACTGA
1 GG-GTATTTCGGTAATTTTACAAAACTAA
**
45892403 GGGTATTTCAATAATTTTACA
1 GGGTATTTCGGTAATTTTACA
45892424 GACCAGGGTC
Statistics
Matches: 150, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.02
24 17 0.11
26 6 0.04
27 118 0.79
28 6 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (28 bp):
GGGTATTTCGGTAATTTTACAAAACTAA
Found at i:45892275 original size:54 final size:53
Alignment explanation
Indices: 45892219--45892421 Score: 211
Period size: 54 Copynumber: 3.8 Consensus size: 53
45892209 CCTTACAGGG
* *
45892219 GTATTTCGGTAATTTTACACTA-TAAGGGTATTTCGGTAATTTTAAAAACTGAGG-
1 GTATTTCGATAATTTTACA-AACTAAGGGTATTTCGGTAATTTT-AAAACTG-GGA
* * *
45892273 GTATTTC-AGTAATTTTACAAACT-AGGGTTATTTCGATTATTTTACAAACCGGGA
1 GTATTTCGA-TAATTTTACAAACTAAGGG-TATTTCGGTAATTTTA-AAACTGGGA
* * *
45892327 GTATTTCGATAATTTTACAAATTAGGGGTATTTCAGTAATTTT--AACTGGGA
1 GTATTTCGATAATTTTACAAACTAAGGGTATTTCGGTAATTTTAAAACTGGGA
* **
45892378 GTATTTCGATAATTTTACAAACTGAGGGTATTTCAATAATTTTA
1 GTATTTCGATAATTTTACAAACTAAGGGTATTTCGGTAATTTTA
45892422 CAGACCAGGG
Statistics
Matches: 126, Mismatches: 15, Indels: 18
0.79 0.09 0.11
Matches are distributed among these distances:
51 46 0.37
53 8 0.06
54 68 0.54
55 4 0.03
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
GTATTTCGATAATTTTACAAACTAAGGGTATTTCGGTAATTTTAAAACTGGGA
Found at i:45892307 original size:81 final size:81
Alignment explanation
Indices: 45892215--45892421 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 81
45892205 TTTACCTTAC
* * * *
45892215 AGGGGTATTTCGGTAATTTTACACTATAAGG-GTATTTCGGTAATTTTAAAAACTGA-GGGTATT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGAGTATTTCGATAATTTTAAAAA-TGAGGGGTATT
45892278 TCAGTAATTTTACAAACT
64 TCAGTAATTTTACAAACT
* * ** * *
45892296 AGGGTTATTTCGATTATTTTACAAACCGGGAGTATTTCGATAATTTTACAAATTAGGGGTATTTC
1 AGGGGTATTTCGATAATTTTACAAACAAGGAGTATTTCGATAATTTTAAAAATGAGGGGTATTTC
45892361 AGTAATTTT---AACT
66 AGTAATTTTACAAACT
* *
45892374 -GGGAGTATTTCGATAATTTTACAAACTGAGG-GTATTTCAATAATTTTA
1 AGGG-GTATTTCGATAATTTTACAAAC-AAGGAGTATTTCGATAATTTTA
45892422 CAGACCAGGG
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
77 3 0.03
78 40 0.37
79 2 0.02
80 5 0.05
81 57 0.53
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTCGATAATTTTACAAACAAGGAGTATTTCGATAATTTTAAAAATGAGGGGTATTTC
AGTAATTTTACAAACT
Found at i:45895491 original size:17 final size:16
Alignment explanation
Indices: 45895444--45895517 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 16
45895434 GAAAATATTC
* *
45895444 AATATTAATATTTTAA
1 AATATAAATATATTAA
*
45895460 TAATA-AATATTTATTACA
1 -AATATAA-ATATATTA-A
45895478 AATATAAATATATTAA
1 AATATAAATATATTAA
* * *
45895494 TA-ATGAATATATTAT
1 AATATAAATATATTAA
45895509 AATATAAAT
1 AATATAAAT
45895518 GTCATAAGTC
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
15 12 0.27
16 8 0.18
17 21 0.48
18 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (16 bp):
AATATAAATATATTAA
Found at i:45895611 original size:29 final size:28
Alignment explanation
Indices: 45895544--45895611 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
45895534 CTCTTCAAAA
*
45895544 ATTTGCAATTTAGTCTTCGTATTTTCAT
1 ATTTGAAATTTAGTCTTCGTATTTTCAT
*
45895572 -TTTAAGGAATTTAGTCTCTC-TACTTTTCAT
1 ATTT--GAAATTTAGTCT-TCGTA-TTTTCAT
45895602 ATTTGAAATT
1 ATTTGAAATT
45895612 CAAGTGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
27 3 0.09
29 18 0.55
30 9 0.27
31 3 0.09
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.51
Consensus pattern (28 bp):
ATTTGAAATTTAGTCTTCGTATTTTCAT
Found at i:45895958 original size:20 final size:20
Alignment explanation
Indices: 45895935--45895982 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45895925 AAATATTAAC
* * *
45895935 TTTTCTAGGAAAGTAAGTCA
1 TTTTCCAGGAAAGCAAGTAA
45895955 TTTTCCAGGAAAGCAAGTAA
1 TTTTCCAGGAAAGCAAGTAA
45895975 TTTTCCAG
1 TTTTCCAG
45895983 AAATCCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
TTTTCCAGGAAAGCAAGTAA
Found at i:45898844 original size:21 final size:20
