Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 12 of 313
Found at i:3791218 original size:21 final size:22
Alignment explanation
Indices: 3791194--3791248 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
3791184 TAAAGTAACT
3791194 ATTTATTATATATTACATA-AA
1 ATTTATTATATATTACATATAA
* *
3791215 ATTTCATTTATATTTTACATATAT
1 ATTT-A-TTATATATTACATATAA
3791239 ATTT-TTATAT
1 ATTTATTATAT
3791249 GCATGCGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 13 0.45
24 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATTATATATTACATATAA
Found at i:3797189 original size:3 final size:3
Alignment explanation
Indices: 3797181--3797225 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
3797171 CAAGGTGATT
* *
3797181 TTC TTC TTC TTC TTC GTC TTC TTC TTC TTC TTC ATC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3797226 CACCTCCTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:3801541 original size:12 final size:12
Alignment explanation
Indices: 3801524--3801549 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3801514 GCTAACGAAA
3801524 TAACCAGACAGT
1 TAACCAGACAGT
3801536 TAACCAGACAGT
1 TAACCAGACAGT
3801548 TA
1 TA
3801550 CACATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (12 bp):
TAACCAGACAGT
Found at i:3808971 original size:18 final size:17
Alignment explanation
Indices: 3808931--3808964 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3808921 ATGTGTACAA
*
3808931 ATAATATATATATGTAT
1 ATAATATATATATGAAT
3808948 ATAATA-ATATATGAAT
1 ATAATATATATATGAAT
3808964 A
1 A
3808965 CTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATAATATATATATGAAT
Found at i:3810043 original size:40 final size:40
Alignment explanation
Indices: 3809921--3810058 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
3809911 ACCTCGAGTC
*
3809921 GATGAGACACTGGGTGTCAATTTATTACTTC-AGATATAT-T
1 GATGAGACACTGAGTGTCAATTTATTACTTCGA-AT-TATCT
* * ** * *
3809961 CGATGAGGCACTGAGTGCCAA---ATTACTTCGGTTTAGCC
1 -GATGAGACACTGAGTGTCAATTTATTACTTCGAATTATCT
*
3809999 GATGAGACACTGAATGTCAATTTATTACTTCGAATTATCT
1 GATGAGACACTGAGTGTCAATTTATTACTTCGAATTATCT
* *
3810039 GATGAGGCACTGGGTGTCAA
1 GATGAGACACTGAGTGTCAA
3810059 ACTGGTGTGT
Statistics
Matches: 75, Mismatches: 17, Indels: 11
0.73 0.17 0.11
Matches are distributed among these distances:
37 19 0.25
38 9 0.12
40 30 0.40
41 17 0.23
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGAGTGTCAATTTATTACTTCGAATTATCT
Found at i:3813640 original size:43 final size:43
Alignment explanation
Indices: 3813590--3813676 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
3813580 TCATATTTGA
3813590 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
* * * *
3813633 TTTCTCATCTCATATTCATTTCTCATCTTTGCCCTTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
3813676 T
1 T
3813677 AATCATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.23, C:0.24, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:3824008 original size:19 final size:20
Alignment explanation
Indices: 3823971--3824009 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3823961 TTAACAACCA
3823971 TAAAATAAAAATGATCAAAT
1 TAAAATAAAAATGATCAAAT
*
3823991 TAAAATATAAAT-ATCAAAT
1 TAAAATAAAAATGATCAAAT
3824010 ATGTAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAAATAAAAATGATCAAAT
Found at i:3828397 original size:19 final size:19
Alignment explanation
Indices: 3828373--3828409 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3828363 TTTTATTAAT
*
3828373 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
3828392 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
3828410 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:3831812 original size:7 final size:7
Alignment explanation
Indices: 3831800--3831872 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
3831790 AATATATTTT
3831800 AGAATTG
1 AGAATTG
3831807 AGAATTG
1 AGAATTG
3831814 AGAATTG
1 AGAATTG
* *
3831821 AAAATTA
1 AGAATTG
*
3831828 AGAATTA
1 AGAATTG
*
3831835 AGGATT-
1 AGAATTG
*
3831841 ACGAATTT
1 A-GAATTG
3831849 AGAATTG
1 AGAATTG
*
3831856 AGGATTG
1 AGAATTG
*
3831863 AGTATTG
1 AGAATTG
3831870 AGA
1 AGA
3831873 TAAAAAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
6 1 0.02
7 53 0.96
8 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.25, T:0.30
Consensus pattern (7 bp):
AGAATTG
Found at i:3832384 original size:65 final size:65
Alignment explanation
Indices: 3832313--3832495 Score: 224
Period size: 65 Copynumber: 2.8 Consensus size: 65
3832303 TATAAGATAA
* * * * * * *
3832313 ATAATTTGTGTATTTATATTTGGTATTTAAATATCTAATTGAATTATAATCATATTTGTTTTAAT
1 ATAATTTGTGTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATAATTATTTTAAT
* * * *
3832378 ATAATTTGTATATTTATAACTCATATTTAAATATTTTATTAAATTATAATAATAATTATTTTAAT
1 ATAATTTGTGTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATAATTATTTTAAT
* * *
3832443 ATAATTTGTAG-ATTTGTAATTGACATTAAAATATTTTATTGAATTATAATAAT
1 ATAATTTGT-GTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAAT
3832496 TTTAATAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
65 99 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (65 bp):
ATAATTTGTGTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATAATTATTTTAAT
Found at i:3832493 original size:18 final size:20
Alignment explanation
Indices: 3832461--3832499 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3832451 TAGATTTGTA
3832461 ATTGACATTAAAAT-ATTTT
1 ATTGACATTAAAATAATTTT
*
3832480 ATTGA-ATTATAATAATTTT
1 ATTGACATTAAAATAATTTT
3832499 A
1 A
3832500 ATAAAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTGACATTAAAATAATTTT
Found at i:3834680 original size:160 final size:159
Alignment explanation
Indices: 3834409--3834713 Score: 452
Period size: 160 Copynumber: 1.9 Consensus size: 159
3834399 CAAAAATTGA
* *
3834409 TTACAATGCTTTTTTTTTCTTTGAACAAAATTTGTTCATTCATTTTTTTTTTGTATTTCATTTGT
1 TTACAATGCTTTTTTTTTCTTT-AACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTGT
* * * *
3834474 ATTTTTCACTATCTACTAACATTTATATAATGGAAAAATTGCTACTTTAAGCT-TTACATCAAAT
65 ATTTGTCACCATCTACTAACATTCATATAATGGAAAAATAGCTACTTTAAG-TGTTACATCAAAT
3834538 ACCAATTACAATTTCTCTAGCGATGGAACTT
129 ACCAATTACAATTTCTCTAGCGATGGAACTT
3834569 TTACAATGCTTCTTTTTTTC-TTATACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTG
1 TTACAATGCTT-TTTTTTTCTTTA-ACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTG
* * * * * *
3834633 TATTTGTCGCCGTTTACTAACATTCATATAGTGGAAAAATAGCTACTTTAAGTGTTACGTCAAGT
64 TATTTGTCACCATCTACTAACATTCATATAATGGAAAAATAGCTACTTTAAGTGTTACATCAAAT
3834698 ACCAATTACAATTTCT
129 ACCAATTACAATTTCT
3834714 TTGCCGATTG
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
159 2 0.02
160 120 0.92
161 8 0.06
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (159 bp):
TTACAATGCTTTTTTTTTCTTTAACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTGTA
TTTGTCACCATCTACTAACATTCATATAATGGAAAAATAGCTACTTTAAGTGTTACATCAAATAC
CAATTACAATTTCTCTAGCGATGGAACTT
Found at i:3835855 original size:17 final size:17
Alignment explanation
Indices: 3835827--3835871 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
3835817 AACGGGGACT
*
3835827 AAATTGAAAGTGCAATA
1 AAATTTAAAGTGCAATA
*
3835844 AATTTTAAAGTGCAATA
1 AAATTTAAAGTGCAATA
3835861 AAATTTAAAGT
1 AAATTTAAAGT
3835872 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (17 bp):
AAATTTAAAGTGCAATA
Found at i:3837675 original size:188 final size:187
Alignment explanation
Indices: 3837408--3837864 Score: 504
Period size: 188 Copynumber: 2.4 Consensus size: 187
3837398 TCCACTATAG
* * * ** *
3837408 CTTCAAGGATATAAGATTTGTAATTTCATCTTGTTCCATTGCAACTTCAGGGAGATAAGATTCAC
1 CTTCAGGGGTATAAGATTTATAGCTTCATCTTGTT-CATTGCAACTTCAGGGAGATAAGATTCGC
* ** * * * *
3837473 CATTATAACTTCAATCCAACCCACTGTAACTCCAGGGGTATATAATTTGTAGCTTTATTTTTACT
65 CATTATAGCTTCAATCCAACCCACTACAACTCCAAGGGTATACAATTTATAACTTTA-TTTTACT
* * ** * *
3837538 CCA-TGCAACTTTAGGGAGATAAGATTCACTATGGTGGCTTCAAT-TAAATCCGTTGCAA
129 CCACTACAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCT-AACCCATTGCAA
* * * *
3837596 CTTCAGGGGTATAAGATTTATAGCTTCATCTTGCTTCACTGCATCTTTAGGGAGATAAAATTCGC
1 CTTCAGGGGTATAAGATTTATAGCTTCATCTTG-TTCATTGCAACTTCAGGGAGATAAGATTCGC
*** *
3837661 CATTATAGCTTCAATTTGACCCACTACAACTTCAAGGGTATACAATTTATAACTTTATTTTACTC
65 CATTATAGCTTCAATCCAACCCACTACAACTCCAAGGGTATACAATTTATAACTTTATTTTACTC
* * *
3837726 CACTACAACTTCAGGGAGATAAGATTCGCTATGGTAACTTTAATCTGACCCATTGCAA
130 CACTACAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCTAACCCATTGCAA
* * * * * * *
3837784 CTTTAGGGGTATACGGTTTATAGCTTTATCTTGGTCCATTGCAACTTCAGAGAGATAAGATTTGC
1 CTTCAGGGGTATAAGATTTATAGCTTCATCTT-GTTCATTGCAACTTCAGGGAGATAAGATTCGC
* *
3837849 CATTTTAGTTTCAATC
65 CATTATAGCTTCAATC
3837865 TATTCCACTA
Statistics
Matches: 221, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
187 10 0.05
188 207 0.94
189 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (187 bp):
CTTCAGGGGTATAAGATTTATAGCTTCATCTTGTTCATTGCAACTTCAGGGAGATAAGATTCGCC
ATTATAGCTTCAATCCAACCCACTACAACTCCAAGGGTATACAATTTATAACTTTATTTTACTCC
ACTACAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCTAACCCATTGCAA
Found at i:3837865 original size:94 final size:94
Alignment explanation
Indices: 3837435--3838033 Score: 337
Period size: 94 Copynumber: 6.4 Consensus size: 94
3837425 TTGTAATTTC
* * * * ** ** * *
3837435 ATCTTGTTCCATTGCAACTTCAGGGAGATAAGATTCACCATTATAACTTCAATCCAACCCACTGT
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTAGTTTCAATCTGACCCATTGC
* ** *
3837500 AACTCCAGGGGTATATAATTTGTAGCTTT
