Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 12 of 297
Found at i:3801045 original size:17 final size:17
Alignment explanation
Indices: 3801023--3801080 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
3801013 AATCAAAGTT
3801023 TTAAATGAAAATTATTA
1 TTAAATGAAAATTATTA
*
3801040 TTAAATAATCAAAGTT-TTA
1 TTAAATGA--AAA-TTATTA
*
3801059 -AAAATGAAAATTATTA
1 TTAAATGAAAATTATTA
3801075 TTAAAT
1 TTAAAT
3801081 AATCAAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 11 0.34
18 5 0.16
19 6 0.19
20 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
TTAAATGAAAATTATTA
Found at i:3801064 original size:35 final size:35
Alignment explanation
Indices: 3801011--3801116 Score: 180
Period size: 35 Copynumber: 3.1 Consensus size: 35
3801001 AGTCATAAGT
3801011 ATAATCAAAGTTTT--AAATGAAAATTATTATTAA
1 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
3801044 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
1 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
* *
3801079 ATAATCAAAGTTTTAAAAATAAAAACTATTATTAA
1 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
3801114 ATA
1 ATA
3801117 TACTCTTAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
33 14 0.20
35 55 0.80
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.37
Consensus pattern (35 bp):
ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
Found at i:3801100 original size:18 final size:18
Alignment explanation
Indices: 3801042--3801100 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
3801032 AATTATTATT
3801042 AAATAATCAAAGTTTTAA
1 AAATAATCAAAGTTTTAA
* *
3801060 AAATGA--AAA-TTATTATT
1 AAATAATCAAAGTT-TTA-A
3801077 AAATAATCAAAGTTTTAA
1 AAATAATCAAAGTTTTAA
3801095 AAATAA
1 AAATAA
3801101 AAACTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 5 0.16
18 11 0.34
19 6 0.19
20 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AAATAATCAAAGTTTTAA
Found at i:3804315 original size:26 final size:26
Alignment explanation
Indices: 3804282--3804344 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
3804272 AACATATTTT
3804282 ATCAAAATTTTACCAAG-GGTAAAATC
1 ATCAAAATTTTACC-AGTGGTAAAATC
*
3804308 ATCAAAATTTTACCAGTGGTAAATTC
1 ATCAAAATTTTACCAGTGGTAAAATC
* *
3804334 GTTAAAATTTT
1 ATCAAAATTTT
3804345 GCTGGGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (26 bp):
ATCAAAATTTTACCAGTGGTAAAATC
Found at i:3804968 original size:25 final size:25
Alignment explanation
Indices: 3804925--3804983 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
3804915 TGGTTGAAAT
3804925 CCGAAAACAACGAACGTCCGCTAAG
1 CCGAAAACAACGAACGTCCGCTAAG
* * *
3804950 TCGAAAACAATGAAGGTCCGCTAAG
1 CCGAAAACAACGAACGTCCGCTAAG
*
3804975 CCAAAAACA
1 CCGAAAACA
3804984 CAAGTACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.27, G:0.19, T:0.10
Consensus pattern (25 bp):
CCGAAAACAACGAACGTCCGCTAAG
Found at i:3810513 original size:37 final size:37
Alignment explanation
Indices: 3810463--3810540 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
3810453 TATCTAAGAG
3810463 TAGATTTGGCATAATTAAGC-GAAGTTGATCGAACGCC
1 TAGATTTGGCATAATTAAGCAG-AGTTGATCGAACGCC
*
3810500 TAGATTTGGCATAATTAAGCAGAGTTGATCGAATGCC
1 TAGATTTGGCATAATTAAGCAGAGTTGATCGAACGCC
3810537 TAGA
1 TAGA
3810541 AATAGGGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (37 bp):
TAGATTTGGCATAATTAAGCAGAGTTGATCGAACGCC
Found at i:3810870 original size:13 final size:13
Alignment explanation
Indices: 3810852--3810880 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3810842 TTTAGTTTAA
3810852 TTAGTTAATTAGT
1 TTAGTTAATTAGT
3810865 TTAGTTAATTAGT
1 TTAGTTAATTAGT
3810878 TTA
1 TTA
3810881 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:3813107 original size:41 final size:40
Alignment explanation
Indices: 3812984--3813124 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
3812974 CACAAGGCCA
* * * * *
3812984 TCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCT
3813024 TCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCT
* * *
3813064 TC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCT
1 TCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGCCT
3813105 TCGGGACTTAGCCCGGATAT
1 TCGGGACTTAGCCCGGATAT
