Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 173 of 199
Found at i:50641776 original size:16 final size:16
Alignment explanation
Indices: 50641755--50641789 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
50641745 GACCACTTCG
50641755 TAACAAAATGATAACA
1 TAACAAAATGATAACA
50641771 TAACAAAATGATAACA
1 TAACAAAATGATAACA
50641787 TAA
1 TAA
50641790 GTGACTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (16 bp):
TAACAAAATGATAACA
Found at i:50643372 original size:17 final size:18
Alignment explanation
Indices: 50643339--50643375 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
50643329 ATATGGCATA
*
50643339 CCTGTGTGGGCCTACACG
1 CCTGTGTGGGCCCACACG
50643357 CCTGTGT-GGCCCACACG
1 CCTGTGTGGGCCCACACG
50643374 CC
1 CC
50643376 CTACTTAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.11, C:0.41, G:0.30, T:0.19
Consensus pattern (18 bp):
CCTGTGTGGGCCCACACG
Found at i:50644067 original size:5 final size:6
Alignment explanation
Indices: 50644033--50644066 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
50644023 AAATTTTGGG
50644033 AAAAAT AAAAAT AAAAAT AGAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
50644067 TCTATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.62
7 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:50651933 original size:2 final size:2
Alignment explanation
Indices: 50651926--50651963 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
50651916 TGGGGTTAAC
50651926 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
50651964 ATCGAAAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50653631 original size:22 final size:21
Alignment explanation
Indices: 50653606--50653647 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50653596 ATAATTATAA
50653606 ATTTAAATTTAAGTTTTTTATT
1 ATTT-AATTTAAGTTTTTTATT
* *
50653628 ATTTATTTTGAGTTTTTTAT
1 ATTTAATTTAAGTTTTTTAT
50653648 ATGTATTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTTAATTTAAGTTTTTTATT
Found at i:50653856 original size:18 final size:18
Alignment explanation
Indices: 50653829--50653890 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
50653819 CTTATTCAAC
*
50653829 TAAA-ATTTTATTTTTGA
1 TAAATATTTTATATTTGA
50653846 TAAATATTTTATATTTGA
1 TAAATATTTTATATTTGA
* *
50653864 -AATTTATTTGATATTT-A
1 TAA-ATATTTTATATTTGA
50653881 TAAATATTTT
1 TAAATATTTT
50653891 TTATATCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 12 0.32
18 25 0.68
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TAAATATTTTATATTTGA
Found at i:50659789 original size:16 final size:17
Alignment explanation
Indices: 50659756--50659789 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50659746 TGAAAATCTC
* *
50659756 AGTGGTTTTTGGGAAAA
1 AGTGATTTTTGAGAAAA
50659773 AGTGATTTTTGAGAAAA
1 AGTGATTTTTGAGAAAA
50659790 TTAATTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
AGTGATTTTTGAGAAAA
Found at i:50667214 original size:98 final size:98
Alignment explanation
Indices: 50667061--50667264 Score: 338
Period size: 98 Copynumber: 2.1 Consensus size: 98
50667051 ATTCAACACT
* * * *
50667061 ATATTATATATTTAACGCAAGTAGATATTCAAGTCTAATAAAAATCATTTTTTAATGTATATCCA
1 ATATTATATATTTAACGCAAATAGATATCCAACTCTAATAAAAATCAATTTTTAATGTATATCCA
50667126 ATACTACTATAAAAATATAAATGTCATAAACTA
66 ATACTACTATAAAAATATAAATGTCATAAACTA
**
50667159 ATATTATATATTTAACGCAAATAGATATCCAACTCTAATAAATCTCAATTTTTAATGTATATCCA
1 ATATTATATATTTAACGCAAATAGATATCCAACTCTAATAAAAATCAATTTTTAATGTATATCCA
*
50667224 ATACTAGTATAAAAATATAAATGTCATAAACTA
66 ATACTACTATAAAAATATAAATGTCATAAACTA
50667257 ATA-TATAT
1 ATATTATAT
50667265 TCAATAATAA
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
97 5 0.05
98 94 0.95
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (98 bp):
ATATTATATATTTAACGCAAATAGATATCCAACTCTAATAAAAATCAATTTTTAATGTATATCCA
ATACTACTATAAAAATATAAATGTCATAAACTA
Found at i:50668278 original size:19 final size:19
Alignment explanation
Indices: 50668241--50668278 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50668231 AAACATTAAT
*
50668241 AATATTTATAATTATAATA
1 AATATTTATAATTAAAATA
50668260 AATATTTAGT-ATTAAAATA
1 AATATTTA-TAATTAAAATA
50668279 TTAATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AATATTTATAATTAAAATA
Found at i:50670592 original size:17 final size:16
Alignment explanation
Indices: 50670553--50670589 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
50670543 GAATTTTAAA
*
50670553 TTTTTTGGGTTTGTAT
1 TTTTTTAGGTTTGTAT
50670569 TTTTTTAGGTTTG-AT
1 TTTTTTAGGTTTGTAT
50670584 TTTTTT
1 TTTTTT
50670590 TTATTTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.08, C:0.00, G:0.19, T:0.73
Consensus pattern (16 bp):
TTTTTTAGGTTTGTAT
Found at i:50671173 original size:13 final size:14
Alignment explanation
Indices: 50671155--50671188 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
50671145 CATTATTTTA
50671155 TTTTTAAAAAA-AG
1 TTTTTAAAAAATAG
*
50671168 TTTTTAAAAAATTG
1 TTTTTAAAAAATAG
50671182 TTTTTAA
1 TTTTTAA
50671189 GTGAGTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
TTTTTAAAAAATAG
Found at i:50676451 original size:62 final size:62
Alignment explanation
Indices: 50676354--50676478 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
50676344 TTGGCATTAA
* * *
50676354 TAGGTCACCAACCACATCTGTGGCCTCTCGTTGCTAGGTAAAAATAAAATACAATTTTAGCT
1 TAGGTCACCAACCACATCTGTGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
50676416 TAGGTCACCAACCACATCTGTGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
1 TAGGTCACCAACCACATCTGTGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
50676478 T
1 T
50676479 GCCACACTCC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (62 bp):
TAGGTCACCAACCACATCTGTGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
Found at i:50680866 original size:16 final size:16
Alignment explanation
Indices: 50680845--50680887 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
50680835 AAAAAAGGAA
50680845 AGAAGGGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
50680861 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
50680877 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
50680888 CTCCGGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:50680882 original size:23 final size:24
Alignment explanation
Indices: 50680839--50680886 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
50680829 GAGAAAAAAA
*
50680839 AAGGAAAGAAGGGAGAGAGGGGAG
1 AAGGAAAGAAGGGAGAAAGGGGAG
50680863 AAGG-AAGAGAGGG-GAAAGGGGAG
1 AAGGAAAGA-AGGGAGAAAGGGGAG
50680886 A
1 A
50680887 GCTCCGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (24 bp):
AAGGAAAGAAGGGAGAAAGGGGAG
Found at i:50682546 original size:215 final size:214
Alignment explanation
Indices: 50682269--50682806 Score: 936
Period size: 215 Copynumber: 2.5 Consensus size: 214
50682259 TTGACAACAG
* * * * *
50682269 AAATTGAAATTACCTCAGCGTGTTCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
50682334 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
65 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
50682399 TGCCAAACAGATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
130 TGCCAAACAGATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
50682464 GTTGAAATTAAAACACACAA
195 GTTGAAATCAAAACACACAA
*
50682484 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGA
1 AAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
50682549 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
65 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
50682614 TGCCAAACAGATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
130 TGCCAAACAGATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
50682679 TTTGAAATCAAAACACACAA
195 GTTGAAATCAAAACACACAA
50682699 AAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
1 AAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
* * *
50682764 AAA-CAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAGT
66 AAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGT
50682807 CAATTTAAAA
Statistics
Matches: 309, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
213 34 0.11
214 47 0.15
215 228 0.74
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (214 bp):
AAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
AAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTT
GCCAAACAGATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAAATCAAAACACACAA
Found at i:50682931 original size:66 final size:68
Alignment explanation
Indices: 50682778--50682947 Score: 193
Period size: 66 Copynumber: 2.5 Consensus size: 68
50682768 AAAAATTAAA
* ** **
50682778 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTAAAACATAAACTAAAAATACCTCAACGTGC
50682843 CCCG
65 CCCG
** * *
50682847 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTT-AAA-A-AATTTAAGAATACCTCAACGTGT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTAAAACATAAACTAAAAATACCTCAACGTGC
**
50682909 CTTG
65 CCCG
50682913 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTT
50682948 TCCTTGGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
66 52 0.59
67 2 0.02
68 4 0.05
69 30 0.34
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (68 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTAAAACATAAACTAAAAATACCTCAACGTGCC
CCG
Found at i:50696210 original size:21 final size:23
Alignment explanation
Indices: 50696171--50696227 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
50696161 GTTTTAAAAT
* *
50696171 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
50696193 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
50696216 TTGGGCTAGGTT
1 TTGGGCTAGGTT
50696228 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:50697458 original size:13 final size:13
Alignment explanation
Indices: 50697440--50697467 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50697430 CCTCTTTTTA
50697440 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
50697453 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
50697466 TT
1 TT
50697468 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:50716083 original size:20 final size:21
Alignment explanation
Indices: 50716049--50716087 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
50716039 TAAGATATTT
50716049 AAGAAACTACCAAAGGAAAAG
1 AAGAAACTACCAAAGGAAAAG
50716070 AAGAAACT-CCAAAGGAAA
1 AAGAAACTACCAAAGGAAA
50716088 TCACAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.62, C:0.15, G:0.18, T:0.05
Consensus pattern (21 bp):