66 AACTTCAGGGGTATACGATTTATAGCTTT
* * * * * ** * * * * *
3837529 ATTTTTACTCCA-TGCAACTTTAGGGAGATAAGATTCACTATGGTGGCTTCAAT-TAAATCCGTT
1 A-TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTAGTTTCAATCT-GACCCATT
* *
3837592 GCAACTTCAGGGGTATAAGATTTATAGCTTC
64 GCAACTTCAGGGGTATACGATTTATAGCTTT
* * * * * * * * *
3837623 ATCTTGCTTCACTGCATCTTTAGGGAGATAAAATTCGCCATTATAGCTTCAATTTGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTAGTTTCAATCTGACCCATTGC
* * *
3837688 AACTTCAAGGGTATACAATTTATAACTTT
66 AACTTCAGGGGTATACGATTTATAGCTTT
* * * * * * *
3837717 ATTTTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAACTTT-AATCTGACCCATTG
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-TTTAGTTTCAATCTGACCCATTG
* *
3837781 CAACTTTAGGGGTATACGGTTTATAGCTTT
65 CAACTTCAGGGGTATACGATTTATAGCTTT
* * * * * * *
3837811 ATCTTGGTCCATTGCAACTTCAGAGAGATAAGATTTGCCATTTTAGTTTCAATCT-ATTCCACTA
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTAGTTTCAATCTGA-CCCATTG
* * * * * * *
3837875 AAACTTTAAGGATATAAGGTTTGTAGCTTT
65 CAACTTCAGGGGTATACGATTTATAGCTTT
* * * ** * * * * * * * *
3837905 GTCTTGCTCTACTGCAACTTTAGATATATAAGACTCGCAATTGT-GATTTCATTCCGACCTACTG
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTAG-TTTCAATCTGACCCATTG
* * * * * *
3837969 TAACATCAAGGGTATAGGAATTGTAGCTTT
65 CAACTTCAGGGGTATACGATTTATAGCTTT
* * *
3837999 AATC-TGATCCACTGCAACTCCAGGGATATAAGATT
1 -ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATT
3838034 TGTAGCTTCA
Statistics
Matches: 385, Mismatches: 110, Indels: 20
0.75 0.21 0.04
Matches are distributed among these distances:
93 14 0.04
94 357 0.93
95 14 0.04
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (94 bp):
ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTAGTTTCAATCTGACCCATTGC
AACTTCAGGGGTATACGATTTATAGCTTT
Found at i:3838105 original size:94 final size:94
Alignment explanation
Indices: 3837995--3838197 Score: 291
Period size: 94 Copynumber: 2.2 Consensus size: 94
3837985 GGAATTGTAG
* *
3837995 CTTTAATCTGATCCACTGCAACTCCAGGGATATAAGATTTGTAGCTTCAT-CTTACACCACTACA
1 CTTTAATCTGACCCACTGCAACTCCAGGGAGATAAGATTTGTAGCTTCATCCTT-CACCACTACA
* *
3838059 ACTTCAGGGAGATAAGATTCGCTACGGTAA
65 ACTTCAAGGAGATAAAATTCGCTACGGTAA
* * * * *
3838089 CTTTAATCAGACCCACTGCAACTTCAGTGAGATAAGATTTGTAGCTTCATCCTTCTCCACTGCAA
1 CTTTAATCTGACCCACTGCAACTCCAGGGAGATAAGATTTGTAGCTTCATCCTTCACCACTACAA
*
3838154 CTTCAAGGAGATAAAATTCGCTATGGTAA
66 CTTCAAGGAGATAAAATTCGCTACGGTAA
*
3838183 CTTCAATCTGACCCA
1 CTTTAATCTGACCCA
3838198 TTGTAACTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 93 0.97
95 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (94 bp):
CTTTAATCTGACCCACTGCAACTCCAGGGAGATAAGATTTGTAGCTTCATCCTTCACCACTACAA
CTTCAAGGAGATAAAATTCGCTACGGTAA
Found at i:3838165 original size:44 final size:44
Alignment explanation
Indices: 3838006--3838167 Score: 123
Period size: 44 Copynumber: 3.5 Consensus size: 44
3837996 TTTAATCTGA
* * *
3838006 TCCACTGCAACTCCAGGGATATAAGATTTGTAGCTTCAT-CTTAC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCATCCTT-C
* * * * * ***
3838050 ACCACTACAACTTCAGGGAGATAAGATTCGCTACGGTAACTTTAATCAGAC
1 TCCACTGCAACTTCAAGGAGATAAGATT---T---GTAGC-TTCATCCTTC
3838101 -CCACTGCAACTTC-AGTGAGATAAGATTTGTAGCTTCATCCTTC
1 TCCACTGCAACTTCAAG-GAGATAAGATTTGTAGCTTCATCCTTC
3838144 TCCACTGCAACTTCAAGGAGATAA
1 TCCACTGCAACTTCAAGGAGATAA
3838168 AATTCGCTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
43 6 0.07
44 48 0.53
45 2 0.02
47 2 0.02
49 1 0.01
50 27 0.30
51 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCATCCTTC
Found at i:3840391 original size:19 final size:19
Alignment explanation
Indices: 3840363--3840399 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3840353 CTCGACACAC
* *
3840363 TCTTGGATTTCATGAAATT
1 TCTTGCATTTAATGAAATT
3840382 TCTTGCATTTAATGAAAT
1 TCTTGCATTTAATGAAAT
3840400 GTAGTGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (19 bp):
TCTTGCATTTAATGAAATT
Found at i:3841808 original size:38 final size:38
Alignment explanation
Indices: 3841742--3841814 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
3841732 ACCAGTTTGG
*
3841742 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTAA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTAA
* * *
3841780 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGT
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGT
3841815 GGTACCCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.90
39 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTAA
Found at i:3842931 original size:16 final size:17
Alignment explanation
Indices: 3842899--3842932 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3842889 AATCCTTAGT
*
3842899 TTTCTCTTTTATCTTTC
1 TTTCCCTTTTATCTTTC
3842916 TTTCCCTTTT-TCTTTC
1 TTTCCCTTTTATCTTTC
3842932 T
1 T
3842933 CTTTTCTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCCCTTTTATCTTTC
Found at i:3846707 original size:6 final size:6
Alignment explanation
Indices: 3846696--3846724 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3846686 CATCTTCTTA
3846696 ATCATG ATCATG ATCATG ATCATG ATCAT
1 ATCATG ATCATG ATCATG ATCATG ATCAT
3846725 CATCTTCAAC
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:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (6 bp):
ATCATG
Found at i:3846792 original size:24 final size:24
Alignment explanation
Indices: 3846742--3846818 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
3846732 AACTTTTTCG
* *
3846742 TCTTCACCTCAACCCTTGTAC-TGA
1 TCTTCACCTCAACCCTCGT-CTTCA
*
3846766 TCTTCACCTCGACCCTCGTCTTCA
1 TCTTCACCTCAACCCTCGTCTTCA
* * *
3846790 TCTTCATCTCTATCCC-CGTCTTCG
1 TCTTCACCTC-AACCCTCGTCTTCA
3846814 TCTTC
1 TCTTC
3846819 GTCTCCATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 40 0.91
25 3 0.07
ACGTcount: A:0.13, C:0.42, G:0.08, T:0.38
Consensus pattern (24 bp):
TCTTCACCTCAACCCTCGTCTTCA
Found at i:3849281 original size:17 final size:18
Alignment explanation
Indices: 3849261--3849294 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3849251 AATGAATTTT
*
3849261 TTTATTGTAT-AAATTAA
1 TTTATTGAATGAAATTAA
3849278 TTTATTGAATGAAATTA
1 TTTATTGAATGAAATTA
3849295 TTAATTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTTATTGAATGAAATTAA
Found at i:3849703 original size:21 final size:21
Alignment explanation
Indices: 3849665--3849714 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
3849655 GATTTGGGTG
* * *
3849665 GTTCAGCTCTGACGAGCTTTT
1 GTTCAGCTCTCACAAGCTTCT
*
3849686 GTTCAGCTTTCACAAGCTTCT
1 GTTCAGCTCTCACAAGCTTCT
*
3849707 ATTCAGCT
1 GTTCAGCT
3849715 GTTATGAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (21 bp):
GTTCAGCTCTCACAAGCTTCT
Found at i:3853090 original size:20 final size:21
Alignment explanation
Indices: 3853054--3853094 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3853044 CTGCAGTGTT
3853054 AAAAATTTTAAATGTTTCCGA
1 AAAAATTTTAAATGTTTCCGA
*
3853075 AAAAATTTTTAA-GTTTCCGA
1 AAAAATTTTAAATGTTTCCGA
3853095 TTTAGTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAAATTTTAAATGTTTCCGA
Found at i:3853398 original size:16 final size:17
Alignment explanation
Indices: 3853359--3853393 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3853349 TTATATCGAC
*
3853359 AAAA-TAAAATATTTTA
1 AAAATTAAAAAATTTTA
3853375 AAAATTAAAAAATTTTA
1 AAAATTAAAAAATTTTA
3853392 AA
1 AA
3853394 TTTAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTAAAAAATTTTA
Found at i:3853802 original size:8 final size:8
Alignment explanation
Indices: 3853781--3853829 Score: 64
Period size: 8 Copynumber: 6.1 Consensus size: 8
3853771 TAAATAAGAA
3853781 ATAATAATT
1 ATAATAA-T
3853790 ATAATAAT
1 ATAATAAT
3853798 ATAATAAT
1 ATAATAAT
3853806 ATAATAAT
1 ATAATAAT
**
3853814 AT-ATGTT
1 ATAATAAT
3853821 ATAATAAT
1 ATAATAAT
3853829 A
1 A
3853830 ATAGAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 5 0.14
8 23 0.66
9 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATAATAAT
Found at i:3855302 original size:52 final size:52
Alignment explanation
Indices: 3855218--3855320 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
3855208 CCCAGACTCA
*
3855218 AAGTGGTGAATACTTTTCTTTTGGTAAAATGGCATGTACCTAGGTTGTTAAT
1 AAGTGGTGAATACTTTTCTTTTGGTAAAATGGCATGCACCTAGGTTGTTAAT
**
3855270 AAGTGGTGAATACTTTTCTTTTGGTAGTATGGCATGCACCTAGGTTGTTAA
1 AAGTGGTGAATACTTTTCTTTTGGTAAAATGGCATGCACCTAGGTTGTTAA
3855321 GGTGTTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (52 bp):
AAGTGGTGAATACTTTTCTTTTGGTAAAATGGCATGCACCTAGGTTGTTAAT
Found at i:3857990 original size:20 final size:20
Alignment explanation
Indices: 3857965--3858025 Score: 122
Period size: 20 Copynumber: 3.0 Consensus size: 20
3857955 ACACGACTGC
3857965 TCCCAAGCCACACGGGCGTG
1 TCCCAAGCCACACGGGCGTG
3857985 TCCCAAGCCACACGGGCGTG
1 TCCCAAGCCACACGGGCGTG
3858005 TCCCAAGCCACACGGGCGTG
1 TCCCAAGCCACACGGGCGTG
3858025 T
1 T
3858026 GCCTCTATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.39, G:0.30, T:0.11
Consensus pattern (20 bp):
TCCCAAGCCACACGGGCGTG
Found at i:3859804 original size:17 final size:17
Alignment explanation
Indices: 3859782--3859828 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
3859772 TTTTAGAATT
3859782 TTTTTAAAAATTTATAA
1 TTTTTAAAAATTTATAA
*
3859799 TTTTTAAAAATATATAA
1 TTTTTAAAAATTTATAA
**
3859816 AATTTAAAAATTT
1 TTTTTAAAAATTT
3859829 TTTACAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTAAAAATTTATAA
Found at i:3859839 original size:26 final size:26
Alignment explanation
Indices: 3859788--3859839 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
3859778 AATTTTTTTA
*