3813125 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 55 0.62
41 27 0.31
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCT
Found at i:3818187 original size:82 final size:82
Alignment explanation
Indices: 3818050--3818210 Score: 322
Period size: 82 Copynumber: 2.0 Consensus size: 82
3818040 TTTTGGTTCA
3818050 CTTTCTCAACCTTGTTTTTCCAATTTGTGTTGCTACATTAGTATTCTATATGCTTTACAAAGATA
1 CTTTCTCAACCTTGTTTTTCCAATTTGTGTTGCTACATTAGTATTCTATATGCTTTACAAAGATA
3818115 TTGTTAATATTACCCCT
66 TTGTTAATATTACCCCT
3818132 CTTTCTCAACCTTGTTTTTCCAATTTGTGTTGCTACATTAGTATTCTATATGCTTTACAAAGATA
1 CTTTCTCAACCTTGTTTTTCCAATTTGTGTTGCTACATTAGTATTCTATATGCTTTACAAAGATA
3818197 TTGTTAATATTACC
66 TTGTTAATATTACC
3818211 AATTTGTTCT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.47
Consensus pattern (82 bp):
CTTTCTCAACCTTGTTTTTCCAATTTGTGTTGCTACATTAGTATTCTATATGCTTTACAAAGATA
TTGTTAATATTACCCCT
Found at i:3820849 original size:40 final size:39
Alignment explanation
Indices: 3820751--3821013 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
3820741 TCCTCGTTCA
* * * *
3820751 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
3820790 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
3820829 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
3820869 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
3820909 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
3820949 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
3820990 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
3821014 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:3820973 original size:120 final size:119
Alignment explanation
Indices: 3820751--3821013 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
3820741 TCCTCGTTCA
* * *
3820751 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
3820816 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
3820869 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
3820934 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
3820990 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
3821014 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:3821022 original size:41 final size:41
Alignment explanation
Indices: 3820945--3821022 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
3820935 TTTGTATCTC
* * *
3820945 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
3820986 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
3821023 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:3828745 original size:40 final size:40
Alignment explanation
Indices: 3828697--3829968 Score: 2373
Period size: 40 Copynumber: 31.8 Consensus size: 40
3828687 GCAAACACCT
* * * *
3828697 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
* * *
3828737 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
* * *
3828777 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3828817 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3828857 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3828897 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3828937 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3828977 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829017 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829057 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829097 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829137 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829177 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829217 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829257 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829297 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829337 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829377 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829417 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829457 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829497 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829537 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829577 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
3829617 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
* *