AAGAAACTACCAAAGGAAAAG
Found at i:50716994 original size:20 final size:20
Alignment explanation
Indices: 50716943--50716986 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
50716933 ATTTTGAAGC
*
50716943 ACGAAATTTTTTTTTAAAAA
1 ACGAAAGTTTTTTTTAAAAA
* *
50716963 ATGAAAGTTTTTTTTAAAAC
1 ACGAAAGTTTTTTTTAAAAA
50716983 ACGA
1 ACGA
50716987 GAATTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (20 bp):
ACGAAAGTTTTTTTTAAAAA
Found at i:50716998 original size:16 final size:17
Alignment explanation
Indices: 50716973--50717496 Score: 177
Period size: 17 Copynumber: 29.9 Consensus size: 17
50716963 ATGAAAGTTT
50716973 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
50716990 TTTTT-AAACACG-GAA
1 TTTTTAAAACACGAGAA
* * *
50717005 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
* *
50717023 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
50717040 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
50717057 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGAGA-A
* * ***
50717075 TTTTTGAAACACAATTTT
1 TTTTTAAAACACGA-GAA
50717093 TTTCTTAAAA-A--A-AA
1 TTT-TTAAAACACGAGAA
*
50717107 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
50717122 TTTTTAAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
*
50717140 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
50717157 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
**
50717174 TTTTTTAGAAA-ACGA-TT
1 -TTTTTA-AAACACGAGAA
*
50717191 TTTTATAAAATCACCG-GAG
1 TTTT-TAAAA-CA-CGAGAA
*
50717210 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* *
50717228 TCTTTGAAACACCGA-AA
1 TTTTTAAAACA-CGAGAA
50717245 TTTTTGAAAACACGA-AGA
1 TTTTT-AAAACACGAGA-A
* *
50717263 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
50717280 TTTTTTGAAAATACGAAGAT
1 -TTTTT-AAAACACG-AGAA
**
50717300 TTTTTTTAACACG-GAAA
1 TTTTTAAAACACGAG-AA
* *
50717317 TTTTTGAAACACG-GTCATTTT
1 TTTTTAAAACACGAG--A---A
*
50717338 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* **
50717356 TTTTTGAAAGACATGA-TT
1 TTTTT-AAA-ACACGAGAA
*
50717374 TTTTTGAAAATACG-GAAA
1 TTTTT-AAAACACGAG-AA
* * *
50717392 TTTATGAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
50717409 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAGAA
* *
50717430 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
50717447 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
50717464 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
50717481 TTTTTAAAAGCACGAG
1 TTTTTAAAA-CACGAG
50717497 GATTATAGAA
Statistics
Matches: 379, Mismatches: 79, Indels: 97
0.68 0.14 0.17
Matches are distributed among these distances:
11 6 0.02
12 2 0.01
14 1 0.00
15 8 0.02
16 17 0.04
17 169 0.45
18 109 0.29
19 41 0.11
20 3 0.01
21 16 0.04
22 7 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:50717159 original size:35 final size:34
Alignment explanation
Indices: 50716973--50717495 Score: 235
Period size: 35 Copynumber: 14.9 Consensus size: 34
50716963 ATGAAAGTTT
* *
50716973 TTTTTAAAACACGAGAATTTTT-AAACACGGAAA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* * *
50717006 -TTTCAGAAACACGAAAATTTTTAAAACACGACAT
1 TTTTTA-AAACACGAAAATTTTTAAAACACGAAAA
* * * **
50717040 TTTTTGAAACACGAGAATTTTTAAAACAAGACATT
1 TTTTTAAAACACGAAAATTTTTAAAACACGA-AAA
* ** *
50717075 TTTTTGAAACAC-AATTTTTTTCTTAAA-A--AAAA
1 TTTTTAAAACACGAA-AATTTT-TAAAACACGAAAA
* *
50717107 --TTTAAAATACGAGAATTTTTAAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTT-AAAACACGAAAA
* *
50717140 TTTTTAAAACACGAAAATTTTTGAAACACGGAAAT
1 TTTTTAAAACACGAAAATTTTTAAAACAC-GAAAA
** * *
50717175 TTTTTAGAAA-ACG-ATTTTTTATAAAATCACCG-GAG
1 TTTTTA-AAACACGAAAATTTT-TAAAA-CA-CGAAAA
* *
50717210 TTTTTGAAAACACGAAAATCTTTGAAACACCG-AAA
1 TTTTT-AAAACACGAAAATTTTTAAAACA-CGAAAA
* *
50717245 TTTTTGAAAACACGAAGATTTTTGAAACACGAAAA
1 TTTTT-AAAACACGAAAATTTTTAAAACACGAAAA
* * ** *
50717280 TTTTTTGAAAATACGAAGATTTTTTTTAACACGGAAA
1 -TTTTT-AAAACACGAA-AATTTTTAAAACACGAAAA
* ***
50717317 TTTTTGAAACACGGTCATTTTTTTTTGAAAACACGAAAA
1 TTTTTAAAACAC-G--A-AAATTTTT-AAAACACGAAAA
* ** * *
50717356 TTTTTGAAAGACATG-ATTTTTTTGAAAATACGGAAA
1 TTTTT-AAA-ACACGAAAATTTTT-AAAACACGAAAA
* * *
50717392 TTTATGAAACACGAAAATTTTTTCTGAAAACAAGAAAA
1 TTTTTAAAACACGAAAA--TTTT-T-AAAACACGAAAA
* * * * *
50717430 TTTTTGAAACACTAGAATTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* * *
50717464 TTTTTGAAACATGAGAATTTTTAAAAGCACGA
1 TTTTTAAAACACGAAAATTTTTAAAA-CACGA
50717496 GGATTATAGA
Statistics
Matches: 379, Mismatches: 75, Indels: 70
0.72 0.14 0.13
Matches are distributed among these distances:
29 1 0.00
30 15 0.04
31 2 0.01
32 5 0.01
33 20 0.05
34 82 0.22
35 114 0.30
36 65 0.17
37 23 0.06
38 32 0.08
39 14 0.04
40 3 0.01
41 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
Found at i:50717285 original size:71 final size:70
Alignment explanation
Indices: 50716972--50717495 Score: 240
Period size: 71 Copynumber: 7.5 Consensus size: 70
50716962 AATGAAAGTT
* * ** *
50716972 TTTTTTAAAACACGAGAATTTT-T-AAACACGGAAATTTCAG-AAACACGAAAATTTTTAAAACA
1 TTTTTGAAAACACGAG-ATTTTATAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACA
*
50717034 C-GACAT
65 CGGA-AA
* ** ** *
50717040 TTTTTG-AAACACGAGAATTTT-TAAAACAAGACATTTTTTTG-AAACAC-AATTTTTTTCTTAA
1 TTTTTGAAAACACGAG-ATTTTATAAAACACGA-AAATTTTTGAAAACACGAA-AATTTT-TGAA
50717101 A-A---AAA
62 ACACGGAAA
* *
50717106 -ATTT-AAAATACGAGAATTTT-TAAAAACACGAAAATTTTT-AAAACACGAAAATTTTTGAAAC
1 TTTTTGAAAACACGAG-ATTTTAT-AAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAAC
50717167 ACGGAAA
64 ACGGAAA
* ** * * *
50717174 TTTTTTAGAAA-ACGATTTTTTATAAAATCACCG-GAGTTTTTGAAAACACGAAAATCTTTGAAA
1 TTTTTGA-AAACACGAGATTTTATAAAA-CA-CGAAAATTTTTGAAAACACGAAAATTTTTGAAA
*
50717237 CACCGAAA
63 CACGGAAA
* * * **
50717245 TTTTTGAAAACACGAAGATTTT-TGAAACACGAAAATTTTTTGAAAATACGAAGATTTTTTTTAA
1 TTTTTGAAAACACG-AGATTTTATAAAACACGAAAA-TTTTTGAAAACACGAA-AATTTTTGAAA
50717309 CACGGAAA
63 CACGGAAA
* * **
50717317 TTTTTG-AAACACG-GTCATTTTTTTTTGAAAACACGAAAATTTTTGAAAGACATG-ATTTTTTT
1 TTTTTGAAAACACGAG--A---TTTTAT-AAAACACGAAAATTTTTGAAA-ACACGAAAATTTTT
*
50717379 GAAAATACGGAAA
59 G-AAACACGGAAA
* * * * * *
50717392 TTTATG-AAACACGAAAATTTTTTCTGAAAACAAGAAAATTTTTG-AAACACTAGAA-TTTTGAA
1 TTTTTGAAAACACG-AGA--TTTTAT-AAAACACGAAAATTTTTGAAAACACGAAAATTTTTG-A
50717454 AACAC-GAAGA
61 AACACGGAA-A
*
50717464 TTTTTG-AAACATGAGAATTTT-TAAAAGCACGA
1 TTTTTGAAAACACGAG-ATTTTATAAAA-CACGA
50717496 GGATTATAGA
Statistics
Matches: 358, Mismatches: 59, Indels: 77
0.72 0.12 0.16
Matches are distributed among these distances:
64 4 0.01
65 35 0.10
66 11 0.03
67 17 0.05
68 20 0.06
69 35 0.10
70 28 0.08
71 72 0.20
72 52 0.15
73 2 0.01
74 35 0.10
75 33 0.09
76 14 0.04
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (70 bp):
TTTTTGAAAACACGAGATTTTATAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAC
GGAAA
Found at i:50717339 original size:36 final size:36
Alignment explanation
Indices: 50717299--50717441 Score: 99
Period size: 38 Copynumber: 3.8 Consensus size: 36
50717289 AATACGAAGA
*
50717299 TTTTTTTTAACACGGAAATTTTTGAAACACGGTCAT
1 TTTTTTTTAACACGGAAATTTTTGAAACACGATCAT
* * *
50717335 TTTTTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGAT
1 TTTTTTTT---AACACGGAAATTTTTGAAACACGATCAT
** * * **
50717373 TTTTTTGAAAATACGGAAATTTATGAAACACGAAAAT
1 TTTTTT-TTAACACGGAAATTTTTGAAACACGATCAT
** * *
50717410 TTTTTCTGAAAACAAGAAAATTTTTGAAACAC
1 TTTTT-T-TTAACACGGAAATTTTTGAAACAC
50717442 TAGAATTTTG
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
36 26 0.31
37 8 0.09
38 31 0.36
39 20 0.24
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (36 bp):
TTTTTTTTAACACGGAAATTTTTGAAACACGATCAT
Found at i:50717414 original size:93 final size:93
Alignment explanation
Indices: 50717245--50717413 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
50717235 AACACCGAAA
* * **
50717245 TTTTTGAAAACACGAAGATTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATTTTTTTTAAC
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATTTTATGAAAC
*
50717310 ACGGAAATTTTTGAAACACGGTCATTTT
66 ACGAAAATTTTTGAAACACGGTCATTTT
* * *
50717338 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAA-A-TTTATGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AAATTTTTTGAAAATAC-GAAGATTTTATGAA
50717400 ACACGAAAATTTTT
64 ACACGAAAATTTTT
50717414 TCTGAAAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 19 0.29
93 44 0.67
94 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (93 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATTTTATGAAAC
ACGAAAATTTTTGAAACACGGTCATTTT
Found at i:50717684 original size:17 final size:16
Alignment explanation
Indices: 50717648--50717698 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
50717638 AAAATTATTT
50717648 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
50717664 AAAATCAAATCAAATTA
1 AAAATAAAAT-AAAATA
50717681 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
50717699 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.32
17 11 0.39
18 8 0.29
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:50717833 original size:11 final size:11
Alignment explanation
Indices: 50717817--50717875 Score: 73
Period size: 11 Copynumber: 5.3 Consensus size: 11
50717807 GAATTGAACC
50717817 TCTTTTTTTTT
1 TCTTTTTTTTT
*
50717828 TCTTTTTTTCCT
1 TCTTTTTTT-TT
* *
50717840 TCTCTTTTTCT
1 TCTTTTTTTTT
*
50717851 TCTTTTTCTTT
1 TCTTTTTTTTT
50717862 TCTTTTTTTTT
1 TCTTTTTTTTT
50717873 TCT
1 TCT
50717876 CTGCTGGGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 32 0.78
12 9 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:50717849 original size:20 final size:19
Alignment explanation
Indices: 50717824--50717873 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
50717814 ACCTCTTTTT
50717824 TTTTTCTTTTTTTCCTTCTC
1 TTTTTCTTTTTTT-CTTCTC
*
50717844 TTTTTCTTCTTTTTCTTTTC
1 TTTTTCTT-TTTTTCTTCTC
50717864 TTTTT-TTTTT
1 TTTTTCTTTTT
50717874 CTCTGCTGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
20 18 0.64
21 5 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTCTC
Found at i:50717863 original size:14 final size:14
Alignment explanation
Indices: 50717824--50717870 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
50717814 ACCTCTTTTT
*
50717824 TTTTTCTTTTTTTC
1 TTTTTCTTTTCTTC
* *
50717838 CTTCTCTTTTTCTTC
1 TTTTTC-TTTTCTTC
50717853 TTTTTCTTTTCTT-
1 TTTTTCTTTTCTTC
50717866 TTTTT
1 TTTTT
50717871 TTTCTCTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.19
14 11 0.41