3859788 AAAATTTATAATTTTTAAAAATATAT
1 AAAATTTAAAATTTTTAAAAATATAT
*
3859814 AAAATTTAAAAATTTTTTACAAATAT
1 AAAATTT-AAAA-TTTTTAAAAATAT
3859840 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 3 0.14
28 12 0.55
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
AAAATTTAAAATTTTTAAAAATATAT
Found at i:3861969 original size:21 final size:20
Alignment explanation
Indices: 3861930--3861969 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3861920 ACATAAATAC
* *
3861930 TAGTTATTATTTAACATATA
1 TAGTTATTAATTAAAATATA
3861950 TAGTTATATAATTAAAATAT
1 TAGTTAT-TAATTAAAATAT
3861970 TTTGTGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TAGTTATTAATTAAAATATA
Found at i:3864459 original size:36 final size:36
Alignment explanation
Indices: 3864419--3864489 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
3864409 AGGAATGAGG
3864419 CAGTCCAAAATCTATTCTCAAACTACGGAATCTTAA
1 CAGTCCAAAATCTATTCTCAAACTACGGAATCTTAA
*
3864455 CAGTCCAAAATCTATTCTCAAATTACGGAATCTTA
1 CAGTCCAAAATCTATTCTCAAACTACGGAATCTTA
3864490 CATTGGAGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (36 bp):
CAGTCCAAAATCTATTCTCAAACTACGGAATCTTAA
Found at i:3872782 original size:22 final size:22
Alignment explanation
Indices: 3872758--3872799 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3872748 ATTATTTTTA
3872758 AAAATCATAAAA-ATTATAAAC
1 AAAATCATAAAATATTATAAAC
* *
3872779 AAAATTATAAAATATTTTAAA
1 AAAATCATAAAATATTATAAA
3872800 ACTATGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATCATAAAATATTATAAAC
Found at i:3876557 original size:6 final size:6
Alignment explanation
Indices: 3876546--3876580 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
3876536 AGGGAGCAAC
*
3876546 TTCCTA TTCCTA TACCTA TTCCTA TTCCTA TTCCT
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCT
3876581 CCCTCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (6 bp):
TTCCTA
Found at i:3876774 original size:26 final size:26
Alignment explanation
Indices: 3876726--3876779 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
3876716 ATCATCTCTT
* *
3876726 TTCATTACTTTAATGTTATATTAATAA
1 TTCATTACTTTAATATTAAATTAA-AA
3876753 TTCATTA-TTTAATATTAAATTAAAA
1 TTCATTACTTTAATATTAAATTAAAA
3876778 TT
1 TT
3876780 TTTGAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 14 0.56
27 7 0.28
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (26 bp):
TTCATTACTTTAATATTAAATTAAAA
Found at i:3882011 original size:3 final size:3
Alignment explanation
Indices: 3881998--3882058 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
3881988 CATTTAACAG
* * *
3881998 AGA AAA AGA AGA AGA AGA AGA AG- AGA GGA AGA AGA AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
3882045 AAA AGA AGA AGA AG
1 AGA AGA AGA AGA AG
3882059 CAGCAGCAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3883137 original size:9 final size:9
Alignment explanation
Indices: 3883123--3883147 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3883113 AATGTTTAGC
3883123 AGGGCTGGT
1 AGGGCTGGT
3883132 AGGGCTGGT
1 AGGGCTGGT
3883141 AGGGCTG
1 AGGGCTG
3883148 TCAAATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.56, T:0.20
Consensus pattern (9 bp):
AGGGCTGGT
Found at i:3883587 original size:16 final size:16
Alignment explanation
Indices: 3883551--3883665 Score: 98
Period size: 16 Copynumber: 7.4 Consensus size: 16
3883541 GTTTGGTTCA
* *
3883551 CTGTAATAGAATAGGG
1 CTGTAATTGAATAGAG
*
3883567 ATGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
3883583 CTGTAA-TGAAATAGAG
1 CTGTAATTG-AATAGAG
*
3883599 CTGTAATCT---T-CA-
1 CTGTAAT-TGAATAGAG
* *
3883611 CTGTAATGGAATAGGG
1 CTGTAATTGAATAGAG
*
3883627 ATGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
*
3883643 CTGTAATGGAATAGAG
1 CTGTAATTGAATAGAG
3883659 CTGTAAT
1 CTGTAAT
3883666 CAATAATTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
12 7 0.09
13 1 0.01
14 2 0.03
15 2 0.03
16 65 0.83
18 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:3883640 original size:60 final size:60
Alignment explanation
Indices: 3883547--3883666 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
3883537 TTACGTTTGG
3883547 TTCACTGTAATAGAATAGGGATGTAATTGAATAGAGCTGTAATGAAATAGAGCTGTAATC
1 TTCACTGTAATAGAATAGGGATGTAATTGAATAGAGCTGTAATGAAATAGAGCTGTAATC
* *
3883607 TTCACTGTAATGGAATAGGGATGTAATTGAATAGAGCTGTAATGGAATAGAGCTGTAATC
1 TTCACTGTAATAGAATAGGGATGTAATTGAATAGAGCTGTAATGAAATAGAGCTGTAATC
3883667 AATAATTCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (60 bp):
TTCACTGTAATAGAATAGGGATGTAATTGAATAGAGCTGTAATGAAATAGAGCTGTAATC
Found at i:3883855 original size:25 final size:25
Alignment explanation
Indices: 3883811--3883861 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
3883801 GTTGATAGAT
3883811 GATTATTGTTATTAAA-TTTTAATAA
1 GATTATTGTTA-TAAATTTTTAATAA
3883836 GATTATTGTTA-AATATTTTTTAATAA
1 GATTATTGTTATAA-A-TTTTTAATAA
3883862 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 1 0.04
25 11 0.48
26 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
GATTATTGTTATAAATTTTTAATAA
Found at i:3883922 original size:24 final size:21
Alignment explanation
Indices: 3883901--3883959 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
3883891 TAACATAATT
3883901 ATTATTAAATATAATTTAATAA
1 ATTATT-AATATAATTTAATAA
* *
3883923 AATAAT-ATATAATTTAATAA
1 ATTATTAATATAATTTAATAA
3883943 CATTATTAATATAATTT
1 -ATTATTAATATAATTT
3883960 TTAATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.45
21 4 0.13
22 13 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTATTAATATAATTTAATAA
Found at i:3883923 original size:55 final size:54
Alignment explanation
Indices: 3883863--3883983 Score: 127
Period size: 57 Copynumber: 2.2 Consensus size: 54
3883853 TTTTAATAAA
* * *
3883863 AATAAAAATAAATAATTTAATCATATT-TTAACATAATTATTATTAAATATAATTT
1 AATAAAAATAAATAATTTAATAACATTATTAACATAATTATTAAT-AATA-AATTT
* * * *
3883918 AATAAAATAATATATAATTTAATAACATTATTAATATAATTTTTAATAATAATTTT
1 AAT-AAA-AATAAATAATTTAATAACATTATTAACATAATTATTAATAATAAATTT
3883974 AATATAAAAT
1 AATA-AAAAT
3883984 TATTATTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
55 7 0.13
56 12 0.22
57 22 0.40
58 14 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (54 bp):
AATAAAAATAAATAATTTAATAACATTATTAACATAATTATTAATAATAAATTT
Found at i:3883962 original size:24 final size:24
Alignment explanation
Indices: 3883935--3883980 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3883925 TAATATATAA
*
3883935 TTTAATAA-CATTATTAATATAATT
1 TTTAATAATAATT-TTAATATAATT
3883959 TTTAATAATAATTTTAATATAA
1 TTTAATAATAATTTTAATATAA
3883981 AATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAATAATAATTTTAATATAATT
Found at i:3886467 original size:40 final size:40
Alignment explanation
Indices: 3886423--3886503 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
3886413 TTAGTTATAC
3886423 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
3886463 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
3886503 T
1 T
3886504 AGAGTTCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (40 bp):
TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
Found at i:3888179 original size:33 final size:34
Alignment explanation
Indices: 3888115--3888182 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
3888105 GCTCAAATCC
*
3888115 ATCATCTCCTAAATGGGAAACGAACTTGAAAATG
1 ATCATCTCCTAAATAGGAAACGAACTTGAAAATG
*
3888149 ATCATCTCCTGAATAGGAAAC-AACTTGAAAATG
1 ATCATCTCCTAAATAGGAAACGAACTTGAAAATG
3888182 A
1 A
3888183 CACTTATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (34 bp):
ATCATCTCCTAAATAGGAAACGAACTTGAAAATG
Found at i:3893743 original size:23 final size:22
Alignment explanation
Indices: 3893717--3893761 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3893707 ATAATTTTCA
3893717 AAAATAGATTATGATTTTTTTTG
1 AAAAT-GATTATGATTTTTTTTG
**
3893740 AAAATTTTTATGATTTTTTTTG
1 AAAATGATTATGATTTTTTTTG
3893762 GATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (22 bp):
AAAATGATTATGATTTTTTTTG
Found at i:3893750 original size:22 final size:21
Alignment explanation
Indices: 3893725--3893789 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
3893715 CAAAAATAGA
3893725 TTATGATTTTTTTTGAAAATTT
1 TTATGATTTTTTTTG-AAATTT
*
3893747 TTATGATTTTTTTTG-GATTT
1 TTATGATTTTTTTTGAAATTT
3893767 TTAATGATATTTTTTT-AAATTT
1 TT-ATGAT-TTTTTTTGAAATTT
3893789 T
1 T
3893790 CAAGTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.16
21 5 0.13
22 27 0.71
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (21 bp):
TTATGATTTTTTTTGAAATTT
Found at i:3894006 original size:20 final size:20
Alignment explanation
Indices: 3893981--3894018 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3893971 TATTTAGCCT
3893981 TCTTTTAATTAAAACATTTA
1 TCTTTTAATTAAAACATTTA
**
3894001 TCTTTTTTTTAAAACATT
1 TCTTTTAATTAAAACATT
3894019 CAAAAATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (20 bp):
TCTTTTAATTAAAACATTTA
Found at i:3897529 original size:2 final size:2
Alignment explanation
Indices: 3897522--3897549 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3897512 AAATCAAAGT
3897522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3897550 AAAGCCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3897769 original size:22 final size:22
Alignment explanation
Indices: 3897744--3897786 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3897734 TGTAATAATA
*
3897744 ATATTTTAATTTTAGAATATAT
1 ATATTTTAATTTTAAAATATAT
*
3897766 ATATTTTAGTTTTAAAATATA
1 ATATTTTAATTTTAAAATATA
3897787 ATTACATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTTTAATTTTAAAATATAT
Found at i:3898343 original size:41 final size:41
Alignment explanation
Indices: 3898296--3898401 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
3898286 AAAAGGTAAG
*
3898296 CAATAGTAGTGTTTTTGGTCCAAACGGCGTAAAA-AGTTGAA
1 CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAACA-TTGAA
* *
3898337 CAATAGTGACGT-TTTTT-GTCCAAATGCCGTAAAACATTGAG
1 CAATAGT-A-GTGTTTTTGGTCCAAACGCCGTAAAACATTGAA
* *
3898378 CAATAATAGCGTTTTTGGT-CAAAC
1 CAATAGTAGTGTTTTTGGTCCAAAC
3898402 TCCGCGAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 1 0.02
40 10 0.19
41 34 0.63
42 7 0.13
43 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (41 bp):
CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAACATTGAA
Found at i:3898829 original size:7 final size:7
Alignment explanation
Indices: 3898817--3898964 Score: 80
Period size: 7 Copynumber: 20.7 Consensus size: 7
3898807 ATGACTTTCT
3898817 CTAAACC
1 CTAAACC
3898824 CTAAACC
1 CTAAACC
*
3898831 CTAAAACT
1 CT-AAACC
3898839 CTAAACC
1 CTAAACC
*
3898846 TTAAACC
1 CTAAACC
*
3898853 ATAAACC
1 CTAAACC
*
3898860 ATAAACC
1 CTAAACC
* *
3898867 ATAAACA
1 CTAAACC
*
3898874 CTAAACT
1 CTAAACC
* **
3898881 TTAAATA
1 CTAAACC
* *
3898888 ATAAACA
1 CTAAACC
3898895 CTAAACC
1 CTAAACC
* *
3898902 TTAAAGC
1 CTAAACC
3898909 CTAAACC
1 CTAAACC
*
3898916 ATAAAACC
1 CT-AAACC
*
3898924 ATAAACC
1 CTAAACC
*
3898931 ATAAACC
1 CTAAACC
* *
3898938 ATAAACT
1 CTAAACC
3898945 CTAAAACC
1 CT-AAACC
* *
3898953 TTAAACA
1 CTAAACC
3898960 CTAAA
1 CTAAA
3898965 AACTAAATTT
Statistics
Matches: 113, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
7 95 0.84
8 18 0.16
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:3898864 original size:21 final size:21
Alignment explanation
Indices: 3898819--3898958 Score: 106
Period size: 22 Copynumber: 6.5 Consensus size: 21
3898809 GACTTTCTCT
* * *
3898819 AAACCCTAAACCCTAAAACTCT
1 AAACCATAAACCATAAACCT-T
* *
3898841 AAACCTTAAACCATAAACCAT
1 AAACCATAAACCATAAACCTT
*
3898862 AAACCATAAACAC-TAAACTTT
1 AAACCATAAAC-CATAAACCTT
**
3898883 AAATAATAAA-CACTAAACCTT
1 AAACCATAAACCA-TAAACCTT
*
3898904 AAAGCC-TAAACCATAAAACCAT
1 AAA-CCATAAACCAT-AAACCTT
*
3898926 AAACCATAAACCATAAACTCTA
1 AAACCATAAACCATAAAC-CTT
*
3898948 AAACCTTAAAC
1 AAACCATAAAC
3898959 ACTAAAAACT
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
19 1 0.01
21 46 0.49
22 47 0.50
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (21 bp):
AAACCATAAACCATAAACCTT
Found at i:3898924 original size:8 final size:7
Alignment explanation
Indices: 3898818--3898943 Score: 98
Period size: 7 Copynumber: 17.7 Consensus size: 7
3898808 TGACTTTCTC
*
3898818 TAAACCC
1 TAAACCA
*
3898825 TAAACCC
1 TAAACCA
3898832 TAAAACTC-
1 T-AAAC-CA
*
3898840 TAAACCT
1 TAAACCA
3898847 TAAACCA
1 TAAACCA
3898854 TAAACCA
1 TAAACCA
3898861 TAAACCA
1 TAAACCA
3898868 TAAA-CA
1 TAAACCA
**
3898874 CTAAACTT
1 -TAAACCA
**
3898882 TAAATAA
1 TAAACCA
3898889 TAAA-CA
1 TAAACCA
*
3898895 CTAAACCT
1 -TAAACCA
3898903 TAAAGCC-
1 TAAA-CCA
3898910 TAAACCA
1 TAAACCA
3898917 TAAAACCA
1 T-AAACCA
3898925 TAAACCA
1 TAAACCA
3898932 TAAACCA
1 TAAACCA
3898939 TAAAC
1 TAAAC
3898944 TCTAAAACCT
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
6 6 0.06
7 79 0.78
8 15 0.15
9 1 0.01
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:3899437 original size:41 final size:41
Alignment explanation
Indices: 3899364--3899442 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
3899354 AATTTTAATT
* * *
3899364 AAGTTGAGCAATAGTGTGTTTTTGGCTTCAAACGCCGCAAA
1 AAGTTGAGCAATAGTGTGTTTTTAGCTCCAAACACCGCAAA
3899405 AAGTTG-GACAATAGTGGTGTTTTTAG-TCCAAACACCGC
1 AAGTTGAG-CAATAGT-GTGTTTTTAGCTCCAAACACCGC
3899443 GAATATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.03
41 23 0.70
42 9 0.27
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (41 bp):
AAGTTGAGCAATAGTGTGTTTTTAGCTCCAAACACCGCAAA
Found at i:3899591 original size:117 final size:117
Alignment explanation
Indices: 3899434--3899955 Score: 665
Period size: 116 Copynumber: 4.5 Consensus size: 117
3899424 TTTTTAGTCC
* * * * * *
3899434 AAACACCGCGAATAT-TTATTAAAAGATTGCAAAACGTTGTCGTCTTTACCTGCGCTTTTAGTGG
1 AAACGCCGCGAATATGTT-TTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGG
* *
3899498 CGTTTTTACTAAAACGCCACAAAAGTATATGCGTTAGTGTCGTTTTCAAAAAA
65 CGTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAAA
* * *
3899551 AAACGCCACGAATATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGC
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * *
3899616 ATTTTTACTAAAACGCCACAAAAGGATATGCGTTAGCGGCGTTTTC-ACAAA
66 GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAAA
* * * * * *
3899667 AAACACCGCGAATATGTTTTACGAGTTTGCAAAATGTTGCCATTTTTATCTGTGTTTTTAGTGGC
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * * *
3899732 GTTTTTACTAAAACCCCGA-AAAAGGATATGCATTAGTGGCATTTTCACAAAA
66 GTTTTTACTAAAACGCC-ACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAAA
* * * *
3899784 AAACGTCGCGAATATGTTTTAAGAGTTTGCAAAATGTTGTC-TTTTTATCTGTGTTTTTAGTGGT
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * * * *
3899848 GTTTTTACTAAAAAGCCGCAAAAGGATATGTGTTAGTGGTGTTTTCACAAAA
66 GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAAA
** * *
3899900 AAACGTTGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTAGCTGCGTT
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTT
3899956 AGTGGCGCTT
Statistics
Matches: 353, Mismatches: 47, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
116 203 0.58
117 148 0.42
118 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (117 bp):
AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAAA
Found at i:3899800 original size:233 final size:232
Alignment explanation
Indices: 3899434--3899953 Score: 695
Period size: 233 Copynumber: 2.2 Consensus size: 232
3899424 TTTTTAGTCC
* * * *
3899434 AAACACCGCGAATAT-TTATTAAAAGATTGCAAAACGTTGTCGTCTTTACCTGCGCTTTTAGTGG
1 AAACACCGCGAATATGTT-TTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCGCTTTTAGTGG
* * * * *
3899498 CGTTTTTACTAAAACGCCACAAAAGTATATGCGTTAGTGTCGTTTTCAAAAAAAAACGCCACGAA
65 CGTTTTTACTAAAACCCCACAAAAGGATATGCATTAGTGGCATTTTCAAAAAAAAACGCCACGAA
*
3899563 TATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGCATTTTTACTAAA
130 TATGTTTTAAGAGTTTGCAAAACATTGTC-TTTTTATCTGCGTTTTTAGTGGCATTTTTACTAAA
*
3899628 ACGCCACAAAAGGATATGCGTTAGCGGCGTTTTCACAAA
194 AAGCCACAAAAGGATATGCGTTAGCGGCGTTTTCACAAA
* * * * * *
3899667 AAACACCGCGAATATGTTTTACGAGTTTGCAAAATGTTGCCATTTTTATCTGTGTTTTTAGTGGC
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCGCTTTTAGTGGC
* * *
3899732 GTTTTTACTAAAACCCCGA-AAAAGGATATGCATTAGTGGCATTTTCACAAAAAAACGTCGCGAA
66 GTTTTTACTAAAACCCC-ACAAAAGGATATGCATTAGTGGCATTTTCAAAAAAAAACGCCACGAA
** * **
3899796 TATGTTTTAAGAGTTTGCAAAATGTTGTCTTTTTATCTGTGTTTTTAGTGGTGTTTTTACTAAAA
130 TATGTTTTAAGAGTTTGCAAAACATTGTCTTTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAA
* * * *
3899861 AGCCGCAAAAGGATATGTGTTAGTGGTGTTTTCACAAA
195 AGCCACAAAAGGATATGCGTTAGCGGCGTTTTCACAAA
* *
3899899 AAA-ACGTTGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTAGCTGCG
1 AAACAC--CGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCG
3899954 TTAGTGGCGC
Statistics
Matches: 248, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
231 2 0.01
232 68 0.27
233 175 0.71
234 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (232 bp):
AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCGCTTTTAGTGGC
GTTTTTACTAAAACCCCACAAAAGGATATGCATTAGTGGCATTTTCAAAAAAAAACGCCACGAAT
ATGTTTTAAGAGTTTGCAAAACATTGTCTTTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAAA
GCCACAAAAGGATATGCGTTAGCGGCGTTTTCACAAA
Found at i:3903500 original size:43 final size:43
Alignment explanation
Indices: 3903433--3903556 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
3903423 AGCTCGTACA
* * * * *
3903433 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAACG
* * * * *
3903475 ATGCTACTATCCCAGACAGGGTCTTATATGAAATCATATAACG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAACG
* *
3903518 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACAT
3903557 CTCGGTAATC
Statistics
Matches: 64, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 4 0.06
43 60 0.94
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAACG
Found at i:3912536 original size:17 final size:18
Alignment explanation
Indices: 3912516--3912551 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3912506 TAATCTTGTT
3912516 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
3912533 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
3912551 T
1 T
3912552 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:3912595 original size:6 final size:6
Alignment explanation
Indices: 3912584--3912608 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3912574 TAACTTTGAG
3912584 TAGAAT TAGAAT TAGAAT TAGAAT T
1 TAGAAT TAGAAT TAGAAT TAGAAT T
3912609 TCTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TAGAAT
Found at i:3925587 original size:13 final size:13
Alignment explanation
Indices: 3925569--3925594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3925559 GCAGTATACC
3925569 TACATACATACAT
1 TACATACATACAT
3925582 TACATACATACAT
1 TACATACATACAT
3925595 GTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
TACATACATACAT
Found at i:3934587 original size:14 final size:14
Alignment explanation
Indices: 3934563--3934609 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
3934553 TAAAGGGACC
*
3934563 AAAAATCAAAAGCAA
1 AAAAATGAAAAG-AA