3829657 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829697 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829737 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829777 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829817 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829857 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829897 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
*
3829937 TTGCCTTCGGGTCTTAGCCCGGATATATTAAC
1 TTGCCTTCGGGTCTTACCCCGGATATATTAAC
3829969 ATGCTCATGC
Statistics
Matches: 1218, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 1218 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTACCCCGGATATATTAACTCGCATAA
Found at i:3833126 original size:6 final size:6
Alignment explanation
Indices: 3833115--3833177 Score: 117
Period size: 6 Copynumber: 10.5 Consensus size: 6
3833105 TCCTCCTATC
3833115 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
3833163 TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
3833178 CAATTTTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:3839569 original size:13 final size:12
Alignment explanation
Indices: 3839551--3839619 Score: 95
Period size: 12 Copynumber: 5.7 Consensus size: 12
3839541 ACAAGTTTGA
3839551 AAAAAAAAATTTG
1 AAAAAAAAA-TTG
3839564 AAAAAAAAATTCG
1 AAAAAAAAATT-G
*
3839577 AAAAAAAAATCG
1 AAAAAAAAATTG
*
3839589 -AAAAAAAATTC
1 AAAAAAAAATTG
3839600 AAAAAAAAATTG
1 AAAAAAAAATTG
3839612 AAAAAAAA
1 AAAAAAAA
3839620 GTGATTTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
11 9 0.18
12 21 0.42
13 20 0.40
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.14
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:3842008 original size:40 final size:40
Alignment explanation
Indices: 3841950--3842043 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
3841940 NNNNNNNNNN
* *
3841950 CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGT
1 CCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGT
* *
3841990 CCTGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGT
1 CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGT
*
3842030 CCCGATGGCATTTG
1 CCCGAAGGCATTTG
3842044 AACGAGGAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGT
Found at i:3849953 original size:39 final size:40
Alignment explanation
Indices: 3849853--3850037 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
3849843 TTGAATGATG
* * *
3849853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
3849892 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
3849933 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
3849972 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
3850011 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
3850038 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:3849993 original size:79 final size:81
Alignment explanation
Indices: 3849853--3850037 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
3849843 TTGAATGATG
* *
3849853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
3849917 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
3849932 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
3849994 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
3850012 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
3850038 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:3850059 original size:79 final size:79
Alignment explanation
Indices: 3849906--3850070 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
3849896 GGACTAAGAT
* ** *
3849906 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
3849971 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
3849985 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* * *
3850048 TATATCC-GGTTAATTT
63 TAAATCCGGGTTAAGTC
3850064 CCGAAGG
1 CCGAAGG
3850071 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:3852164 original size:45 final size:45
Alignment explanation
Indices: 3852099--3852262 Score: 228
Period size: 45 Copynumber: 3.7 Consensus size: 45
3852089 AATATCATAC
* *
3852099 GATACTAATCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
3852144 GATACTAATCGGGCCCTT-GAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTAATCGGG-CCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* **