15 11 0.41
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTCTTC
Found at i:50718051 original size:15 final size:15
Alignment explanation
Indices: 50718025--50718061 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
50718015 TTTTTTGGGC
50718025 TTGTTTCTT-TTTTT-
1 TTGTTT-TTGTTTTTG
50718039 TTGTTTTTGTTTTTG
1 TTGTTTTTGTTTTTG
50718054 TTGTTTTT
1 TTGTTTTT
50718062 TTCTTGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (15 bp):
TTGTTTTTGTTTTTG
Found at i:50718167 original size:22 final size:22
Alignment explanation
Indices: 50718140--50718201 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
50718130 TTTTTTATTA
* *
50718140 TTTCTTTTCTT-TTTCTTTTTTC
1 TTTC-TTTCTTCTTCCTCTTTTC
50718162 TTTCTTTCTTCTTCCTCTTTTC
1 TTTCTTTCTTCTTCCTCTTTTC
* *
50718184 -TTCTTCCTTCTTCTTCTT
1 TTTCTTTCTTCTTCCTCTT
50718202 CAAAGTCTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCTTTCTTCTTCCTCTTTTC
Found at i:50718173 original size:24 final size:24
Alignment explanation
Indices: 50718153--50718199 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50718143 CTTTTCTTTT
*
50718153 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
50718177 TCTTTTCTTCTTCCTTCTTCTTC
1 TCTTTTCTTCTTCCTTCTTCTTC
50718200 TTCAAAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:50718175 original size:3 final size:3
Alignment explanation
Indices: 50718141--50718202 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
50718131 TTTTTATTAT
* *
50718141 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
50718184 TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TTC TTC
50718203 AAAGTCTAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 8 0.16
3 32 0.64
4 10 0.20
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:50718185 original size:14 final size:13
Alignment explanation
Indices: 50718140--50718202 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
50718130 TTTTTTATTA
50718140 TTTCTT-TT-CTT
1 TTTCTTCTTCCTT
* *
50718151 TTTCTTTTTTCTTT
1 TTTC-TTCTTCCTT
50718165 CTTTCTTCTTCCTCT
1 -TTTCTTCTTCCT-T
50718180 TTTCTTCTTCCTT
1 TTTCTTCTTCCTT
*
50718193 CTTCTTCTTC
1 TTTCTTCTTC
50718203 AAAGTCTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.09
12 2 0.05
13 12 0.28
14 20 0.47
15 5 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:50718608 original size:29 final size:29
Alignment explanation
Indices: 50718575--50718691 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
50718565 TGTAATTTTT
*
50718575 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
50718604 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
50718634 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
50718663 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
50718692 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:50718630 original size:30 final size:30
Alignment explanation
Indices: 50718590--50718691 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
50718580 ATTTAGGATT
*
50718590 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
50718620 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
50718650 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
50718680 AAAATGCAATTT
1 AAAATGAAATTT
50718692 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:50719044 original size:54 final size:54
Alignment explanation
Indices: 50718962--50719127 Score: 255
Period size: 54 Copynumber: 3.1 Consensus size: 54
50718952 CACGTGAGCC
* *
50718962 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTG-AA
* *
50719016 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTGAAAAACAGAAATTGAA
50719070 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTGAA
50719125 AAG
1 AAG
50719128 TAGAAATTAA
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
53 1 0.01
54 80 0.78
55 11 0.11
56 10 0.10
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTGAA
Found at i:50719379 original size:85 final size:87
Alignment explanation
Indices: 50719227--50719474 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
50719217 AACAGAAATT
* * *
50719227 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
50719292 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * *
50719314 TAAAACAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
50719377 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
* *
50719403 AAAAACATATATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
50719467 GTTGATTT
64 GTTGATTT
50719475 TTGAAAAATA
Statistics
Matches: 139, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 33 0.24
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:50719387 original size:87 final size:89
Alignment explanation
Indices: 50719227--50719481 Score: 326
Period size: 91 Copynumber: 2.9 Consensus size: 89
50719217 AACAGAAATT
* * *
50719227 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
50719292 TTGA--TTTGAAAAG-TAGAATT-AG
65 TTGATTTTTGAAAAGATAG-ATTGAA
* * *
50719314 TAAAACAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
50719377 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGATTTTTGAAAAG-ATAGATTGAA
* *
50719403 AAAAACATATATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
50719467 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
50719482 ATAAAAATTA
Statistics
Matches: 146, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 33 0.23
88 3 0.02
89 28 0.19
91 43 0.29
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (89 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGATAGATTGAA
Found at i:50719411 original size:16 final size:16
Alignment explanation
Indices: 50719387--50719420 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50719377 TTGATTTTTG
*
50719387 AAAAGCATAGATTGAA
1 AAAAACATAGATTGAA
*
50719403 AAAAACATATATTGAA
1 AAAAACATAGATTGAA
50719419 AA
1 AA
50719421 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAAACATAGATTGAA
Found at i:50719625 original size:123 final size:123
Alignment explanation
Indices: 50719437--50719845 Score: 773
Period size: 123 Copynumber: 3.3 Consensus size: 123
50719427 AGCATGTGAG
* * *
50719437 CCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATAAAAATTAAAAGGCTTAA
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
50719502 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
66 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
*
50719560 CCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
50719625 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
66 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
*
50719683 CCGAGGCTCAACTCACTTCTCGCAGTATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
50719748 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
66 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
50719806 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
50719846 TTAAAAAATT
Statistics
Matches: 279, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 279 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (123 bp):
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
Found at i:50719950 original size:192 final size:193
Alignment explanation
Indices: 50719685--50720036 Score: 670
Period size: 192 Copynumber: 1.8 Consensus size: 193
50719675 GGCGTGCCCC
*
50719685 GAGGCTCAACTCACTTCTCGCAGTATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
50719750 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
66 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
50719815 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
50719878 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
50719942 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
66 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
50720007 AACTCATTTCTCGCAATATGAGTTGATTTT
131 AACTCACTTCTCGCAATATGAGTTGATTTT
50720037 CCTTGGAAAG
Statistics
Matches: 156, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
192 125 0.80
193 31 0.20
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (193 bp):
GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:50733379 original size:16 final size:16
Alignment explanation
Indices: 50733358--50733400 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
50733348 AAAAAAGGAA
50733358 AGAAGGGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
50733374 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
50733390 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
50733401 CTCCGGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:50733395 original size:23 final size:24
Alignment explanation
Indices: 50733352--50733399 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
50733342 GAGAAAAAAA
*
50733352 AAGGAAAGAAGGGAGAGAGGGGAG
1 AAGGAAAGAAGGGAGAAAGGGGAG
50733376 AAGG-AAGAGAGGG-GAAAGGGGAG
1 AAGGAAAGA-AGGGAGAAAGGGGAG
50733399 A
1 A
50733400 GCTCCGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (24 bp):
AAGGAAAGAAGGGAGAAAGGGGAG
Found at i:50739476 original size:6 final size:6
Alignment explanation
Indices: 50739467--50739495 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50739457 AAATAAAATT
50739467 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
50739496 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:50739599 original size:9 final size:9
Alignment explanation
Indices: 50739585--50739611 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
50739575 ACATATAATT
50739585 TTCGGTTAA
1 TTCGGTTAA
50739594 TTCGGTTAA
1 TTCGGTTAA
50739603 TTCGGTTAA
1 TTCGGTTAA
50739612 CTGACCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:50742267 original size:9 final size:9
Alignment explanation
Indices: 50742253--50742322 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
50742243 TTTTTTCATA
50742253 AAAAATATT
1 AAAAATATT
50742262 AAAAATCA-T
1 AAAAAT-ATT
*
50742271 AAATATATAT
1 AAAAATAT-T
*
50742281 AAAATTATT
1 AAAAATATT
50742290 AAAAATATTT
1 AAAAATA-TT
* *
50742300 ATAAAAAAAT
1 A-AAAATATT
*
50742310 AAAACTATT
1 AAAAATATT
50742319 AAAA
1 AAAA
50742323 TTTATACAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
8 1 0.02
9 28 0.60
10 13 0.28
11 5 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:50742294 original size:10 final size:9
Alignment explanation
Indices: 50742250--50742385 Score: 64
Period size: 10 Copynumber: 14.4 Consensus size: 9
50742240 ATATTTTTTC
*
50742250 ATAAAAAAT
1 ATAAAAATT
*
50742259 ATTAAAAATC
1 A-TAAAAATT
*
50742269 ATAAATA-T
1 ATAAAAATT
50742277 ATATAAAATT