3934578 AAAAA-GAAAAGAA
1 AAAAATGAAAAGAA
3934591 AAGAAATG-AAAGAA
1 AA-AAATGAAAAGAA
3934605 AAAAA
1 AAAAA
3934610 CCCATATCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 7 0.24
14 16 0.55
15 6 0.21
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (14 bp):
AAAAATGAAAAGAA
Found at i:3943504 original size:34 final size:35
Alignment explanation
Indices: 3943465--3943535 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
3943455 AAACCAATAG
3943465 AAAACTC-TCTCTAATAAAAACCAATAAAATTATT
1 AAAACTCGTCTCTAATAAAAACCAATAAAATTATT
* *
3943499 AAAACTCTGTCTCTAATAGAAACCAATAGAATTATT
1 AAAACTC-GTCTCTAATAAAAACCAATAAAATTATT
3943535 A
1 A
3943536 TTCCCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 7 0.21
36 26 0.79
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (35 bp):
AAAACTCGTCTCTAATAAAAACCAATAAAATTATT
Found at i:3943551 original size:22 final size:22
Alignment explanation
Indices: 3943523--3943575 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
3943513 AATAGAAACC
*
3943523 AATAGAATTATTATTCCCAAGA-
1 AATAGAATTACTATTCCCAA-AT
*
3943545 AATAGAATTGCTATTCCCAAAT
1 AATAGAATTACTATTCCCAAAT
3943567 AATAGAATT
1 AATAGAATT
3943576 TATACTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (22 bp):
AATAGAATTACTATTCCCAAAT
Found at i:3943969 original size:15 final size:16
Alignment explanation
Indices: 3943932--3943969 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3943922 AAATAGACAT
*
3943932 TATTTTTTAAATTAAT
1 TATTTTTTAAATTAAA
*
3943948 TAATTTTT-AATTAAA
1 TATTTTTTAAATTAAA
3943963 TATTTTT
1 TATTTTT
3943970 CTTAACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTTAAATTAAA
Found at i:3947510 original size:239 final size:238
Alignment explanation
Indices: 3947087--3947564 Score: 728
Period size: 239 Copynumber: 2.0 Consensus size: 238
3947077 TAAACCTATG
*
3947087 ATGATTATAGTGTTTGTCACTCTTAGCTAAGAATCTCCTTTCAGTCTCATCCTAAACTAAAAGAT
1 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTTTCAGTCTCATCCTAAACTAAAAGAT
* * *
3947152 ACCACCTAGGTTCTCCCTCGGTCTCACCTAGGCATATAGATATCCTCTTGGTTTCACTATTAGAC
66 ACAACCTAGGTTCTCCCTCGGTCTCACCTAGGCATATAGATATCCTCTTGATCTCACTATTAGAC
* * *
3947217 ACAAGTGTATCAAAGTCCTACACGATAGAGTCTCTTCTCAGTCTCATCTATCTAAAT-TTTCCAC
131 ACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATATTT-CAC
*
3947281 TAGAGGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
195 TAGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
* *
3947325 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCT-CTTCTCAGTCTCATCTTAGACTAAAAGA
1 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTT-TCAGTCTCATCCTAAACTAAAAGA
* *
3947389 TTCAACCTAGGTTCTCCTCTCGGTCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCA
65 TACAACCTAGGTTCTCC-CTCGGTCTCACCTAGGCATATAGATATCCTCTTGATCTCACTATT-A
* * * *
3947454 -ACACAAGTGTAACAAAGTCCTACATGATAGAATCTCCTCTTAGTCTCGTTTATCTAAATATTTC
128 GACACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATATTTC
* **
3947518 ATTAGAAGTTTCAATTCTAGTATAATATGCAATTTAATACACTTGA
193 ACTAGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
3947564 A
1 A
3947565 CAAACAACCA
Statistics
Matches: 217, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
237 3 0.01
238 72 0.33
239 138 0.64
240 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (238 bp):
ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTTTCAGTCTCATCCTAAACTAAAAGAT
ACAACCTAGGTTCTCCCTCGGTCTCACCTAGGCATATAGATATCCTCTTGATCTCACTATTAGAC
ACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATATTTCACT
AGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
Found at i:3952561 original size:55 final size:54
Alignment explanation
Indices: 3952478--3952589 Score: 188
Period size: 55 Copynumber: 2.1 Consensus size: 54
3952468 CCAAAGTAGG
* *
3952478 AAAAATATTAAGTTAGGAGATATATAATAGCAGAGGAAAGGAATGAAGGATTATA
1 AAAAACATTAAGTTAGGAGAAATATAATAGCAGAGGAAAGGAATGAAGGATTA-A
*
3952533 AAAAACATTAAGTTAGGAGAAATATAATAGTAGAGGAAAGGAATGAAGGATTAA
1 AAAAACATTAAGTTAGGAGAAATATAATAGCAGAGGAAAGGAATGAAGGATTAA
3952587 AAA
1 AAA
3952590 GAAATTTAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 4 0.07
55 50 0.93
ACGTcount: A:0.54, C:0.02, G:0.23, T:0.21
Consensus pattern (54 bp):
AAAAACATTAAGTTAGGAGAAATATAATAGCAGAGGAAAGGAATGAAGGATTAA
Found at i:3960684 original size:25 final size:23
Alignment explanation
Indices: 3960656--3960730 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 23
3960646 AGCTTAGCGC
3960656 GCTCTCCGATTATTAGCACATTAGT
1 GCTCTCCG--TATTAGCACATTAGT
* *
3960681 GCTCTCCGT-TTAGCAGATTCGT
1 GCTCTCCGTATTAGCACATTAGT
* *
3960703 GCTCTCTGTA-TAGCACTTTAGT
1 GCTCTCCGTATTAGCACATTAGT
3960725 GCTCTC
1 GCTCTC
3960731 TGTTCAATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 34 0.79
23 1 0.02
25 8 0.19
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (23 bp):
GCTCTCCGTATTAGCACATTAGT
Found at i:3960731 original size:22 final size:22
Alignment explanation
Indices: 3960669--3960733 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
3960659 CTCCGATTAT
* *
3960669 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
* *
3960691 TAGCAGATTCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
3960713 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
3960734 TCAATAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:3971443 original size:32 final size:32
Alignment explanation
Indices: 3971389--3971454 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
3971379 GGCCCATACA
* * *
3971389 GCCCAATTGGTCGAGCCCGTGTCTCGCACACG
1 GCCCAATTGGTCGAACACGTGTCTCACACACG
* *
3971421 GCCCAATTGGTCGAACATGTGTCTCATACACG
1 GCCCAATTGGTCGAACACGTGTCTCACACACG
3971453 GC
1 GC
3971455 TTTGCTTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (32 bp):
GCCCAATTGGTCGAACACGTGTCTCACACACG
Found at i:3973785 original size:4 final size:4
Alignment explanation
Indices: 3973776--3973810 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
3973766 TATTTGTTAA
*
3973776 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
3973811 TATATATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:3974089 original size:24 final size:24
Alignment explanation
Indices: 3974031--3974089 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 24
3974021 CTTTATTTTT
3974031 TATATAATTTAAAATAAACTAAAA
1 TATATAATTTAAAATAAACTAAAA
3974055 TAT-TACTATTTAAAACT-AA-TAAAA
1 TATATA--ATTTAAAA-TAAACTAAAA
3974079 TATATAGATTT
1 TATATA-ATTT
3974090 TTAATATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 2 0.07
24 15 0.50
25 12 0.40
26 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (24 bp):
TATATAATTTAAAATAAACTAAAA
Found at i:3975631 original size:31 final size:30
Alignment explanation
Indices: 3975543--3975631 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 30
3975533 CTGTATATAT
* * *
3975543 AAATTTTAA-TTTGATGTAATTATACACGTA
1 AAATTTTAATTTTAATTTAA-TATATACGTA
* * * * *
3975573 AAACTCTAATTGTAATTTAAATGTATACTTA
1 AAATTTTAATTTTAATTT-AATATATACGTA
3975604 AAATTTTAATTTTAATTTAATCATATAC
1 AAATTTTAATTTTAATTTAAT-ATATAC
3975632 ATTTAAATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
30 10 0.23
31 32 0.73
32 2 0.05
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATTTTAATTTTAATTTAATATATACGTA
Found at i:3975860 original size:3 final size:3
Alignment explanation
Indices: 3975852--3975887 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3975842 ATTTATCCTG
3975852 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3975888 ATTTTGCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3978889 original size:20 final size:19
Alignment explanation
Indices: 3978840--3978890 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
3978830 GCCCATTAAG
3978840 CCCCCCCAAAAAAACCTAA
1 CCCCCCCAAAAAAACCTAA
****
3978859 CCCAAAAAAAAAATACCTAA
1 CCCCCCCAAAAAA-ACCTAA
3978879 CCCCCCCAAAAA
1 CCCCCCCAAAAA
3978891 GCCAAGAAAC
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.53, C:0.41, G:0.00, T:0.06
Consensus pattern (19 bp):
CCCCCCCAAAAAAACCTAA
Found at i:3980148 original size:23 final size:22
Alignment explanation
Indices: 3980111--3980153 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3980101 ATATTTTTTA
3980111 TTTTATATATATATGTATATGT
1 TTTTATATATATATGTATATGT
*
3980133 TTTTAATATATTTATGTATAT
1 TTTT-ATATATATATGTATAT
3980154 ACTTATGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTTATATATATATGTATATGT
Found at i:3980246 original size:30 final size:30
Alignment explanation
Indices: 3980191--3980265 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
3980181 TTTATCCCTA
*
3980191 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
3980220 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
3980251 ATATATTATGTATAT
1 ATATATTATGTATAT
3980266 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:3980278 original size:24 final size:25
Alignment explanation
Indices: 3980237--3980292 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
3980227 TATGTATATC
*
3980237 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
3980261 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
3980286 TATATAT
1 TATATAT
3980293 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:3980347 original size:10 final size:11
Alignment explanation
Indices: 3980305--3980355 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
3980295 TATTGTGTAT
3980305 ATATTTTA-AC
1 ATATTTTATAC
3980315 ATTATTAGTTATAC
1 A-TATT--TTATAC
*
3980329 ATCTTTTATAC
1 ATATTTTATAC
3980340 -TATTTTATAC
1 ATATTTTATAC
3980350 ATATTT
1 ATATTT