3852189 GATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATTTCGGTGA
1 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
*
3852234 AATGA-T-ATCGGG-CTTCGAGCCTAGCAGGC
1 GAT-ACTAATCGGGCCTTCGAGCCTAGCAGGC
3852263 AATATGTCGG
Statistics
Matches: 110, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
43 17 0.15
44 9 0.08
45 79 0.72
46 5 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (45 bp):
GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:3855643 original size:46 final size:46
Alignment explanation
Indices: 3855553--3855763 Score: 205
Period size: 46 Copynumber: 4.5 Consensus size: 46
3855543 ATGCCAATGC
* * * * *
3855553 CATGTCCCAAACATGGTCTTACACTGACTATCATCTCTTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTC-AAGGCCGATG
* *
3855600 CATATCCTAGACATGTCTTACACTGGCT-TACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAGGCCGATG
* * *
3855646 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATG
* * **
3855692 CCATGTCCCAGACATGGTCTTACACTGGCTCT--TATAATATGGTTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA-A-GGCCGATG
3855740 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
3855764 AGGTCACACA
Statistics
Matches: 141, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.01
46 77 0.55
47 41 0.29
48 21 0.15
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATG
Found at i:3857998 original size:42 final size:44
Alignment explanation
Indices: 3857897--3858041 Score: 134
Period size: 42 Copynumber: 3.4 Consensus size: 44
3857887 ATGTGTTATT
* * * * * *
3857897 GTGTAAGACCACGTTTGGGACGTTGGCATCAATTTGTGATTTAC
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
*
3857941 GTGTAAGACCATGTCTAGGATATTGGCATC-ATATATGATTT-C
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
* * * * *
3857983 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGA-TTAC
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
** *
3858026 ACGTAAGACCACGTCT
1 GTGTAAGACCATGTCT
3858042 GGGATGTTAG
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 29 0.35
43 29 0.35
44 25 0.30
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
Found at i:3858034 original size:43 final size:42
Alignment explanation
Indices: 3857899--3858045 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 42
3857889 GTGTTATTGT
* * * * **
3857899 GTAAGACCACGTTTGGGAC-GTTGGCATCAATTTGTGATTTACGT
1 GTAAGACCATGTCTGGGACAG-TGGCATC-ATATATGA-TTACAC
* * * * **
3857943 GTAAGACCATGTCTAGGATATTGGCATCATATATGATTTCGT
1 GTAAGACCATGTCTGGGACAGTGGCATCATATATGATTACAC
* *
3857985 GTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACAC
1 GTAAGACCATGTCTGGGACAGTGGCATC-ATATATGATTACAC
*
3858028 GTAAGACCACGTCTGGGA
1 GTAAGACCATGTCTGGGA
3858046 TGTTAGCATT
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 29 0.35
43 32 0.39
44 22 0.27
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACAGTGGCATCATATATGATTACAC
Found at i:3862423 original size:40 final size:38
Alignment explanation
Indices: 3862369--3862480 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 38
3862359 GATATAGTTT
* * *
3862369 AGCATTTGCAGCGTTTCTTAACAAACGCCATTATAGA-CA
1 AGCATTAGCGGCGTTT-TTAA-AAACGCCACTATAGATCA
* *
3862408 AGACATTAGCGGCGTTTTTATAAAAGCGCCGCTATAGATCG
1 AG-CATTAGCGGCGTTTTTA-AAAA-CGCCACTATAGATCA
3862449 AGCATTAGCGGCGCTTTTATAAAAAACGCCAC
1 AGCATTAGCGGCG-TTTT-T-AAAAACGCCAC
3862481 AAATGTCCTA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
39 8 0.13
40 34 0.57
41 12 0.20
42 5 0.08
43 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (38 bp):
AGCATTAGCGGCGTTTTTAAAAACGCCACTATAGATCA
Found at i:3863166 original size:36 final size:36
Alignment explanation
Indices: 3863126--3863215 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
3863116 TTATAGATGT
3863126 GTTTAGGGATTATGGGTTTTGTGG-TTGTGGTTTAAA
1 GTTTAGGGATTATGGGTTTTG-GGATTGTGGTTTAAA
3863162 GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
1 GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
3863198 GTTTAGGGATTAGTGGGT
1 GTTTAGGGATTA-TGGGT
3863216 AAAGGTTAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
35 2 0.04
36 45 0.87
37 5 0.10
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (36 bp):
GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
Found at i:3863218 original size:21 final size:21
Alignment explanation
Indices: 3863158--3863219 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
3863148 GGTTGTGGTT
3863158 TAAAGTTTAGGGATTA-TGGG
1 TAAAGTTTAGGGATTAGTGGG
*
3863178 T----TTT-GGGATT-GTGGTT
1 TAAAGTTTAGGGATTAGTGG-G
3863194 TAAAGTTTAGGGATTAGTGGG
1 TAAAGTTTAGGGATTAGTGGG
3863215 TAAAG
1 TAAAG
3863220 GTTAAGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 15
0.65 0.04 0.31
Matches are distributed among these distances:
15 9 0.28
16 4 0.12
20 4 0.12
21 11 0.34
22 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (21 bp):
TAAAGTTTAGGGATTAGTGGG
Found at i:3863229 original size:7 final size:7
Alignment explanation
Indices: 3863219--3863307 Score: 52
Period size: 7 Copynumber: 12.3 Consensus size: 7
3863209 AGTGGGTAAA
3863219 GGTTAAG
1 GGTTAAG
*
3863226 GGTTATG
1 GGTTAAG
* *
3863233 GATTATG
1 GGTTAAG
3863240 GGTTTAAG
1 GG-TTAAG
*
3863248 GATTAAG
1 GGTTAAG
* *
3863255 GGTCATG
1 GGTTAAG
*
3863262 GGTTATG
1 GGTTAAG
*
3863269 GGTTTAAT
1 GG-TTAAG
3863277 GGTTAAAG
1 GGTT-AAG
* *
3863285 GGATATG
1 GGTTAAG
*
3863292 GGTTAGG
1 GGTTAAG
3863299 GGTTAAG
1 GGTTAAG
3863306 GG
1 GG
3863308 GTTTAATTAA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
7 47 0.76
8 15 0.24
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (7 bp):
GGTTAAG
Found at i:3863262 original size:29 final size:28
Alignment explanation
Indices: 3863204--3863282 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
3863194 TAAAGTTTAG
* *
3863204 GGATTAGTGGG-TAAAGGTTAAGGGTTAT
1 GGATTA-TGGGTTTAAGGTTAAGGGTCAT
3863232 GGATTATGGGTTTAAGGATTAAGGGTCAT
1 GGATTATGGGTTTAAGG-TTAAGGGTCAT
*
3863261 GGGTTATGGGTTTAATGGTTAA
1 GGATTATGGGTTTAA-GGTTAA
3863283 AGGGATATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 11 0.24
29 28 0.62
30 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.37, T:0.35
Consensus pattern (28 bp):
GGATTATGGGTTTAAGGTTAAGGGTCAT
Found at i:3863783 original size:14 final size:13
Alignment explanation
Indices: 3863746--3863779 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
3863736 CCTTAAGTGT
3863746 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
3863759 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
3863772 TTTTCCCC
1 TTTTCCCC
3863780 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:3867445 original size:243 final size:242
Alignment explanation
Indices: 3866915--3867539 Score: 1205
Period size: 243 Copynumber: 2.6 Consensus size: 242
3866905 TGCTCCATCA
*
3866915 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAGCGA
1 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
3866980 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
66 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
3867045 CAAAAATACTTGAAAAAAATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGCT
131 CAAAAATACTTGAAAAAAATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGCT
3867110 TGCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCT
196 TGCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCT
*
3867157 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGA
1 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
3867222 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
66 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
3867287 CAAAAATACTTGAAAAAACATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGC
131 CAAAAATACTTGAAAAAA-ATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGC
3867352 TTGCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCT
195 TTGCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCT
3867400 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
1 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
*
3867465 GCTGTAAGATATAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
66 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
*
3867530 AAAAAATACT
131 CAAAAATACT
3867540 AATATTGATC
Statistics
Matches: 377, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
242 146 0.39
243 231 0.61
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (242 bp):
TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
CAAAAATACTTGAAAAAAATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGCT
TGCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCT
Found at i:3867578 original size:9 final size:9
Alignment explanation
Indices: 3867564--3867719 Score: 132
Period size: 9 Copynumber: 16.3 Consensus size: 9
3867554 CTTAAAGAAA
3867564 TTACATAAC
1 TTACATAAC
3867573 TTACATAAC
1 TTACATAAC
* *
3867582 TCATATAAC
1 TTACATAAC
*
3867591 TTACATAAT
1 TTACATAAC
3867600 TTACATAACAAC
1 TTACAT---AAC
3867612 TTACATAAC
1 TTACATAAC
*
3867621 TCACATAAC
1 TTACATAAC
*
3867630 TTACATAAT
1 TTACATAAC
3867639 TTACATAAAAAC
1 TTACAT---AAC
3867651 TTACATAAC
1 TTACATAAC
*
3867660 TCACATAAC
1 TTACATAAC
* *
3867669 TTACACAAT
1 TTACATAAC
*
3867678 TTACATATC
1 TTACATAAC
*
3867687 TCACATAAC
1 TTACATAAC
*
3867696 GTACATAACAAC
1 TTACAT---AAC
3867708 TTACATAAC
1 TTACATAAC
3867717 TTA
1 TTA
3867720 ACTAATACAT
Statistics
Matches: 116, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
9 92 0.79
12 24 0.21
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:3867622 original size:39 final size:39
Alignment explanation
Indices: 3867570--3867684 Score: 203
Period size: 39 Copynumber: 2.9 Consensus size: 39
3867560 GAAATTACAT
* *
3867570 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAA
3867609 AACTTACATAACTCACATAACTTACATAATTTACATAAA
1 AACTTACATAACTCACATAACTTACATAATTTACATAAA
*
3867648 AACTTACATAACTCACATAACTTACACAATTTACATA
1 AACTTACATAACTCACATAACTTACATAATTTACATA
3867685 TCTCACATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAA
Found at i:3867627 original size:30 final size:30
Alignment explanation
Indices: 3867600--3867717 Score: 94
Period size: 30 Copynumber: 3.7 Consensus size: 30
3867590 CTTACATAAT
3867600 TTACATAACAACTTACATAACTCACATAAC
1 TTACATAACAACTTACATAACTCACATAAC
** * * *
3867630 TTACATAATTTACATA-AAAACTTACATAAC
1 TTACATAA-CAACTTACATAACTCACATAAC
* *
3867660 TCACATAACTTACACAATTTACATATCTCACATAAC
1 TTACATAAC--A-AC---TTACATAACTCACATAAC
*
3867696 GTACATAACAACTTACATAACT
1 TTACATAACAACTTACATAACT
3867718 TAACTAATAC
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
30 36 0.55
31 4 0.06
32 2 0.03
33 2 0.03
34 1 0.02
35 2 0.03
36 18 0.28
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.30
Consensus pattern (30 bp):
TTACATAACAACTTACATAACTCACATAAC
Found at i:3867643 original size:48 final size:47
Alignment explanation
Indices: 3867564--3867719 Score: 152
Period size: 48 Copynumber: 3.3 Consensus size: 47
3867554 CTTAAAGAAA
* * * *
3867564 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAATTTACATAA-ATACATAACAAC
* * * *
3867612 TTACATAACTCACATAACTTACATAATTTACATAAAAACTTACATAAC
1 TTACATAACTTACATAACTTACATAATTTACATAAATACATA-ACAAC
* * * * *
3867660 TCACATAACTTACACAATTTACAT-ATCTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAAT-TTACATAA-ATACATAACAAC
3867708 TTACATAACTTA
1 TTACATAACTTA
3867720 ACTAATACAT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
47 6 0.07
48 77 0.89
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAATTTACATAAATACATAACAAC
Found at i:3873763 original size:43 final size:43
Alignment explanation
Indices: 3873732--3874000 Score: 326
Period size: 43 Copynumber: 6.2 Consensus size: 43
3873722 GCGTTTGTAG
* *
3873732 AAAAAGCGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTT-CC
1 AAAAA-CGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCC
* * *
3873775 AACAAACGCCGCTAAAAGCCCTGACATTTAGCGGTGTTTTTCCC
1 AA-AAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCC
* * * *
3873819 ACAAACACCGCTAAAAGCCATGACCTTTAGCGACGTGTTTCCC
1 AAAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCC
* *
3873862 AAAAACG-CTCTAAAATCCATGACCTTTAGCGGCGTTTTTCCC
1 AAAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCC
* * *
3873904 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTCC
1 AAAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCC
* * * *
3873947 ACAAACACCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCC
1 AAAAACGCCGCTAAAAGCCATGACCTTTAGCGGCG-TTTTTCCC
3873991 AATAAACGCC
1 AA-AAACGCC
3874001 ACAAAACCTA
Statistics
Matches: 197, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
42 37 0.19
43 139 0.71
44 15 0.08