Alignment explanation
Indices: 45898811--45898850 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45898801 CTTAGAAACA
*
45898811 GGGCACACGCCCGTATGGAT
1 GGGCACACACCCGTATGGAT
*
45898831 GGGCAACACACCCGTGTGGA
1 GGGC-ACACACCCGTATGGA
45898851 ACTTGAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.30, G:0.35, T:0.12
Consensus pattern (20 bp):
GGGCACACACCCGTATGGAT
Found at i:45900433 original size:29 final size:29
Alignment explanation
Indices: 45900401--45900532 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
45900391 ATAGTGAATC
45900401 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
45900430 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
45900460 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
45900489 AGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
45900518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45900533 GTACAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 70 0.71
30 29 0.29
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:45900542 original size:59 final size:59
Alignment explanation
Indices: 45900401--45900532 Score: 230
Period size: 59 Copynumber: 2.3 Consensus size: 59
45900391 ATAGTGAATC
*
45900401 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTAGCACACTTAGTGCTATATAATTTTCAGCT
* *
45900460 CGCACACTTAGTGCTATATATTTTCAGTTAGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTAGCACACTTAGTGCTATATAATTTTCAGCT
45900518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45900533 GTACAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 24 0.34
59 46 0.66
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTAGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:45901021 original size:8 final size:8
Alignment explanation
Indices: 45901008--45901041 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
45900998 TGGCCGAATG
45901008 TATGTATA
1 TATGTATA
45901016 TATGTATA
1 TATGTATA
45901024 TATGTATA
1 TATGTATA
*
45901032 TATATATA
1 TATGTATA
45901040 TA
1 TA
45901042 CAATGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (8 bp):
TATGTATA
Found at i:45910705 original size:40 final size:39
Alignment explanation
Indices: 45910545--45910739 Score: 264
Period size: 39 Copynumber: 4.9 Consensus size: 39
45910535 TGTGTATGAA
*
45910545 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
45910584 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
45910623 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
45910662 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* *** * *
45910702 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGCA
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA
45910740 TTTGAACGAG
Statistics
Matches: 139, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 42 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:45913988 original size:29 final size:29
Alignment explanation
Indices: 45913956--45914033 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
45913946 GTAACCGTCT
45913956 CTTTTCATATTCGATGGTCAAAACCATCA
1 CTTTTCATATTCGATGGTCAAAACCATCA
* *** *
45913985 CTTTTCATTAATCGATGGTCGTTACCATCC
1 CTTTTCA-TATTCGATGGTCAAAACCATCA
45914015 CTTTTCATAGTT-GATGGTC
1 CTTTTCATA-TTCGATGGTC
45914034 GTCACCATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (29 bp):
CTTTTCATATTCGATGGTCAAAACCATCA
Found at i:45914032 original size:59 final size:58
Alignment explanation
Indices: 45913940--45914087 Score: 147
Period size: 59 Copynumber: 2.5 Consensus size: 58
45913930 GTGCTAAACA
* *
45913940 ATGGTCGTAACCGTCTCTTTTCATATTCGATGGTCAAAACCA-TCACTTTTCATTAATCG
1 ATGGTCGTAACCATCCCTTTTCATATTCGATGGTCAAAACCATTC-CTTTTCA-TAATCG
* ***
45913999 ATGGTCGTTACCATCCCTTTTCATAGTT-GATGGTCGTCACCATTCCTTTTCATAATCG
1 ATGGTCGTAACCATCCCTTTTCATA-TTCGATGGTCAAAACCATTCCTTTTCATAATCG
*** * * *
45914057 ATAAACGAAACTATCCCTTTTCATAATCGAT
1 ATGGTCGTAACCATCCCTTTTCATATTCGAT
45914088 AGCTGAAGCT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
57 1 0.01
58 28 0.38
59 40 0.55
60 4 0.05