1 ATA-AAAATT
50742287 ATTAAAAATATTT
1 A-T-AAAA-A-TT
*
50742300 ATAAAAA-A
1 ATAAAAATT
*
50742308 AT-AAAACT
1 ATAAAAATT
*
50742316 ATTAAAATTT
1 A-TAAAAATT
*
50742326 ATACAAACTT
1 ATA-AAAATT
*
50742336 ATAAATATT
1 ATAAAAATT
50742345 ATAAAAA-T
1 ATAAAAATT
50742353 ATAAAAATT
1 ATAAAAATT
* *
50742362 CTAATGAATT
1 ATAA-AAATT
50742372 ATAATAAATT
1 ATAA-AAATT
50742382 ATAA
1 ATAA
50742386 TTTTTTATCA
Statistics
Matches: 97, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
7 4 0.04
8 14 0.14
9 26 0.27
10 39 0.40
11 8 0.08
12 3 0.03
13 3 0.03
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:50742360 original size:19 final size:19
Alignment explanation
Indices: 50742253--50742354 Score: 77
Period size: 18 Copynumber: 5.4 Consensus size: 19
50742243 TTTTTTCATA
*
50742253 AAAAATATTA-AAAATCAT
1 AAAAATATTATAAAATTAT
*
50742271 AAATATA-TATAAAATTATT
1 AAAAATATTATAAAATTA-T
**
50742290 AAAAATATTTATAAAAAAAT
1 AAAAATA-TTATAAAATTAT
* *
50742310 AAAACTATTA-AAATTTAT
1 AAAAATATTATAAAATTAT
* *
50742328 ACAAA-CTTATAAATATTAT
1 AAAAATATTATAAA-ATTAT
50742347 AAAAATAT
1 AAAAATAT
50742355 AAAAATTCTA
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
17 5 0.08
18 23 0.37
19 18 0.29
20 8 0.13
21 8 0.13
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATATTATAAAATTAT
Found at i:50742570 original size:26 final size:28
Alignment explanation
Indices: 50742518--50742570 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
50742508 AGGAAATCAT
**
50742518 AAAAATCATAAAATATAATAACTTATAA
1 AAAAATCATAAAATATAATAAAATATAA
50742546 AAAAAT-ATAAAAT-TAATAAAATATA
1 AAAAATCATAAAATATAATAAAATATA
50742571 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 7 0.30
28 6 0.26
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATCATAAAATATAATAAAATATAA
Found at i:50742660 original size:22 final size:22
Alignment explanation
Indices: 50742618--50742660 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50742608 TTCATAAAAA
* *
50742618 CTTATAAATAATATAATAAATT
1 CTTATAAATAATAAAAAAAATT
*
50742640 CTTATAAATTATAAAAAAAAT
1 CTTATAAATAATAAAAAAAAT
50742661 CATTTAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
CTTATAAATAATAAAAAAAATT
Found at i:50746496 original size:5 final size:5
Alignment explanation
Indices: 50746486--50746511 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50746476 TTAACTCACA
50746486 TGGAT TGGAT TGGAT TGGAT TGGAT T
1 TGGAT TGGAT TGGAT TGGAT TGGAT T
50746512 CAATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (5 bp):
TGGAT
Found at i:50748790 original size:9 final size:9
Alignment explanation
Indices: 50748742--50748795 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
50748732 TATATGTGAG
50748742 TATAATAAT
1 TATAATAAT
* *
50748751 AATAATAAA
1 TATAATAAT
* *
50748760 GATAACAAT
1 TATAATAAT
50748769 TATAATAAT
1 TATAATAAT
*
50748778 TATAATAAC
1 TATAATAAT
*
50748787 TATATTAAT
1 TATAATAAT
50748796 AAACTAAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (9 bp):
TATAATAAT
Found at i:50749843 original size:100 final size:97
Alignment explanation
Indices: 50749726--50749973 Score: 327
Period size: 100 Copynumber: 2.5 Consensus size: 97
50749716 CTAATTACAA
* * * * * *
50749726 TGTCGAGGAAACAAGATCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACTACTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACTACTAAGGAAGTAA
* *
50749790 GATCTGCCATTGTGGCTTCAATCGTTTTAATTGCGC
65 GATATGCCATTGTGGCTTCAA---TATTAATTGCGC
* ** *
50749826 TGTCGGGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCACTGCACCGCTAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTACTAAGGAAGTAAG
*
50749891 ATATGCCGTTGTGGCTTCAATATTAATTGCGC
66 ATATGCCATTGTGGCTTCAATATTAATTGCGC
*
50749923 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACT
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACT
50749974 GTCAGGGAAG
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
97 59 0.45
100 71 0.54
101 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (97 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTACTAAGGAAGTAAG
ATATGCCATTGTGGCTTCAATATTAATTGCGC
Found at i:50749885 original size:50 final size:50
Alignment explanation
Indices: 50749831--50749982 Score: 141
Period size: 50 Copynumber: 3.1 Consensus size: 50
50749821 TGCGCTGTCG
* *
50749831 GGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCACTGCACCG-CTA
1 GGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGTC-A
*** * * * * * * * *
50749881 GGGAAGTAAGATATGCCGTTGTGGCTTCAATAT--T-AATTGCGCTGTCG
1 GGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGTCA
*
50749928 GGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACTGTCA
1 GGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGTCA
50749978 GGGAA
1 GGGAA
50749983 GTAAGATTCA
Statistics
Matches: 75, Mismatches: 23, Indels: 8
0.71 0.22 0.08
Matches are distributed among these distances:
47 33 0.44
48 2 0.03
49 1 0.01
50 39 0.52
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (50 bp):
GGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGTCA
Found at i:50749949 original size:47 final size:47
Alignment explanation
Indices: 50749789--50749958 Score: 126
Period size: 50 Copynumber: 3.5 Consensus size: 47
50749779 TAAGGAGGTA
* * *
50749789 AGATCTGCCATTGTGGCTTCAATCGTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAA---TATTAATTGCGCTGTCGGGGAAACC
* * * * * * * * ***
50749839 AGATCCGTCGTTGTGACTTCAATCTGCTCCACTGCACCG-CTAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATAT--T-AATTGCGCTGTC-GGGGAAACC
* *
50749889 AGATATGCCGTTGTGGCTTCAATATTAATTGCGCTGTCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATATTAATTGCGCTGTCGGGGAAACC
50749936 AGATCTGCCGTTGTGACTTCAAT
1 AGATCTGCCGTTGTGACTTCAAT
50749959 CTGCTCCACT
Statistics
Matches: 87, Mismatches: 28, Indels: 13
0.68 0.22 0.10
Matches are distributed among these distances:
47 34 0.39
48 2 0.02
49 2 0.02
50 49 0.56
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (47 bp):
AGATCTGCCGTTGTGACTTCAATATTAATTGCGCTGTCGGGGAAACC
Found at i:50749952 original size:97 final size:96
Alignment explanation
Indices: 50749726--50750008 Score: 347
Period size: 97 Copynumber: 2.9 Consensus size: 96
50749716 CTAATTACAA
* * * * * * * *
50749726 TGTCGAGGAAACAAGATCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACTACTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACTGCTAGGGAAGTAA
* *
50749790 GATCTGCCATTGTGGCTTCAATCGTTTTAATTGCGC
65 GAT-TGCCGTTGTGGCTTCAA---TATTAATTGCGC
* *
50749826 TGTCGGGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCACTGCACCGCTAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCTAGGGAAGTAAG
50749891 ATATGCCGTTGTGGCTTCAATATTAATTGCGC
66 AT-TGCCGTTGTGGCTTCAATATTAATTGCGC
*
50749923 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACTG-TCAGGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCT-AGGGAAGTAA
50749987 GATT-CATCGTTGTGGCTTCAAT
65 GATTGC--CGTTGTGGCTTCAAT
50750009 CTTTTTCACT
Statistics
Matches: 163, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
95 1 0.01
96 2 0.01
97 88 0.54
100 71 0.44
101 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (96 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCTAGGGAAGTAAG
ATTGCCGTTGTGGCTTCAATATTAATTGCGC
Found at i:50749998 original size:50 final size:50
Alignment explanation
Indices: 50749847--50750010 Score: 144
Period size: 50 Copynumber: 3.3 Consensus size: 50
50749837 CCAGATCCGT
*
50749847 CGTTGTGACTTCAATCTGCTCCACTGCACCG-CTAGGGAAGTAAGAT-ATGC
1 CGTTGTGACTTCAATCTGCTCCACTGCACTGTC-AGGGAAGTAAGATCAT-C
* * * * * * ***
50749897 CGTTGTGGCTTCAATAT--T-AATTGCGCTGTCGGGGAAACCAGATC-TGC
1 CGTTGTGACTTCAATCTGCTCCACTGCACTGTCAGGGAAGTAAGATCAT-C
50749944 CGTTGTGACTTCAATCTGCTCCACTGCACTGTCAGGGAAGTAAGATTCAT-
1 CGTTGTGACTTCAATCTGCTCCACTGCACTGTCAGGGAAGTAAGA-TCATC
*
50749994 CGTTGTGGCTTCAATCT
1 CGTTGTGACTTCAATCT
50750011 TTTTCACTTA
Statistics
Matches: 87, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
47 33 0.38
48 2 0.02
49 1 0.01
50 48 0.55
51 2 0.02
52 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (50 bp):
CGTTGTGACTTCAATCTGCTCCACTGCACTGTCAGGGAAGTAAGATCATC
Found at i:50750162 original size:50 final size:50
Alignment explanation
Indices: 50750103--50750226 Score: 185
Period size: 50 Copynumber: 2.5 Consensus size: 50
50750093 AGGGAGATAT
* * * *
50750103 GATCCGCCATTGTAGCTTCAATCTGCTCCGCTGCGACGCTAGGAAAATAA
1 GATCCGCCATTGTGGCTTCAATCTGCTCCGATGCGACGCCAGAAAAATAA
*
50750153 GATCCGCCATTGTGGCTTCAATATGCTCCGATGCGACGCCAGAAAAATAA
1 GATCCGCCATTGTGGCTTCAATCTGCTCCGATGCGACGCCAGAAAAATAA
* *
50750203 GATCCACCATTATGGCTTCAATCT
1 GATCCGCCATTGTGGCTTCAATCT
50750227 TTTTAATTGC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (50 bp):
GATCCGCCATTGTGGCTTCAATCTGCTCCGATGCGACGCCAGAAAAATAA
Found at i:50750410 original size:88 final size:89
Alignment explanation
Indices: 50750261--50750744 Score: 685
Period size: 88 Copynumber: 5.5 Consensus size: 89
50750251 AAGACTAATG
* * * *
50750261 TCTTCGATCTGCTTCGCTGCCAGTACAAGAAGGCAAGATCTG-TCATTTTCGACCTACTCCACTG
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCATTTTCAACCTACTCCACTA
*
50750325 CTGCCGAGGGAGACAAAGCTGGTA
66 CTGCCCAGGGAGACAAAGCTGGTA
* *
50750349 TCTTCGATCTGCTTCTCTGTCAGTACAAGAAGGCAAGATCTGCT-ATTTTCAACCTACTCCACTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCATTTTCAACCTACTCCACTA
50750413 CTGCCCAGGGAGACAAAGCTGGTA
66 CTGCCCAGGGAGACAAAGCTGGTA
* *
50750437 TCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTG-TCATTTTCAACCTACTCCACTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCATTTTCAACCTACTCCACTA
50750501 CTGCCCAGGGAGAC-AAGACTGGTA
66 CTGCCCAGGGAGACAAAG-CTGGTA
* *
50750525 TCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGC-CATTTTCAACCTACTCCACTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCATTTTCAACCTACTCCACTA
*
50750589 CTGCCCAGGGAGACAAAGCTTGTA
66 CTGCCCAGGGAGACAAAGCTGGTA
* * * * * *
50750613 TCTTTGATCTGCTTCGCTATCAATATAGGAAGGCAAGATCT-ATCATTTTCAGCCTACTCCACTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCATTTTCAACCTACTCCACTA
*
50750677 CTGCCCAGGGAGACAAGGCTGGTA
66 CTGCCCAGGGAGACAAAGCTGGTA
* * * * *
50750701 -CTTTTGATCTGCTTCTCTGTCATTACAGGAAGGTAAGATTTGCT
1 TC-TTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT
50750745 ATCTTCAGTC
Statistics
Matches: 361, Mismatches: 27, Indels: 15
0.90 0.07 0.04
Matches are distributed among these distances:
87 5 0.01
88 351 0.97
89 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCATTTTCAACCTACTCCACTA
CTGCCCAGGGAGACAAAGCTGGTA
Found at i:50752082 original size:13 final size:13
Alignment explanation
Indices: 50752052--50752091 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
50752042 ATTTTTATTT
*
50752052 TTTTCCATTTTTCCA
1 TTTT-CATTTTT-TA
50752067 TTTTCATTTTTTA
1 TTTTCATTTTTTA
50752080 TTTTCATTTTTT
1 TTTTCATTTTTT
50752092 CACTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
14 7 0.29
15 4 0.17
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTTTA
Found at i:50752611 original size:11 final size:11
Alignment explanation
Indices: 50752597--50752634 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50752587 TTTTTTTCCC
50752597 TTTTTTTGTTT
1 TTTTTTTGTTT
*
50752608 TTTTTATG-TT
1 TTTTTTTGTTT
50752618 TTTTTTTGTTT
1 TTTTTTTGTTT
50752629 TGTTTT
1 T-TTTT
50752635 CTTTTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 9 0.39
11 10 0.43
12 4 0.17
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:50752640 original size:11 final size:10
Alignment explanation
Indices: 50752597--50752641 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
50752587 TTTTTTTCCC
50752597 TTTTTTTGTT
1 TTTTTTTGTT
50752607 TTTTTTATGTT
1 TTTTTT-TGTT
50752618 TTTTTTTGTT
1 TTTTTTTGTT
* *
50752628 TTGTTTTCTT
1 TTTTTTTGTT
50752638 TTTT
1 TTTT
50752642 GATTGAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 21 0.68
11 10 0.32
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:50753447 original size:15 final size:15
Alignment explanation
Indices: 50753427--50753457 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50753417 AGAATGAAAG
50753427 AATAATTATTCAAAA
1 AATAATTATTCAAAA
50753442 AATAATTATTCAAAA
1 AATAATTATTCAAAA
50753457 A
1 A
50753458 GACTGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAATTATTCAAAA
Found at i:50755960 original size:101 final size:101
Alignment explanation
Indices: 50755843--50756045 Score: 370
Period size: 101 Copynumber: 2.0 Consensus size: 101
50755833 CTCACGAACC
50755843 TTCTTTTTATAGCCATCATCCTTATACGAGAATTCACACTCGGCCAGTCCCTGAGTTGCAGGCAC
1 TTCTTTTTATAGCCATCATCCTTATACGAGAATTCACACTCGGCCAGTCCCTGAGTTGCAGGCAC
* *
50755908 AAACTGTCTTGACCTGTATTGCCTTAACACTAGCAA
66 AAACTATCTTGACCTGTATTACCTTAACACTAGCAA
*
50755944 TTCTTTTTGTAGCCATCATCCTTATACGAGAATTCACACTCGGCCAGTCCCTGAGTTGCAGGCAC
1 TTCTTTTTATAGCCATCATCCTTATACGAGAATTCACACTCGGCCAGTCCCTGAGTTGCAGGCAC
*
50756009 AAACTATTTTGACCTGTATTACCTTAACACTAGCAA
66 AAACTATCTTGACCTGTATTACCTTAACACTAGCAA
50756045 T
1 T
50756046 GGGGCATAAC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (101 bp):
TTCTTTTTATAGCCATCATCCTTATACGAGAATTCACACTCGGCCAGTCCCTGAGTTGCAGGCAC
AAACTATCTTGACCTGTATTACCTTAACACTAGCAA
Found at i:50762605 original size:51 final size:46
Alignment explanation
Indices: 50762520--50762814 Score: 313
Period size: 46 Copynumber: 6.2 Consensus size: 46
50762510 TGTGATTTAT
* * * *
50762520 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTC
* *
50762566 AGCTTTAATCTGTCCCACTACAACGCCAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATC--T---ACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTC
* *
50762617 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTC
* *
50762663 AGCTTTAATCTGTTCCATTGCAACGCCAAGGAAATGAGATTCGTTGCCTTC
1 AGCTTTAATC---T--ACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTC
* * *
50762714 AGCTTTAATCTACTGCGACGCC-AGAGAAATAAGATTCGTAGCGTTC
1 AGCTTTAATCTACTGCAACGCCAAG-GAAATAAGATTCGTTGCCTTC
* * * * * *
50762760 AGCTTTAATCTATTACAATGTCAAGGAAACAAGATCCGTTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTC
50762806 AGCTTTAAT
1 AGCTTTAAT
50762815 TTGTTCCACT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 121 0.57
47 2 0.01
48 2 0.01
49 2 0.01
51 82 0.39
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (46 bp):
AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTC
Found at i:50762651 original size:97 final size:96
Alignment explanation
Indices: 50762520--50762770 Score: 403
Period size: 97 Copynumber: 2.6 Consensus size: 96
50762510 TGTGATTTAT
*
50762520 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTCCCACT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCG-TGCCTTCAGCTTTAATCTGTCCCACT
50762585 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
65 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
50762617 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTTCCATT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCG-TGCCTTCAGCTTTAATCTGTCCCACT
* * *
50762682 GCAACGCCAAGGAAATGAGATTCGTTGCCTTC
65 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
50762714 AGCTTTAATCTACTGCGACGCCAGAGAAATAAGATTCGTAGCGTTCAGCTTTAATCT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGT-GCCTTCAGCTTTAATCT
50762771 ATTACAATGT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 1 0.01
97 143 0.99
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (96 bp):
AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTGCCTTCAGCTTTAATCTGTCCCACTA
CAACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:50762826 original size:97 final size:93
Alignment explanation
Indices: 50762520--50762814 Score: 396
Period size: 97 Copynumber: 3.1 Consensus size: 93
50762510 TGTGATTTAT
* *
50762520 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTCCCACT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCG-TGCCTTCAGCTTTAATCT-T--CATT
*
50762585 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
62 ACAACGCCAAGGAAATAAGATTCGTTGCCTTC
50762617 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTTCCATT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCG-TGCCTTCAGCTTTAATC--TT-CATT
* *
50762682 GCAACGCCAAGGAAATGAGATTCGTTGCCTTC
62 ACAACGCCAAGGAAATAAGATTCGTTGCCTTC
* *
50762714 AGCTTTAATCTACTGCGACGCCAGAGAAATAAGATTCGTAGCGTTCAGCTTTAATC-T-ATTACA
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGT-GCCTTCAGCTTTAATCTTCATTACA
* * * *
50762777 ATGTCAAGGAAACAAGATCCGTTGCCTTC
65 ACGCCAAGGAAATAAGATTCGTTGCCTTC
50762806 AGCTTTAAT
1 AGCTTTAAT
50762815 TTGTTCCACT
Statistics
Matches: 181, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
92 38 0.21
94 1 0.01
96 1 0.01
97 139 0.77
98 1 0.01
99 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (93 bp):
AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTGCCTTCAGCTTTAATCTTCATTACAA
CGCCAAGGAAATAAGATTCGTTGCCTTC
Found at i:50774081 original size:22 final size:22
Alignment explanation
Indices: 50774056--50774097 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
50774046 AGGCAAATAA
50774056 ATTAATAATGG-AATAAAACAAT
1 ATTAATAATGGCAA-AAAACAAT
50774078 ATTAATAATGGCAAAAAACA
1 ATTAATAATGGCAAAAAACA
50774098 TAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.24
Consensus pattern (22 bp):
ATTAATAATGGCAAAAAACAAT
Found at i:50774917 original size:22 final size:22
Alignment explanation
Indices: 50774882--50774939 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
50774872 TTGTTATTTT
* *
50774882 TATTTTTTTTATTTTTGGACTG
1 TATTATTTGTATTTTTGGACTG
*
50774904 ATATTATTTG-A--TTTGGGCTG
1 -TATTATTTGTATTTTTGGACTG
50774924 TATTATTTGTATTTTT
1 TATTATTTGTATTTTT
50774940 ATATTGTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.31
20 9 0.31
22 4 0.14
23 7 0.24
ACGTcount: A:0.17, C:0.03, G:0.16, T:0.64
Consensus pattern (22 bp):
TATTATTTGTATTTTTGGACTG
Found at i:50774929 original size:19 final size:21
Alignment explanation
Indices: 50774895--50774937 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
50774885 TTTTTTTATT
50774895 TTTGGACTGATATTATTTG-A
1 TTTGGACTGATATTATTTGTA
*
50774915 TTTGGGCTG-TATTATTTGTA
1 TTTGGACTGATATTATTTGTA
50774935 TTT
1 TTT
50774938 TTATATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (21 bp):
TTTGGACTGATATTATTTGTA
Found at i:50777088 original size:21 final size:20
Alignment explanation
Indices: 50777062--50777109 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50777052 CAATTCCGCA
*
50777062 ACATTGGCTTTGAATGTCATG
1 ACATTGGC-TTGAATGTCACG
*
50777083 ACATTGACTTGAATGTCACG
1 ACATTGGCTTGAATGTCACG
*
50777103 ATATTGG
1 ACATTGG
50777110 AGACAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (20 bp):
ACATTGGCTTGAATGTCACG
Found at i:50781002 original size:43 final size:43
Alignment explanation
Indices: 50780956--50781152 Score: 249
Period size: 43 Copynumber: 4.6 Consensus size: 43
50780946 CAATGTCATA
* * * ** *
50780956 TCCCAGATATGGTCTTACATGTTATCATATATCGATGCCTCTA
1 TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
*
50780999 TCCCAGACAGGGTCTTACACG-AATCATATA-C-AGTGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCATATATCGA-TGCCAATG
* *
50781040 TCCCAGACATGGTCTTACACGTAATCTTATATTGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
*
50781083 TCCCAGACATGGTCTTACACGTAATC-TCATATTGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCAT-ATATCGATGCCAATG
*
50781126 TCCCAGACATGGTCTTACACGAAATCA
1 TCCCAGACATGGTCTTACACGTAATCA
50781153 CAACTCGAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
40 1 0.01
41 26 0.19
42 17 0.12
43 92 0.67
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
Found at i:50781097 original size:84 final size:86
Alignment explanation
Indices: 50780956--50781152 Score: 256
Period size: 84 Copynumber: 2.3 Consensus size: 86
50780946 CAATGTCATA
* * * **
50780956 TCCCAGATATGGTCTTACATGTTATCATATATCGATGCCTCTATCCCAGACAGGGTCTTACACG-
1 TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATATCCCAGACAGGGTCTTACACGT
50781020 AATCAT-ATACAG-TGCCAATG
66 AATC-TCATACAGATGCCAATG
* * * *
50781040 TCCCAGACATGGTCTTACACGTAATCTTATATTGATGCCAATGTCCCAGACATGGTCTTACACGT
1 TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATATCCCAGACAGGGTCTTACACGT
**
50781105 AATCTCATATTGATGCCAATG
66 AATCTCATACAGATGCCAATG
*
50781126 TCCCAGACATGGTCTTACACGAAATCA
1 TCCCAGACATGGTCTTACACGTAATCA
50781153 CAACTCGAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
84 56 0.58
85 8 0.08
86 33 0.34
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (86 bp):
TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATATCCCAGACAGGGTCTTACACGT
AATCTCATACAGATGCCAATG
Found at i:50781845 original size:68 final size:68
Alignment explanation
Indices: 50781507--50781845 Score: 489
Period size: 68 Copynumber: 5.0 Consensus size: 68
50781497 ATTCGAACAG
* * * * * * *
50781507 CTACATTTATTAAATAAAACAGCATAAATGGTAGTGCATTGAACAGTGAATTTAACACATTCAGA
1 CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
50781572 CAA
66 CAA
* * * * * *