3980356 CTAATATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 10 0.29
11 15 0.44
13 6 0.18
14 3 0.09
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (11 bp):
ATATTTTATAC
Found at i:3980470 original size:9 final size:9
Alignment explanation
Indices: 3980453--3980487 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
3980443 ATCATTTCTA
3980453 ATATATATT
1 ATATATATT
*
3980462 ATATGTATT
1 ATATATATT
*
3980471 TTATATATT
1 ATATATATT
3980480 ATATATAT
1 ATATATAT
3980488 ATTAATGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATATATATT
Found at i:3980781 original size:37 final size:35
Alignment explanation
Indices: 3980716--3980785 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
3980706 TTATATATAG
3980716 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
3980753 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
3980786 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:3980921 original size:25 final size:24
Alignment explanation
Indices: 3980893--3980948 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3980883 GTTATATTTT
*
3980893 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
3980918 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
3980941 CACTATTA
1 CACTATTA
3980949 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:3985399 original size:94 final size:94
Alignment explanation
Indices: 3985233--3985420 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
3985223 AGGAAAGGAT
3985233 CCAATCTTGGAAAGACTTGGCGTCGGTATTCTGTGAGTAGTACAAGCATGTATCAGATATGGTGC
1 CCAATCTTGGAAAGACTTGGCGTCGGTATTCTGTGAGTAGTACAAGCATGTATCAGATATGGTGC
*
3985298 CTGATCGGATGACTTTACAAATGATGGAG
66 CTAATCGGATGACTTTACAAATGATGGAG
3985327 CCAATCTTGGAAAGACTTGGCGTCGGTATTCTGTGAGTAGTACAAGCATGTATCAGATATGGTGC
1 CCAATCTTGGAAAGACTTGGCGTCGGTATTCTGTGAGTAGTACAAGCATGTATCAGATATGGTGC
*
3985392 CTAATCGGATGATTTTACAAATGATGGAG
66 CTAATCGGATGACTTTACAAATGATGGAG
3985421 AAAAAGCCGT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (94 bp):
CCAATCTTGGAAAGACTTGGCGTCGGTATTCTGTGAGTAGTACAAGCATGTATCAGATATGGTGC
CTAATCGGATGACTTTACAAATGATGGAG
Found at i:3995373 original size:76 final size:74
Alignment explanation
Indices: 3995273--3995433 Score: 234
Period size: 76 Copynumber: 2.1 Consensus size: 74
3995263 TGATGTTTTT
*
3995273 ATTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
3995337 GTATTTTCA
66 GTATTTTCA
* * * *
3995346 ATTTCTGCTTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTG
1 ATTTCTG-TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
*
3995411 AGGTAATTTCA
64 AGGTATTTTCA
3995422 ATTTCTGCTTTT
1 ATTTCTG-TTTT
3995434 AAATTTATAT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
73 7 0.09
75 4 0.05
76 70 0.86
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTATTTTCA
Found at i:3995503 original size:90 final size:90
Alignment explanation
Indices: 3995354--3995518 Score: 262
Period size: 90 Copynumber: 1.8 Consensus size: 90
3995344 CAATTTCTGC
*
3995354 TTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATT
1 TTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGCTGAGGTAATT
3995419 TCAATTTCTGCTTTTAAATTTATAT
66 TCAATTTCTGCTTTTAAATTTATAT
* * *
3995444 TTTTCAAAAAAATTTAACTCATATTGCGAGAGGTGAA-TTGAGCCTC-AGGACACGCTGAGGTAA
1 TTTTCAAAAAAAATCAACTCATACTGCGAGAGGT-AAGTTGAGCCTCAAGG-CACGCTGAGGTAA
3995507 TTTCAATTTCTG
64 TTTCAATTTCTG
3995519 TTGTCAAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
89 3 0.04
90 64 0.93
91 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (90 bp):
TTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGCTGAGGTAATT
TCAATTTCTGCTTTTAAATTTATAT
Found at i:3995634 original size:155 final size:148
Alignment explanation
Indices: 3995451--3995939 Score: 623
Period size: 155 Copynumber: 3.3 Consensus size: 148
3995441 TATTTTTCAA
* *
3995451 AAAAATTTAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* ** *
3995516 CTGTTGTCAAAAAAATAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
66 CTGTTTTC--AAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGG
3995581 TATTTTCAATTTCTGTTTTTC
128 TATTTTCAATTTCTGTTTTTC
* *
3995602 AAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 ----AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
* * * *
3995667 ATTTCTGTTTTCAAAAAT--T-AACTCATATTGCAAGAGGTGAGTTAAGCTTCGGGACACGCTGA
62 ATTTCTGTTTTCAAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGA
*
3995729 GGTAATTTCAATTTCTG-TTTTC
126 GGTATTTTCAATTTCTGTTTTTC
* ** * * *
3995751 -AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
1 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
*
3995815 CTGTTTTC-AAAA-AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTCCACATGCTGAGG
66 CTGTTTTCAAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACATGCTGAGG
*
3995878 TATTTTCAATTTCTGTCTTTC
128 TATTTTCAATTTCTGTTTTTC
* *
3995899 AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
3995940 ATCACACACT
Statistics
Matches: 291, Mismatches: 35, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
143 4 0.01
144 67 0.23
145 27 0.09
147 24 0.08
148 4 0.01
149 39 0.13
150 51 0.18
151 1 0.00
153 6 0.02
155 68 0.23
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (148 bp):
AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTTTCAAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACATGCTGAGGTAT
TTTCAATTTCTGTTTTTC
Found at i:3995705 original size:72 final size:73
Alignment explanation
Indices: 3995444--3995939 Score: 602
Period size: 72 Copynumber: 6.6 Consensus size: 73
3995434 AAATTTATAT
*
3995444 TTTTCAAAAAAATTTAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTC-AAAAAA-TTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
3995509 TCAATTTCTG
64 TCAATTTCTG
* ** * * *
3995519 TTGTCAAAAAAATAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAT
1 TTTTC-AAAAAAT--T-AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
3995584 TTTCAATTTCTG
62 TTTCAATTTCTG
* *
3995596 TTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
1 -TTTTC----AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
3995661 ATTTCAATTTCTG
61 ATTTCAATTTCTG
* * * *
3995674 TTTTC-AAAAATTAACTCATATTGCAAGAGGTGAGTTAAGCTTCGGGACACGCTGAGGTAATTTC
1 TTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
3995738 AATTTCTG
66 AATTTCTG
* ** * * *
3995746 TTTTC-AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTC
1 TTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
3995810 AATTTCTG
66 AATTTCTG
* * * *
3995818 TTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTGAGGTATT
1 TTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
3995882 TTCAATTTCTG
63 TTCAATTTCTG
* * *
3995893 TCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 T-TTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
3995940 ATCACACACT
Statistics
Matches: 368, Mismatches: 40, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
72 129 0.35
73 33 0.09
74 1 0.00
75 38 0.10
76 41 0.11
77 60 0.16
78 58 0.16
81 8 0.02
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTG
Found at i:3996069 original size:130 final size:130
Alignment explanation
Indices: 3995829--3999832 Score: 7915
Period size: 130 Copynumber: 30.8 Consensus size: 130
3995819 TTTCAAAAAA
* * *
3995829 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTGAGGTATTTTCAATTTCTG
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTTCTG
3995893 TCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATT
63 TCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATT
3995958 TTT
128 TTT
3995961 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996026 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996091 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996156 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996221 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996286 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996351 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996416 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996481 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996546 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996611 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996676 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996741 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996806 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3996871 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3996936 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997001 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997066 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997131 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997196 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997261 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997326 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997391 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997456 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997521 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997586 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997651 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997716 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997781 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997846 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3997911 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3997976 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998041 