45 6 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCC
Found at i:3873868 original size:86 final size:84
Alignment explanation
Indices: 3873740--3873986 Score: 325
Period size: 85 Copynumber: 2.9 Consensus size: 84
3873730 AGAAAAAGCG
* * *
3873740 CCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACATTTA
1 CCGCTAAAAGCCATGACCTTTAGCGGCG-TTTTCCAA-AAACGCCGCTAAAAGCCATGACCTTTA
*
3873805 GCGGTGTTTTTCCCACAAACA
64 GCGGCGTTTTTCCCACAAACA
* * *
3873826 CCGCTAAAAGCCATGACCTTTAGCGACGTGTTTCCCAAAAACG-CTCTAAAATCCATGACCTTTA
1 CCGCTAAAAGCCATGACCTTTAGCGGCGT-TTT-CCAAAAACGCCGCTAAAAGCCATGACCTTTA
*
3873890 GCGGCGTTTTTCCCACAAACG
64 GCGGCGTTTTTCCCACAAACA
* * * *
3873911 CCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTCCACAAACACCGCTAAAAGCCTTGACCTTTA
1 CCGCTAAAAGCCATGACCTTTAGCGGCG--TTTTCCAAAAACGCCGCTAAAAGCCATGACCTTTA
3873976 GCGGCGTTTTT
64 GCGGCGTTTTT
3873987 TTCCAATAAA
Statistics
Matches: 141, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
85 70 0.50
86 66 0.47
87 5 0.04
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (84 bp):
CCGCTAAAAGCCATGACCTTTAGCGGCGTTTTCCAAAAACGCCGCTAAAAGCCATGACCTTTAGC
GGCGTTTTTCCCACAAACA
Found at i:3873971 original size:128 final size:128
Alignment explanation
Indices: 3873743--3873978 Score: 391
Period size: 128 Copynumber: 1.8 Consensus size: 128
3873733 AAAAGCGCCG
*
3873743 CTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACATTTAGCG
1 CTAAAAGCCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACATTTAGCG
*
3873808 GTGTTTTTCCCACAAACACCGCTAAAAGCCATGACCTTTAGCGACGTGTTTCCCAAAAACGCT
66 GCGTTTTTCCCACAAACACCGCTAAAAGCCATGACCTTTAGCGACGTGTTTCCCAAAAACGCT
* * * * *
3873871 CTAAAATCCATGACCTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
1 CTAAAAGCCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACATTTAGCG
* *
3873936 GCGTTTTTTCCACAAACACCGCTAAAAGCCTTGACCTTTAGCG
66 GCGTTTTTCCCACAAACACCGCTAAAAGCCATGACCTTTAGCG
3873979 GCGTTTTTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 99 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (128 bp):
CTAAAAGCCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACATTTAGCG
GCGTTTTTCCCACAAACACCGCTAAAAGCCATGACCTTTAGCGACGTGTTTCCCAAAAACGCT
Found at i:3886146 original size:22 final size:22
Alignment explanation
Indices: 3886104--3886146 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3886094 AAAATAGACT
* *
3886104 TTTAGCGGCGCTTTTTTTAGCC
1 TTTAACGGCGCTTTTTCTAGCC
3886126 TTTAACGGCG-TTTTTACTAGC
1 TTTAACGGCGCTTTTT-CTAGC
3886147 GCCGCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (22 bp):
TTTAACGGCGCTTTTTCTAGCC
Found at i:3887096 original size:23 final size:23
Alignment explanation
Indices: 3887065--3888062 Score: 619
Period size: 23 Copynumber: 44.1 Consensus size: 23
3887055 AAATAAGTAC
*
3887065 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887088 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
3887111 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887134 TCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
3887158 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
3887181 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
3887203 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * *
3887225 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
3887248 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
* *
3887271 TTAAATACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887294 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887317 TTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887340 TCAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTGCAGCA-T
*
3887364 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
3887386 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
3887410 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
** *
3887432 TTATGCACCTT-AA-TTACAGCGA-
1 TTAAACA-CTTCAATTTGCAGC-AT
* * * *
3887454 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
3887477 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
* * **
3887500 TTAAACACTTCAAATTGAAGTGT
1 TTAAACACTTCAATTTGCAGCAT
**** *
3887523 TT--A-AC-TCCGCCTGGAG-A-
1 TTAAACACTTCAATTTGCAGCAT
* *
3887540 -TAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