50781575 CTATATTTACTAAATAAAATAGCATAAATGATAGTGCATTGAACAATGAATTTAACACATTCAGA
1 CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
*
50781640 CAG
66 CAA
* *
50781643 CTACATTTACTAAATAAAACACCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
1 CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
*
50781708 AAA
66 CAA
* **
50781711 CTACATTTACTAAATAAAATAGCATAAATGATGGTTCTTTGATCAGTGAATCTAACACATTTGGA
1 CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
50781776 CAA
66 CAA
*
50781779 CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCGGA
1 CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
50781844 CA
66 CA
50781846 GCTTAATTTT
Statistics
Matches: 247, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 247 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (68 bp):
CTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCAGA
CAA
Found at i:50793788 original size:23 final size:23
Alignment explanation
Indices: 50793757--50793805 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
50793747 TTTCCTTCTC
50793757 ATTTAAAAAAT-TACAAAAAAAAA
1 ATTTAAAAAATGTA-AAAAAAAAA
* *
50793780 ATTTTAAAATTGTAAAAAAAAAA
1 ATTTAAAAAATGTAAAAAAAAAA
50793803 ATT
1 ATT
50793806 AGCAGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
ATTTAAAAAATGTAAAAAAAAAA
Found at i:50794800 original size:19 final size:20
Alignment explanation
Indices: 50794768--50794805 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
50794758 ATTTCATAGC
* *
50794768 TAAAAGCAAGGAAA-AAGAA
1 TAAAAACAAAGAAAGAAGAA
50794787 TAAAAACAAAGAAAGAAGA
1 TAAAAACAAAGAAAGAAGA
50794806 CAAATTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.05
Consensus pattern (20 bp):
TAAAAACAAAGAAAGAAGAA
Found at i:50797321 original size:19 final size:20
Alignment explanation
Indices: 50797294--50797331 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
50797284 AAAATTATAA
50797294 TTTTGAAAAATA-AATTTTT
1 TTTTGAAAAATATAATTTTT
* *
50797313 TTTTTAAAATTATAATTTT
1 TTTTGAAAAATATAATTTT
50797332 GAAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTGAAAAATATAATTTTT
Found at i:50797404 original size:18 final size:19
Alignment explanation
Indices: 50797365--50797407 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
50797355 ATTTTTTAAA
*
50797365 AAAATTAAATAAAATTTTT
1 AAAATTAAATAAAATTTCT
50797384 AAAATATAAA-AAAA-TTCT
1 AAAAT-TAAATAAAATTTCT
50797402 AAAATT
1 AAAATT
50797408 CAATGTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
19 9 0.41
20 4 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTAAATAAAATTTCT
Found at i:50797577 original size:25 final size:25
Alignment explanation
Indices: 50797549--50797599 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
50797539 TGACTTGACT
50797549 AGTTCAAAGTAA-ATAAATTATAAAA
1 AGTTCAAAGTAATA-AAATTATAAAA
*
50797574 AGTTCAAAGTTATAAAATTATAAAA
1 AGTTCAAAGTAATAAAATTATAAAA
50797599 A
1 A
50797600 TAAATTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (25 bp):
AGTTCAAAGTAATAAAATTATAAAA
Found at i:50801820 original size:20 final size:19
Alignment explanation
Indices: 50801795--50801832 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50801785 GAGCACTTGG
50801795 GAGCAAAAAGAGTGAAAAAC
1 GAGCAAAAA-AGTGAAAAAC
*
50801815 GAGCAAAAAATTGAAAAA
1 GAGCAAAAAAGTGAAAAA
50801833 TCAAAGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.08, G:0.21, T:0.08
Consensus pattern (19 bp):
GAGCAAAAAAGTGAAAAAC
Found at i:50803672 original size:23 final size:23
Alignment explanation
Indices: 50803642--50803700 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
50803632 AATCTCTTTA
50803642 GTTTCACTTGATTGTTCTACTAT
1 GTTTCACTTGATTGTTCTACTAT
** *
50803665 GTTTCACTTGATTGTTCTGTTGT
1 GTTTCACTTGATTGTTCTACTAT
*
50803688 GTTCCACTTGATT
1 GTTTCACTTGATT
50803701 TCTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.53
Consensus pattern (23 bp):
GTTTCACTTGATTGTTCTACTAT
Found at i:50806057 original size:72 final size:72
Alignment explanation
Indices: 50805973--50806109 Score: 179
Period size: 72 Copynumber: 1.9 Consensus size: 72
50805963 CCAAACAAAT
* * * *
50805973 ATTAAAATTAAATAAAATCTATTTCAGGG-TTTGTT-CTCACCGTTTAACAGATTTTATTCGATT
1 ATTAAAAGTAAATAAAATCTATTTC-GGGATTTATTCCT-ACCGTTCAACAGATTTTATTCAATT
50806036 TTGTTTCAA
64 TTGTTTCAA
* * *
50806045 ATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCTGCCGTTCAACGGATTTTATTCAATTTT
1 ATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCAATTTT
50806110 TATTTTATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 3 0.05
72 51 0.91
73 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (72 bp):
ATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCAATTTT
GTTTCAA
Found at i:50806344 original size:90 final size:88
Alignment explanation
Indices: 50806045--50806623 Score: 524
Period size: 84 Copynumber: 6.7 Consensus size: 88
50806035 TTTGTTTCAA
* * *
50806045 ATTAAAAGT-AAATAAAATCTGTTTCGGGATTTATTCCTGCCGTTCAACGGATTTTATT-CAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATT
* * *
50806108 TTTATTTTATTTCC-AAAAGGGAA
66 TTGATTTTATTTCCAAAAAGAG-T
* * * *
50806131 ATTAAAGTT-AAATAAATTCTGTTTCGGGATTTATTCCCGTCGTTCAACAAATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATT
* *
50806195 TTGATTTTATTTCCAAAACGAGC
66 TTGATTTTATTTCCAAAAAGAGT
* * * *
50806218 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTCAACGGATTGTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATT
50806283 TTGATTTTATTTCCAAAAAATGAGT
66 TTGATTTTATTTCC-AAAAA-GAGT
* * * * *
50806308 ATTAAAATTAAAATAAAATCTGTTTTGAGATTTATTCCTGCTGTTCAACAGATTTTATTTCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATT
* *
50806373 TTGATTTTATTTCTAAAAACAAGT
66 TTGATTTTATTTCCAAAAA-GAGT
* * * * * **
50806397 ATTAAAATTAATATAAAATTTGTTTCGGAATTTATTCCCGCCGTTTAACAAGATCTTATT-TGA-
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAAC-AGATTTTATTCCAAT
* **
50806460 TTTGATTTTGTTTCCAATTTAGA--
65 TTTGATTTTATTTCCAA-AAAGAGT
* * * * * * * **
50806483 ATT-AAATT-AAATTAAATCTGTTCCGAGATCTATTCCCGCCATTTAACAATATTTTATT-TGAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAAC-AGATTTTATTCCAAT
* *
50806545 TTTG-TTTTGTTTCCAAATTAGA--
65 TTTGATTTTATTTCCAAA-AAGAGT
* * * * * *
50806567 ATT-AAATT-ACATTAAATCTGTTTCAGGATTTATTCCCACCGTTTAACAAATTTTATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATT
50806624 TTGATTTAAT
Statistics
Matches: 418, Mismatches: 66, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
83 9 0.02
84 99 0.24
85 9 0.02
86 54 0.13
87 26 0.06
88 83 0.20
89 55 0.13
90 83 0.20
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (88 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATT
TTGATTTTATTTCCAAAAAGAGT
Found at i:50806374 original size:178 final size:175
Alignment explanation
Indices: 50806045--50806540 Score: 540
Period size: 178 Copynumber: 2.8 Consensus size: 175
50806035 TTTGTTTCAA
* * *
50806045 ATTAAAAGT-AAATAAAATCTGTTTCGGGATTTATTCCTGCCGTTCAACGGATTTTATTCAATTT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTGTATTCAATTT
* * * * *
50806109 TTATTTTATTTCCAAAAGGGAAATTAAAGTTAAATAAATTCTGTTTCGGGATTTATTCCCGTCGT
66 TGATTTTATTTCCAAAAAGGAAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCGTCGT
* *
50806174 TCAACAAATTTTATTCCAATTTTGATTTTATTTC-CAAAACGAGC
131 TCAACAAATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGC
* *
50806218 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTCAACGGATTGTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTGTATT-CAATT
* * * *
50806283 TTGATTTTATTTCCAAAAAATGAGTATTAAAATTAAAATAAAATCTGTTTTGAGATTTATTCCTG
65 TTGATTTTATTTCC-AAAAAGGA-AATTAAAATT-AAATAAAATCTGTTTCGAGATTTATTCCCG
* * *
50806348 -CTGTTCAACAGATTTTATTTCAATTTTGATTTTATTTCTAAAAACAAGT
127 TC-GTTCAACAAATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGC
* * * * * **
50806397 ATTAAAATTAATATAAAATTTGTTTCGGAATTTATTCCCGCCGTTTAACAAGATCT-TATTTGA-
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAAC-GGAT-TGTATTCAAT
* ** * * * *
50806460 TTTGATTTTGTTTCCAATTTA-G-AATT-AAATTAAATTAAATCTGTTCCGAGATCTATTCCCGC
64 TTTGATTTTATTTCCAA-AAAGGAAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCGT
* *
50806522 CATTTAACAATATTTTATT
128 CGTTCAACAA-ATTTTATT
50806541 TGATTTTGTT
Statistics
Matches: 271, Mismatches: 40, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
173 39 0.14
174 59 0.22
175 21 0.08
176 6 0.02
177 12 0.04
178 75 0.28
179 51 0.19
180 7 0.03
181 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (175 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTGTATTCAATTT
TGATTTTATTTCCAAAAAGGAAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCGTCGT
TCAACAAATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGC
Found at i:50818814 original size:18 final size:18
Alignment explanation
Indices: 50818761--50818819 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
50818751 AATGATTGTT
50818761 GAAAAAGAAATG-GTG--
1 GAAAAAGAAATGAGTGAA
*
50818776 GAAAAAGAAA-GAGAGATA
1 GAAAAAGAAATGAGTGA-A
50818794 GAAAAAGAAATGAGTGAA
1 GAAAAAGAAATGAGTGAA
*
50818812 GAATAAGA
1 GAAAAAGA
50818820 GAGCGTTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 1 0.03
15 12 0.33
18 18 0.50
19 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAATGAGTGAA
Found at i:50822689 original size:27 final size:27
Alignment explanation
Indices: 50822659--50822935 Score: 303
Period size: 27 Copynumber: 10.3 Consensus size: 27
50822649 GTATTGGGCC
* * * *
50822659 TAAAATGATCGAATTACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAAGG
*
50822686 TAAAATGACCGAAATACCCCCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAAGG
*
50822713 TAAAATGACCGAAATACCC-CCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAA-GG
* *
50822740 TAAAATGACTGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAAGG
* *
50822767 TAAAAAGACCGAAATACCTTCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAAGG
*
50822794 TAAAATGACCGAAATACCCTTGAAAGG
1 TAAAATGACCGAAATACCCTCGAAAGG
* * * *
50822821 TAAAATGACTGAATTACCCTTGAATGG
1 TAAAATGACCGAAATACCCTCGAAAGG
*
50822848 TAAAATGATC-AAATTACCCTCG-AAGG
1 TAAAATGACCGAAA-TACCCTCGAAAGG
*
50822874 ATAAAATGACCGAAATATCCTC-AAATGG
1 -TAAAATGACCGAAATACCCTCGAAA-GG
** *
50822902 TAAAATGATTGAAATACCC-CGAAGGG
1 TAAAATGACCGAAATACCCTCGAAAGG
50822928 TAAAATGA
1 TAAAATGA
50822936 TTGTTATACC
Statistics
Matches: 215, Mismatches: 27, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.09
27 186 0.87
28 9 0.04
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAAGG
Found at i:50823140 original size:26 final size:26
Alignment explanation
Indices: 50823111--50823187 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
50823101 TTGCTACATA
50823111 TACTGTTACTGGCAGCTTTGTTGTGT
1 TACTGTTACTGGCAGCTTTGTTGTGT
**
50823137 TACTGTTACTGGCAGCTTTGTTGCAT
1 TACTGTTACTGGCAGCTTTGTTGTGT
* * *
50823163 CACTATTACTGGCAGCTTTGCTGTG
1 TACTGTTACTGGCAGCTTTGTTGTG
50823188 ATATTGGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGTTGTGT
Found at i:50823337 original size:28 final size:28
Alignment explanation
Indices: 50823293--50823358 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
50823283 ATTGCATTGT
* *
50823293 ACTGTTACTGTATTGGGTTAAGACCCAC
1 ACTGTTACTGTAATGGGCTAAGACCCAC
* *
50823321 ACTGTTATTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGACCCAC
50823349 ACTG-TACTGT
1 ACTGTTACTGT
50823359 TACTGTATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (28 bp):
ACTGTTACTGTAATGGGCTAAGACCCAC
Found at i:50823372 original size:33 final size:33
Alignment explanation
Indices: 50823290--50823385 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 33
50823280 ATTATTGCAT
* * *
50823290 TGTACTGTTACTGTATTGGGTTAA-GACC-CAC
1 TGTACTGTTACTGTATAGGGCTAAGGCCCACAC
*
50823321 ---ACTGTTATTGTA-ATGGGCTAAGGCCCACAC
1 TGTACTGTTACTGTATA-GGGCTAAGGCCCACAC
* *
50823351 TGTACTGTTACTGTATAGGGCTCAGGCCCAGAC
1 TGTACTGTTACTGTATAGGGCTAAGGCCCACAC
50823384 TG
1 TG
50823386 CTATTGCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
28 17 0.33
29 3 0.06
30 3 0.06
33 27 0.53
34 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (33 bp):
TGTACTGTTACTGTATAGGGCTAAGGCCCACAC
Found at i:50828295 original size:48 final size:48
Alignment explanation
Indices: 50828240--50828437 Score: 281
Period size: 48 Copynumber: 4.1 Consensus size: 48
50828230 TCCAAGGTAC
* * * *
50828240 CTAATTTATATTACAAAGTATGTTTCTTGTTTTAATGTTGCAATATAT
1 CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGCAATGTAT
* *
50828288 CTAATTTATATTACAAAGTTTGTTCATCGTTTTAATGTTGTAATGTAT
1 CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGCAATGTAT
50828336 CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGCAATGTAT
1 CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGCAATGTAT
* * ** *
50828384 CTAATTTATGTTACAAAGTTTATTCCAAGTTTTAATGTTACAAT-TAAT
1 CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGCAATGT-AT
50828432 CTAATT
1 CTAATT
50828438 AAACAAATAC
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 1 0.01
48 135 0.99
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (48 bp):
CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGCAATGTAT
Found at i:50830534 original size:12 final size:12
Alignment explanation
Indices: 50830517--50830541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50830507 CTAAATGTGA
50830517 TACAATAAATTT
1 TACAATAAATTT
50830529 TACAATAAATTT
1 TACAATAAATTT
50830541 T
1 T
50830542 CATTACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TACAATAAATTT
Found at i:50830830 original size:28 final size:28
Alignment explanation
Indices: 50830799--50830855 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
50830789 AAATAAACAT
**
50830799 AATAAATCTA-ATAAACCTAAAACATAAA
1 AATAAAT-TACATAAAAATAAAACATAAA
50830827 AATAAATTACATAAAAATAAAACATAAA
1 AATAAATTACATAAAAATAAAACATAAA
50830855 A
1 A
50830856 GATTCTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (28 bp):
AATAAATTACATAAAAATAAAACATAAA
Found at i:50830838 original size:15 final size:13
Alignment explanation
Indices: 50830816--50830855 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 13
50830806 CTAATAAACC
50830816 TAAAACATAAAAA
1 TAAAACATAAAAA
50830829 TAAATTACATAAAAA
1 TAAA--ACATAAAAA
50830844 TAAAACATAAAA
1 TAAAACATAAAA
50830856 GATTCTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAACATAAAAA
Found at i:50831158 original size:31 final size:31
Alignment explanation
Indices: 50831105--50831176 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
50831095 AACCCCGAAT
*
50831105 ACAACCTCTTAATTTTTTTCAAA-CACTAAAC
1 ACAACCTCTTAATTTTTTTCAAATC-CCAAAC
50831136 ACAACC-C-TAATTCTTTTCTCAAATCCCAAAC
1 ACAACCTCTTAATT-TTTT-TCAAATCCCAAAC
50831167 ACAACCTCTT
1 ACAACCTCTT
50831177 CTCCTTCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 5 0.14
30 5 0.14
31 22 0.63
32 2 0.06
33 1 0.03
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (31 bp):
ACAACCTCTTAATTTTTTTCAAATCCCAAAC
Found at i:50831212 original size:14 final size:14
Alignment explanation
Indices: 50831173--50831219 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
50831163 AAACACAACC
50831173 TCTTCTCCTTCCTTTT
1 TCTTCT-CTTCC-TTT
*
50831189 TCTCCT-TTCCTTT
1 TCTTCTCTTCCTTT
*
50831202 TCTTCTCTTCCATT
1 TCTTCTCTTCCTTT
50831216 TCTT
1 TCTT
50831220 TTCCTTCCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 8 0.30
14 14 0.52
16 5 0.19
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTCTCTTCCTTT
Found at i:50838047 original size:29 final size:33
Alignment explanation
Indices: 50838005--50838075 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
50837995 ATATATGAAC
50838005 TTTAATTTAATATGT-AATTT-TATACAT-AAAT
1 TTTAATTT-ATATGTAAATTTATATACATGAAAT
* *
50838036 TTTAATTT-TATGTAAATTTATATATATGAATT
1 TTTAATTTATATGTAAATTTATATACATGAAAT
50838068 TTTAATTT
1 TTTAATTT
50838076 GATTCAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.14
30 5 0.14
31 14 0.40
32 11 0.31
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (33 bp):
TTTAATTTATATGTAAATTTATATACATGAAAT
Found at i:50840147 original size:27 final size:28
Alignment explanation
Indices: 50840088--50840161 Score: 116
Period size: 27 Copynumber: 2.7 Consensus size: 28
50840078 AAAAATAAAA
50840088 ATTTATCAAAATAT-TACAACTTTTTTTT
1 ATTTATCAAAATATATA-AACTTTTTTTT
50840116 ATTTATCAAAATATATAAAC-TTTTTTT
1 ATTTATCAAAATATATAAACTTTTTTTT
*
50840143 ATTTACCAAAATATATAAA
1 ATTTATCAAAATATATAAA
50840162 AAAAACCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 25 0.57
28 17 0.39
29 2 0.05
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTATCAAAATATATAAACTTTTTTTT
Found at i:50840265 original size:27 final size:27
Alignment explanation
Indices: 50840235--50840301 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
50840225 CGCCAATGGT
50840235 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* **
50840262 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
50840289 ATTGGCGGCACCA
1 ATTGGCGGCACCA
50840302 GTTGGTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:50840359 original size:4 final size:4
Alignment explanation
Indices: 50840343--50840456 Score: 67
Period size: 4 Copynumber: 27.2 Consensus size: 4
50840333 CAGAAGGAGG
* *
50840343 GAAA GAAA AAAA GAAA GGAAA GGAAA GAAA GAAAA GGAAA G-GA GAAGA
1 GAAA GAAA GAAA GAAA -GAAA -GAAA GAAA G-AAA -GAAA GAAA GAA-A
*
50840391 GAAA -AAA GGAAA GAAA G-AA G-AA GAAAA GGAGTA GAGAA GAAA -AAA
1 GAAA GAAA -GAAA GAAA GAAA GAAA G-AAA -GA-AA GA-AA GAAA GAAA
*
50840436 GAAA GAAA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA G
50840457 GGAAAGGAGA
Statistics
Matches: 90, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
3 14 0.16
4 42 0.47
5 31 0.34
6 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:50840365 original size:5 final size:5
Alignment explanation
Indices: 50840355--50840407 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
50840345 AAGAAAAAAA
*
50840355 GAAAG GAAAG GAAA- GAAAG AAAAG GAAAG GAGAAG AGAAA- -AAAG GAAA-
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GA-AAG -GAAAG GAAAG GAAAG
50840403 GAAAG
1 GAAAG
50840408 AAGAAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.08
4 8 0.20
5 22 0.55
6 5 0.12
7 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:50840372 original size:26 final size:26
Alignment explanation
Indices: 50840343--50840455 Score: 76
Period size: 24 Copynumber: 4.3 Consensus size: 26
50840333 CAGAAGGAGG
50840343 GAAAGAAAAAAAGAAAGGAAAGGAAA
1 GAAAGAAAAAAAGAAAGGAAAGGAAA
*
50840369 GAAAG--AAAAGGAAAGGAGAAGAGAAA
1 GAAAGAAAAAAAGAAAGGA-AAG-GAAA
* * *
50840395 -AAAGGAAAGAAAGAAGAAGAAAAGGAGTA
1 GAAA-GAAAAAAAG-A-AAGGAAAGGA-AA
*
50840424 GAGAAG-AAAAAAGAAA-GAAA-GAAG
1 GA-AAGAAAAAAAGAAAGGAAAGGAAA
50840448 GAAAGAAA
1 GAAAGAAA
50840456 GGGAAAGGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
23 3 0.04
24 15 0.22
25 8 0.12
26 13 0.19
27 2 0.03
28 7 0.10
29 11 0.16
30 6 0.09
31 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (26 bp):
GAAAGAAAAAAAGAAAGGAAAGGAAA
Found at i:50840404 original size:34 final size:38
Alignment explanation
Indices: 50840361--50840490 Score: 132
Period size: 39 Copynumber: 3.5 Consensus size: 38
50840351 AAAAGAAAGG
*
50840361 AAAGGAAAGAAAGAA-AAGGAAAGGAG-A-AG-AGAAA
1 AAAGGAAAGAAAGAAGAAGAAAAGGAGTAGAGAAGAAA
50840395 AAAGGAAAGAAAGAAGAAGAAAAGGAGTAGAGAAGAAA
1 AAAGGAAAGAAAGAAGAAGAAAAGGAGTAGAGAAGAAA
* *
50840433 AAA-GAAAGAAAGAAGGAAAGAAAGGGA-AAGGAGAAGAGAA
1 AAAGGAAAGAAAGAA-G-AAGAAAAGGAGTA-GAGAAGA-AA
*
50840473 AAA-AAAAG-AAGAAGAAGA
1 AAAGGAAAGAAAGAAGAAGA
50840491 GGGAAGAAAG
Statistics
Matches: 84, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
34 15 0.18
35 10 0.12
36 1 0.01
37 17 0.20
38 11 0.13
39 21 0.25
40 9 0.11
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (38 bp):
AAAGGAAAGAAAGAAGAAGAAAAGGAGTAGAGAAGAAA
Found at i:50840473 original size:12 final size:12
Alignment explanation
Indices: 50840379--50840473 Score: 51
Period size: 12 Copynumber: 8.3 Consensus size: 12
50840369 GAAAGAAAAG
50840379 GAAAGGAGAAGA
1 GAAAGGAGAAGA
**
50840391 GAAAAAAGGAA-A
1 GAAAGGA-GAAGA
*
50840403 GAAAGAAGAAGA
1 GAAAGGAGAAGA
*
50840415 -AAAGGAGTAGA
1 GAAAGGAGAAGA
* *
50840426 G-AA-GAAAAAA
1 GAAAGGAGAAGA
*
50840436 GAAAGAAAGAAG-
1 GAAAG-GAGAAGA
*
50840448 GAAA-GA-AAGG
1 GAAAGGAGAAGA
50840458 GAAAGGAGAAGA
1 GAAAGGAGAAGA
50840470 GAAA
1 GAAA
50840474 AAAAAAGAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
9 3 0.05
10 10 0.16
11 18 0.30
12 24 0.39
13 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (12 bp):
GAAAGGAGAAGA
Found at i:50840501 original size:44 final size:44
Alignment explanation
Indices: 50840348--50840489 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
50840338 GGAGGGAAAG
* *
50840348 AAAAAAAGAAAGGAAAGGAAAGAAAGAAAAGGAAAGGAGAAGAG--
1 AAAAAAAGAAA-GAAA-GAAGGAAAGAAAGGGAAAGGAGAAGAGAA
* *
50840392 AAAAAAGGAAAGAAAGAA-G-AAG--A---AAAGGAGTAGAGAA
1 AAAAAAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA
*