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998106 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998171 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998236 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998301 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998366 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998431 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998496 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998561 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998626 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998691 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998756 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998821 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3998886 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3998951 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3999016 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3999081 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3999146 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3999211 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3999276 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3999341 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3999406 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3999471 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3999536 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3999601 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
3999666 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
3999731 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT-T
1 TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
* *
3999795 TTCAAAAA-TAAACACATATTGCGAGAGGTGAGTTGAGC
66 TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGC
3999833 CTCGGTCCAC
Statistics
Matches: 3866, Mismatches: 5, Indels: 6
1.00 0.00 0.00
Matches are distributed among these distances:
128 28 0.01
129 9 0.00
130 3796 0.98
132 31 0.01
133 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (130 bp):
TCAATTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTCT
TTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
Found at i:3999927 original size:74 final size:72
Alignment explanation
Indices: 3999742--3999938 Score: 245
Period size: 74 Copynumber: 2.7 Consensus size: 72
3999732 CAATTTATAT
*
3999742 TGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAATAAA
1 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAATAAA
*
3999807 CACATAT
66 CACATAC
* *
3999814 TGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTTCTGT-TTTC-AAAA
* *
3999878 ATCAACTCATAC
61 ATAAACACATAC
* * *
3999890 TGCGAGATGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTTC
1 TGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTTC
3999939 CGCTTCTCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
71 2 0.02
72 21 0.20
74 44 0.41
75 4 0.04
76 34 0.32
78 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (72 bp):
TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAATAAA
CACATAC
Found at i:4002512 original size:27 final size:23
Alignment explanation
Indices: 4002472--4002538 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 23
4002462 TCATGATTAC
*
4002472 TATATATTAGTGTATATTTTATTTA
1 TATATATTA-TGTATATGTT-TTTA
4002497 TTTATATATATATGTATATGTTTTTA
1 --TATATAT-TATGTATATGTTTTTA
4002523 -ATATATTTATGTATAT
1 TATATA-TTATGTATAT
4002539 ACTTATGTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 14 0.38
24 1 0.03
26 4 0.11
27 16 0.43
28 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
TATATATTATGTATATGTTTTTA
Found at i:4002631 original size:30 final size:30
Alignment explanation
Indices: 4002576--4002650 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
4002566 TTTATCCCTA
*
4002576 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
4002605 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
4002636 ATATATTATGTATAT
1 ATATATTATGTATAT
4002651 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:4002663 original size:24 final size:25
Alignment explanation
Indices: 4002622--4002677 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
4002612 TATGTATATC
*
4002622 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
4002646 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
4002671 TATATAT
1 TATATAT
4002678 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:4002758 original size:19 final size:19
Alignment explanation
Indices: 4002734--4002770 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4002724 CTATTTTATA
*
4002734 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
4002753 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
4002771 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:4003168 original size:37 final size:35
Alignment explanation
Indices: 4003103--4003172 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
4003093 TTATATATAG
4003103 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
4003140 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
4003173 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:4003308 original size:25 final size:24
Alignment explanation
Indices: 4003280--4003335 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4003270 GTTATATTTT
*
4003280 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
4003305 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
4003328 CACTATTA
1 CACTATTA
4003336 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:4006187 original size:28 final size:28
Alignment explanation
Indices: 4006155--4006369 Score: 306
Period size: 28 Copynumber: 7.7 Consensus size: 28
4006145 ACTTGATATT
4006155 TCGCACACTAAGTGCCATAC-CAAATGTC
1 TCGCACACTAAGTGCCATACTC-AATGTC
* *
4006183 TCGCACACTAAGTGTCATATTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
4006211 TCGCACACTAAGTGCCATACTCAACGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
4006239 TTGCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* *
4006267 TCTCACACTAAGTGCCATACTCAATGTA
1 TCGCACACTAAGTGCCATACTCAATGTC
4006295 TCGCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* ***
4006323 TTGCACACTAAGTGTTGTACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
**
4006351 TCATACACTAAGTGCCATA
1 TCGCACACTAAGTGCCATA
4006370 TATAGTCGAA
Statistics
Matches: 164, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
28 163 0.99
29 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATGTC
Found at i:4006415 original size:40 final size:40
Alignment explanation
Indices: 4006355--4006445 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
4006345 AATGTCTCAT
*
4006355 ACACTAAGTGCCATATATAGTCGAAGCTATCTTAAATCGC
1 ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
* *
4006395 ACACAAAGTGCCGTATATAGTCAAAGCTATCTTAAATCGC
1 ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
4006435 ACACTAAGTGC
1 ACACTAAGTGC
4006446 TAAACATAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
Found at i:4007610 original size:10 final size:10
Alignment explanation
Indices: 4007591--4007640 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
4007581 TTAAATTCTA
4007591 AAAGATAAAT
1 AAAGATAAAT
4007601 ATAA-ATAAAT
1 A-AAGATAAAT
*
4007611 AAAGATAATT
1 AAAGATAAAT
4007621 AAAGATAAAT
1 AAAGATAAAT
4007631 GAAA-ATAAAT
1 -AAAGATAAAT
4007641 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:4010791 original size:21 final size:21
Alignment explanation
Indices: 4010751--4010791 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4010741 TGGGGATGAT
* *
4010751 GAGCCGTGCGACGGAGAGGAG
1 GAGCCGTGCGACGAAAAGGAG
*
4010772 GAGCCGTGCGATGAAAAGGA
1 GAGCCGTGCGACGAAAAGGA
4010792 AGAAGAGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.46, T:0.07
Consensus pattern (21 bp):
GAGCCGTGCGACGAAAAGGAG
Found at i:4011260 original size:7 final size:6
Alignment explanation
Indices: 4011238--4011279 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
4011228 AAGAAGAGAT
*
4011238 AAAAT- AAAATA AAAATGA AAAATAA AAAATA AAAGTA AAAAT
1 AAAATA AAAATA AAAAT-A AAAAT-A AAAATA AAAATA AAAAT
4011280 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 5 0.16
6 15 0.47
7 12 0.38
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:4011261 original size:13 final size:12
Alignment explanation
Indices: 4011238--4011279 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
4011228 AAGAAGAGAT
4011238 AAAAT-AAAATA
1 AAAATAAAAATA
4011249 AAAATGAAAAATAA
1 AAAAT-AAAAAT-A
*
4011263 AAAATAAAAGTA
1 AAAATAAAAATA
4011275 AAAAT
1 AAAAT
4011280 TGGGTTGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.19
12 6 0.22
13 10 0.37
14 6 0.22
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:4017655 original size:10 final size:10
Alignment explanation
Indices: 4017636--4017685 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
4017626 TTAAATTTTA
4017636 AAAGATAAAT
1 AAAGATAAAT
4017646 ACAA-ATAAAT
1 A-AAGATAAAT
*
4017656 AAAGATAATT
1 AAAGATAAAT
4017666 AAAGATAAAT
1 AAAGATAAAT
4017676 GAAA-ATAAAT
1 -AAAGATAAAT
4017686 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:4023650 original size:21 final size:21
Alignment explanation
Indices: 4023624--4023666 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4023614 TTAAAGTGTC
4023624 TTAGCTACTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
*
4023645 TTAGCTCCTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
4023666 T
1 T
4023667 GTGTCCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAGCTACTACACGTTTTAAA
Found at i:4027087 original size:19 final size:20
Alignment explanation
Indices: 4027046--4027089 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4027036 GTGAGAGTGC
*
4027046 AAAAGAAAAGAAAACCAAGA
1 AAAAGAAAAGAAAAACAAGA
* *
4027066 AAAAGAAAGGAAAAATAA-A
1 AAAAGAAAAGAAAAACAAGA
4027085 AAAAG
1 AAAAG
4027090 GGAATGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGAAAAACAAGA
Found at i:4030266 original size:27 final size:27
Alignment explanation
Indices: 4030244--4030312 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
4030234 TTTTAATGCT
*
4030244 TGTTTTTAATATGTCATAGTTAATACA
1 TGTTATTAATATGTCATAGTTAATACA
* * *
4030271 TGTTATTAATTTGTCTTAGTCTATTACA
1 TGTTATTAATATGTCATAGT-TAATACA
* *
4030299 TATTTTTAATATGT
1 TGTTATTAATATGT
4030313 TCTAGCTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (27 bp):
TGTTATTAATATGTCATAGTTAATACA
Found at i:4030307 original size:28 final size:27
Alignment explanation
Indices: 4030246--4030312 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
4030236 TTAATGCTTG
*
4030246 TTTTTAATATGTCATAGTTAATACATG
1 TTTTTAATATGTCATAGTTAATACATA
* * * *
4030273 TTATTAATTTGTCTTAGTCTATTACATA
1 TTTTTAATATGTCATAGT-TAATACATA
4030301 TTTTTAATATGT
1 TTTTTAATATGT
4030313 TCTAGCTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTTTAATATGTCATAGTTAATACATA
Found at i:4031786 original size:23 final size:23
Alignment explanation
Indices: 4031760--4031832 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
4031750 GCTCGATTCA
* *
4031760 TTTAGCGTTTGTGAACATGTTCG
1 TTTAGTGTTCGTGAACATGTTCG
*
4031783 TTTAGTGTTCGCGAACATGTTCG
1 TTTAGTGTTCGTGAACATGTTCG
* *
4031806 TTTAGTGTTCGTCAACATGTTCA
1 TTTAGTGTTCGTGAACATGTTCG
4031829 TTTA
1 TTTA
4031833 TATTCACGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (23 bp):
TTTAGTGTTCGTGAACATGTTCG
Found at i:4038917 original size:30 final size:31
Alignment explanation
Indices: 4038881--4038938 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
4038871 ACTTAACAAG
4038881 CAAATGCCTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAATTTAA
*
4038911 CAAATGCCTTTAAAATAATAACAAAATT
1 CAAATGCCTCTAAAATAATAACAAAATT
4038939 AGTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAACAAAATTTAA
Found at i:4042162 original size:29 final size:29
Alignment explanation
Indices: 4042103--4042162 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
4042093 TATGGTTTAA
* *
4042103 TGTGCAAGTGTATACATGAACTTTGATTT
1 TGTGCAAGTGTATACATGAAATTTGAATT
* * * *
4042132 TGTGCAATTTTATCCATGAAATTTTAATT
1 TGTGCAAGTGTATACATGAAATTTGAATT
4042161 TG
1 TG
4042163 ATCCAATTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (29 bp):
TGTGCAAGTGTATACATGAAATTTGAATT
Found at i:4049426 original size:21 final size:21
Alignment explanation
Indices: 4049397--4049437 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4049387 TGCTGGACAG
*
4049397 GAGCCGGAATGGGAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
4049418 GAGCTGGAATGAGAGTGTTT
1 GAGCCGGAATGAGAGTGTTT
4049438 GGTTGCTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Found at i:4055971 original size:21 final size:20
Alignment explanation
Indices: 4055930--4055972 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
4055920 TTTAAAAGTT
4055930 AAAAATTATTAAAATTCTAA
1 AAAAATTATTAAAATTCTAA
* * *
4055950 AAAACATTTTTAATATTTTAA
1 AAAA-ATTATTAAAATTCTAA
4055971 AA
1 AA
4055973 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATTAAAATTCTAA
Found at i:4060057 original size:45 final size:45
Alignment explanation
Indices: 4059990--4060287 Score: 257
Period size: 45 Copynumber: 6.6 Consensus size: 45
4059980 TTAAAGGATA
* * * *
4059990 CCATAGCGTCTTTCAACCATGGTCTTATTAATTTCCGACAT-GATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAG-TG
*
4060035 CCATAGTGTCTTTCAACTATGGTCTTTTTCATTTCCG-TCAT-GTTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGAT-ATAG-TG
* * * *
4060080 -CATAATATCTTTCAATTATAGTCTTATTCATTTCC-AGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAGTG
* * * * *
4060124 TCATGGTGTCTTTCAACTATGATCTTATTCATTTTCGGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAGTG
* ** * *
4060169 TCATAGTGTCTTTCAACTATGGTAGTATTCATTTCTGGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAGTG
* * * *
4060214 CCAAAGTTTCTTTCAACTATGGTTTTATTCATTTTC-AGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAGTG
* * * * *
4060259 TCACAATGTCTTTTAACTATGGTTTTATT
1 CCATAGTGTCTTTCAACTATGGTCTTATT
4060288 TGTTTTTCAA
Statistics
Matches: 208, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
44 34 0.16
45 174 0.84
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (45 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAGTG
Found at i:4060287 original size:135 final size:134
Alignment explanation
Indices: 4060036--4060279 Score: 314
Period size: 135 Copynumber: 1.8 Consensus size: 134
4060026 GACATGATGC
** * *
4060036 CATAGTGTCTTTCAACTATGGTCTTTTTCATTTCCGTCATGTTGCATAATATCTTTCAATTATAG
1 CATAGTGTCTTTCAACTATGGTAGTATTCATTTCCGTCATGTTGCATAATATCTTTCAACTATAG
***
4060101 TCTTATTCATTTCCAGTATAGTGTCATGGTGTCTTTCAACTATGATCTTATTCATTTTCGGTATA
66 TCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATGATCTTATTCATTTTCGGTATA
4060166 GTGT
131 GTGT
* *
4060170 CATAGTGTCTTTCAACTATGGTAGTATTCATTTCTGGT-ATAG-TGCCA-AAGTTTCTTTCAACT
1 CATAGTGTCTTTCAACTATGGTAGTATTCATTTC-CGTCAT-GTTG-CATAA-TATCTTTCAACT
* * * *
4060232 ATGGTTTTATTCATTTTCAGTATAGTGTCACAATGTCTTTTAACTATG
62 ATAGTCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATG
4060280 GTTTTATTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
134 37 0.40
135 56 0.60
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (134 bp):
CATAGTGTCTTTCAACTATGGTAGTATTCATTTCCGTCATGTTGCATAATATCTTTCAACTATAG
TCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATGATCTTATTCATTTTCGGTATA
GTGT
Found at i:4063176 original size:73 final size:73
Alignment explanation
Indices: 4063057--4063258 Score: 260
Period size: 73 Copynumber: 2.8 Consensus size: 73
4063047 CAGACATATT
** ** *
4063057 AATTGCTTGTCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAACCTTTATGTC
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
*
4063122 ACTACATC
66 AATACATC
*
4063130 AATTGCTCATCTGAGCTGACCATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
4063195 AATACATC
66 AATACATC
* * * ** * * **
4063203 AGTTGCTCATTTGAACTGAACATATAATTGTGTCAGGTTACCTGTCCGGGCTAAAA
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAA
4063259 CTTAATGTAG
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
AATACATC
Found at i:4067207 original size:8 final size:8
Alignment explanation
Indices: 4067184--4067231 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
4067174 TAGCTAATTG
4067184 TTTTATTT
1 TTTTATTT
4067192 TATTTATTT
1 T-TTTATTT
*
4067201 CTTTATTT
1 TTTTATTT
4067209 TTTTATTT
1 TTTTATTT
4067217 TTTTACTTT
1 TTTTA-TTT
4067226 TTTTAT
1 TTTTAT
4067232 AAATTAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 21 0.58
9 15 0.42
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTATTT
Found at i:4067207 original size:17 final size:16
Alignment explanation
Indices: 4067185--4067231 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
4067175 AGCTAATTGT
4067185 TTTATTTTATTTATTTC
1 TTTATTTT-TTTATTTC
*
4067202 TTTATTTTTTTATTTT
1 TTTATTTTTTTATTTC
4067218 TTTACTTTTTTTAT
1 TTTA-TTTTTTTAT
4067232 AAATTAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTATTTC
Found at i:4067214 original size:20 final size:20
Alignment explanation
Indices: 4067184--4067229 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4067174 TAGCTAATTG
*
4067184 TTTTATTTTATTTATTT-CT
1 TTTTTTTTTATTTATTTACT
*
4067203 TTATTTTTTTATTTTTTTACT
1 TT-TTTTTTTATTTATTTACT
4067224 TTTTTT
1 TTTTTT
4067230 ATAAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 17 0.74
21 4 0.17
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTATTTATTTACT
Found at i:4075058 original size:62 final size:62
Alignment explanation
Indices: 4074917--4075067 Score: 198
Period size: 62 Copynumber: 2.4 Consensus size: 62
4074907 CACACAGTCG
* * * *
4074917 GGGCACACGCCCATGTCCCTAGTCGTGTGGCTTTGCGCCACAGATAGTGAGTTACACAGCTT
1 GGGCACACGCCCATGTCCCTGGCCGTGTGGCTTTGCACCACAAATAGTGAGTTACACAGCTT
* * *
4074979 GGGCACACAG-TCGTGTCCCTGGCCGTGTGG-TCTTGTACCACAAATAGTGAGTTACACAGCTT
1 GGGCACAC-GCCCATGTCCCTGGCCGTGTGGCT-TTGCACCACAAATAGTGAGTTACACAGCTT
*
4075041 GGGCACACGCCCCTGTCCCTGGCCGTG
1 GGGCACACGCCCATGTCCCTGGCCGTG
4075068 AGAACTCTGC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
61 2 0.03
62 74 0.96
63 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.23
Consensus pattern (62 bp):
GGGCACACGCCCATGTCCCTGGCCGTGTGGCTTTGCACCACAAATAGTGAGTTACACAGCTT
Found at i:4078282 original size:21 final size:21
Alignment explanation
Indices: 4078256--4078417 Score: 180
Period size: 21 Copynumber: 7.7 Consensus size: 21
4078246 AGCTCGAAAC
* * *
4078256 CTGAACAGAAGCTCATAAAAG
1 CTGAACAAAAGCTCGTAAGAG
* *
4078277 CTGAACAAAAACTCATAAGAG
1 CTGAACAAAAGCTCGTAAGAG
* *
4078298 TTGAACAGAAGCTCGTAAGAG
1 CTGAACAAAAGCTCGTAAGAG
* * *
4078319 CTAAACAAAAACTCATAAGAG
1 CTGAACAAAAGCTCGTAAGAG
* *
4078340 TTGAACAAAAGCTTGTAAGAG
1 CTGAACAAAAGCTCGTAAGAG
* *
4078361 CTAAACAAAAGCTTGTAAGAG
1 CTGAACAAAAGCTCGTAAGAG
* *
4078382 CTAAACAAAAGCTTGTAAGAG
1 CTGAACAAAAGCTCGTAAGAG
4078403 CTGAACAAAAGCTCG
1 CTGAACAAAAGCTCG
4078418 AAAGTGTTAA
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 120 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
CTGAACAAAAGCTCGTAAGAG
Done.