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (58 bp):
ATGGTCGTAACCATCCCTTTTCATATTCGATGGTCAAAACCATTCCTTTTCATAATCG
Found at i:45914040 original size:29 final size:28
Alignment explanation
Indices: 45913940--45914052 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
45913930 GTGCTAAACA
* *
45913940 ATGGTCGTAACCGTCTCTTTTCATATTCG
1 ATGGTCGTAACCATCCCTTTTCATATT-G
** * *
45913969 ATGGTCAAAACCATCACTTTTCATTAATCG
1 ATGGTCGTAACCATCCCTTTTCA-T-ATTG
*
45913999 ATGGTCGTTACCATCCCTTTTCATAGTTG
1 ATGGTCGTAACCATCCCTTTTCATA-TTG
* *
45914028 ATGGTCGTCACCATTCCTTTTCATA
1 ATGGTCGTAACCATCCCTTTTCATA
45914053 ATCGATAAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.01
29 45 0.65
30 21 0.30
31 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (28 bp):
ATGGTCGTAACCATCCCTTTTCATATTG
Found at i:45914075 original size:29 final size:29
Alignment explanation
Indices: 45914043--45914116 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
45914033 CGTCACCATT
45914043 CCTTTTCATAATCGATAAAC-GAAACTATC
1 CCTTTTCATAATCGAT-AACTGAAACTATC
* *
45914072 CCTTTTCATAATCGATAGCTGAAGCTATC
1 CCTTTTCATAATCGATAACTGAAACTATC
*
45914101 CCTTTTCATATTCGAT
1 CCTTTTCATAATCGAT
45914117 GATCACCGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.05
29 39 0.95
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (29 bp):
CCTTTTCATAATCGATAACTGAAACTATC
Found at i:45914183 original size:2 final size:2
Alignment explanation
Indices: 45914176--45914201 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45914166 GTATAATAAC
45914176 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
45914202 TGATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45918774 original size:43 final size:43
Alignment explanation
Indices: 45918726--45918923 Score: 369
Period size: 43 Copynumber: 4.6 Consensus size: 43
45918716 CCGGCATTAC
45918726 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
45918769 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
45918812 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
45918855 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
45918898 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
45918924 TAATACCAGC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 152 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:45918967 original size:129 final size:128
Alignment explanation
Indices: 45918713--45918944 Score: 369
Period size: 129 Copynumber: 1.8 Consensus size: 128
45918703 ACATATCATT
* *
45918713 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
45918778 GCACAAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
66 GCACAAAGGCCCGAATACACATCACCAGCACGAAGCCTGC-AGGCACGAAGGCCCGAATACACA
*
45918842 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
* * * *
45918907 GCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGC
66 GCACAAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
45918945 GGGATTTATC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
127 14 0.15
128 2 0.02
129 79 0.83
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (128 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
GCACAAAGGCCCGAATACACATCACCAGCACGAAGCCTGCAGGCACGAAGGCCCGAATACACA
Found at i:45918970 original size:38 final size:38
Alignment explanation
Indices: 45918916--45918999 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
45918906 GGCACGAAGG
* * *
45918916 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
45918954 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
45918992 CCCGAATA
1 CCCGAATA
45919000 GACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:45921792 original size:18 final size:17
Alignment explanation
Indices: 45921757--45921795 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
45921747 AGTGTTTTAC
* *
45921757 AATTTACATAAAATTTT
1 AATTTACAAAAAAATTT
45921774 AATTTACAAAAAAAATTT
1 AATTTAC-AAAAAAATTT
45921792 AATT
1 AATT
45921796 CCACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTACAAAAAAATTT
Done.