50840429 GAAAAAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA
1 AAAAAAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA
50840473 AAAAAAAG-AAG-AAGAAG
1 AAAAAAAGAAAGAAAGAAG
50840490 AGGGAAGAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
35 11 0.13
37 16 0.19
38 2 0.02
39 3 0.04
40 3 0.04
41 2 0.02
42 9 0.11
43 7 0.08
44 30 0.36
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (44 bp):
AAAAAAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA
Found at i:50840546 original size:19 final size:19
Alignment explanation
Indices: 50840522--50840559 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50840512 GGAAAAAGGT
50840522 AATTTTATTTATAA-ATTTG
1 AATTTT-TTTATAATATTTG
*
50840541 AATTTTTTTGTAATATTTG
1 AATTTTTTTATAATATTTG
50840560 TGTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTTTTTTATAATATTTG
Found at i:50846879 original size:26 final size:26
Alignment explanation
Indices: 50846830--50846882 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
50846820 ACACACTAAA
* *
50846830 ATTATTAATTTTATACTACGAATAAT
1 ATTAATAATTTTATACTACAAATAAT
50846856 ATTAATAATTTTATACT-CAAAATAAT
1 ATTAATAATTTTATACTAC-AAATAAT
50846882 A
1 A
50846883 CACACTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAATAATTTTATACTACAAATAAT
Found at i:50846934 original size:62 final size:61
Alignment explanation
Indices: 50846802--50846914 Score: 151
Period size: 62 Copynumber: 1.9 Consensus size: 61
50846792 GTTTTAAAAA
** *
50846802 AATT-ATACTCAAAATAATACACACTAAAATTATTAATTTTATACTACGAATAATATTAAT
1 AATTAATACTCAAAATAATACACACTAAAATTATTAATTTTATACTAAAAAAAATATTAAT
* *
50846862 AATTTTATACTCAAAATAATACACACTTAAATTATTAATTTT-T-CTAAAAAAAA
1 AA-TTAATACTCAAAATAATACACACTAAAATTATTAATTTTATACTAAAAAAAA
50846915 CTAACTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
60 9 0.19
61 3 0.06
62 35 0.74
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (61 bp):
AATTAATACTCAAAATAATACACACTAAAATTATTAATTTTATACTAAAAAAAATATTAAT
Found at i:50847066 original size:3 final size:3
Alignment explanation
Indices: 50847058--50847110 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
50847048 TCTTCATACT
50847058 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
50847106 AAC AA
1 AAC AA
50847111 TAATAATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:50847115 original size:3 final size:3
Alignment explanation
Indices: 50847109--50847146 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
50847099 CAACAACAAC
*
50847109 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AACT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
50847147 CTTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50847214 original size:19 final size:21
Alignment explanation
Indices: 50847192--50847230 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
50847182 ACTAAAACAA
*
50847192 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
50847211 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
50847231 ATCAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:50847519 original size:27 final size:29
Alignment explanation
Indices: 50847482--50847552 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
50847472 TTTTTTTTTG
50847482 ATATATTTTGGTAAAT-AAAAAAAGTT-T
1 ATATATTTTGGTAAATAAAAAAAAGTTGT
50847509 ATATATTTTGGTAAATAAAAAAAAGTTGT
1 ATATATTTTGGTAAATAAAAAAAAGTTGT
50847538 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
50847553 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.38
28 24 0.57
29 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTGT
Found at i:50849317 original size:12 final size:12
Alignment explanation
Indices: 50849276--50849334 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
50849266 CTTTAATAAG
50849276 ATTTAATATTAA
1 ATTTAATATTAA
*
50849288 A-TTAATATAAA
1 ATTTAATATTAA
50849299 ATATT-ATATTAA
1 AT-TTAATATTAA
*
50849311 ATTTTATAAGATTAA
1 A--TT-TAATATTAA
50849326 ATTTAATAT
1 ATTTAATAT
50849335 CAAAGTGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
11 10 0.27
12 13 0.35
13 5 0.14
14 2 0.05
15 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:50856978 original size:262 final size:262
Alignment explanation
Indices: 50856513--50857017 Score: 947
Period size: 262 Copynumber: 1.9 Consensus size: 262
50856503 GGAAGACATC
*
50856513 TTCAAACTCTGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAGTT
1 TTCAAACTCTGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAGTG
*
50856578 TCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTGCAAGAT
66 TCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTACAAGAT
50856643 ACTACTTTCAATTATCCAAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCATC
131 ACTACTTTCAATTATCCAAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCATC
*
50856708 AATTTAACCTTGCAATATTCATGATTTTACTTCCAATTATATACTTTGCTAATAGTTGTTAAAAG
196 AATTTAACCTTGCAATATTCATGAATTTACTTCCAATTATATACTTTGCTAATAGTTGTTAAAAG
50856773 TA
261 TA
50856775 TTCAAACTCTGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAGTG
1 TTCAAACTCTGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAGTG
* *
50856840 TCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTTGGACTACAAGAT
66 TCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTACAAGAT
*
50856905 ACTACTTTCAATTATCCGAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCATC
131 ACTACTTTCAATTATCCAAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCATC
*
50856970 GATTTAACCTTGCAATATTCATGAATTTACTTCCAATTATATACTTTG
196 AATTTAACCTTGCAATATTCATGAATTTACTTCCAATTATATACTTTG
50857018 ATCTAATATA
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
262 236 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (262 bp):
TTCAAACTCTGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAGTG
TCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTACAAGAT
ACTACTTTCAATTATCCAAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCATC
AATTTAACCTTGCAATATTCATGAATTTACTTCCAATTATATACTTTGCTAATAGTTGTTAAAAG
TA
Found at i:50858290 original size:28 final size:28
Alignment explanation
Indices: 50858256--50858342 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
50858246 AAATCCAACT
*
50858256 TATAAGATAATCCTGACAGATTTCCATA
1 TATAAGATAATCTTGACAGATTTCCATA
* * *
50858284 TATAAGATAATCTTGACAAACTTCCACA
1 TATAAGATAATCTTGACAGATTTCCATA
*
50858312 TATAAGATAATCTTGGCAGACTTT-CATA
1 TATAAGATAATCTTGACAGA-TTTCCATA
50858340 TAT
1 TAT
50858343 CTTTCATAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 48 0.96
29 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
TATAAGATAATCTTGACAGATTTCCATA
Found at i:50868511 original size:94 final size:92
Alignment explanation
Indices: 50868409--50868687 Score: 283
Period size: 94 Copynumber: 2.9 Consensus size: 92
50868399 GTTTGTCAAT
* * * *
50868409 TAAATTAATTATAAATTTTCAAAATTGGATTA-GTTTTCGTGTTTATTATTTTTTAAGAAAAAAT
1 TAAATTAATTATAAATTTTAAAAATTAGATTAGGGTTTAGTGTTTA--A-TTTTTAAGAAAAAAT
*
50868473 CAATTAAATTAGGGTTTAGGGTTACTTGAG
63 CAAATAAATTAGGGTTTAGGGTTACTTGAG
* * * * * * * *
50868503 TAATTTAATTAAAAAAATTTAAAAATCAAATTAGGGTTTAGAG-TTAAGGGTTTTAAGGAAAAAT
1 TAAATTAATT-ATAAATTTTAAAAATTAGATTAGGGTTTAGTGTTTAA--TTTTTAAGAAAAAAT
*
50868567 CAAATAAATTAGGGTTCAGGGTTACTTGAG
63 CAAATAAATTAGGGTTTAGGGTTACTTGAG
*
50868597 TAAATTAATTATAAATTTTTAATAAATTAGTTTAGGGTTTAGTGTTTAGGATTTTTAAGAAAAAA
1 TAAATTAATTATAAA-TTTTAA-AAATTAGATTAGGGTTTAGTGTTTA--ATTTTTAAG-AAAAA
* *
50868662 ACTCAAATAAATTTGGGTTTGGGGTT
61 A-TCAAATAAATTAGGGTTTAGGGTT
50868688 TAGGGTTACT
Statistics
Matches: 148, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
93 5 0.03
94 64 0.43
95 36 0.24
96 16 0.11
97 5 0.03
98 22 0.15
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (92 bp):
TAAATTAATTATAAATTTTAAAAATTAGATTAGGGTTTAGTGTTTAATTTTTAAGAAAAAATCAA
ATAAATTAGGGTTTAGGGTTACTTGAG
Found at i:50868958 original size:126 final size:126
Alignment explanation
Indices: 50868721--50869147 Score: 660
Period size: 126 Copynumber: 3.4 Consensus size: 126
50868711 TTGTTAATTT
* * *
50868721 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTATG-TCTTGAGAAAATAATTTCGAGTAGA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA-GCCCCTGAAAAAATAATTTCGAGTAGA
* * * * *
50868785 CGTTTCTGAGCAAACAGTGTCAAAAATGCTTTAAGAATGATGTTTTGTCAGCAGAAGTATTG
65 CGTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
50868847 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
*
50868912 GTTTCTGAGAAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
** * * * * *
50868973 AAAGAAGCTCCCACGTGGACTTGCTTTTTCTACAGTTGCCCCTAAAAAAATAATTTTGAATAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
*
50869038 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAATACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
50869099 AAAGAAGCTCCCACGTGGA-GCACTTTTGCTACAGTAACCCCTGAAAAAA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAA
50869148 CTCCCACGCG
Statistics
Matches: 275, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 24 0.09
126 251 0.91
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:50869165 original size:43 final size:43
Alignment explanation
Indices: 50869096--50869177 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
50869086 AGCAGAAATA
* *
50869096 CTGAAAGAAGCTCCCACGTGGAGCACTTTTGCTACAGTAACCC
1 CTGAAAGAAACTCCCACGCGGAGCACTTTTGCTACAGTAACCC
50869139 CTGAAA-AAACTCCCACGCGGATGCACTTTTGCTACAGTA
1 CTGAAAGAAACTCCCACGCGGA-GCACTTTTGCTACAGTA
50869178 GCGCATAGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 13 0.36
43 23 0.64
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
CTGAAAGAAACTCCCACGCGGAGCACTTTTGCTACAGTAACCC
Found at i:50872613 original size:21 final size:21
Alignment explanation
Indices: 50872575--50872619 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50872565 TTGTCCAGCT
* * * *
50872575 TCCAGCGGGGGTTGTGGTTGC
1 TCCAGCGAGGATTCTGGTTCC
50872596 TCCAGCGAGGATTCTGGTTCC
1 TCCAGCGAGGATTCTGGTTCC
50872617 TCC
1 TCC
50872620 GGTAGGGGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.27, G:0.36, T:0.29
Consensus pattern (21 bp):
TCCAGCGAGGATTCTGGTTCC
Found at i:50874714 original size:24 final size:25
Alignment explanation
Indices: 50874677--50874724 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
50874667 AATATTTACG
*
50874677 ATTTAAAAAATTTTTTAAAAATAAA
1 ATTTAAAAAATTTTTAAAAAATAAA
*
50874702 ATTT-AAAACTTTTTAAAAAATAA
1 ATTTAAAAAATTTTTAAAAAATAA
50874725 TTAACAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTTAAAAAATTTTTAAAAAATAAA
Done.