* * **
3887562 TTAAACACTTCAAATTGAAGTGT
1 TTAAACACTTCAATTTGCAGCAT
**** *
3887585 TT--A-AC-TCCGCCTGGAG-A-
1 TTAAACACTTCAATTTGCAGCAT
* *
3887602 -TAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
3887624 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * * *
3887647 TTGAGCACTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887670 TTAAACACTTCGATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
3887693 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
3887717 TT-AACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * * *
3887739 TTATACACCTCAA-TTACAGTGA-
1 TTAAACACTTCAATTTGCAG-CAT
* * * *
3887761 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
3887784 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
3887807 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
3887830 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
3887853 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
3887876 TCAAACACTTCAATTTGCAGCAAT
1 TTAAACACTTCAATTTGCAGC-AT
3887900 TT-AACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
3887922 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
3887946 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
3887968 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * *
3887990 TAAAACA-TCTCAATTTCCAGCAAC
1 TTAAACACT-TCAATTTGCAGC-AT
* * *
3888014 TAAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
3888037 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
3888060 TTA
1 TTA
3888063 CTACTAATAT
Statistics
Matches: 759, Mismatches: 164, Indels: 104
0.74 0.16 0.10
Matches are distributed among these distances:
16 2 0.00
18 2 0.00
19 16 0.02
20 17 0.02
21 5 0.01
22 75 0.10
23 605 0.80
24 35 0.05
25 2 0.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAT
Found at i:3887471 original size:229 final size:229
Alignment explanation
Indices: 3887065--3887512 Score: 747
Period size: 229 Copynumber: 2.0 Consensus size: 229
3887055 AAATAAGTAC
* * *
3887065 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCA
1 TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
* *
3887130 GCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATT
66 ACATTCAAAAACTTCAATTTACAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATT
3887195 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCA
131 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCA
*
3887260 ATTTGCAGTACTTAAATACTTCAATTTGCAACAT
196 ATTTGCAGTACTTAAACACTTCAATTTGCAACAT
* * *
3887294 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCA
1 TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
* *
3887359 ACACTT-TAACACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAA
66 ACA-TTCAAAAACTTCAATTTACAGCACTTTAA-CACTTCAATTTGCAGCACTTTAACATCTCAA
* *
3887422 TTAACAACATTTATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTT
129 TTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTT
3887487 CAATTTGCAGTACTTAAACACTTCAA
194 CAATTTGCAGTACTTAAACACTTCAA
3887513 ATTGAAGTGT
Statistics
Matches: 204, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
228 5 0.02
229 197 0.97
230 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (229 bp):
TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
ACATTCAAAAACTTCAATTTACAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATT
AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCA
ATTTGCAGTACTTAAACACTTCAATTTGCAACAT
Found at i:3887554 original size:62 final size:62
Alignment explanation
Indices: 3887478--3887636 Score: 318
Period size: 62 Copynumber: 2.6 Consensus size: 62
3887468 GTCCAGCAAC
3887478 TAAACACTTCAATTTGCAGTACTTAAACACTTCAAATTGAAGTGTTTAACTCCGCCTGGAGA
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAAATTGAAGTGTTTAACTCCGCCTGGAGA
3887540 TAAACACTTCAATTTGCAGTACTTAAACACTTCAAATTGAAGTGTTTAACTCCGCCTGGAGA
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAAATTGAAGTGTTTAACTCCGCCTGGAGA
3887602 TAAACACTTCAATTTGCAGTACTTAAACACTTCAA
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAA
3887637 TTTGCAACAT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (62 bp):
TAAACACTTCAATTTGCAGTACTTAAACACTTCAAATTGAAGTGTTTAACTCCGCCTGGAGA
Found at i:3889023 original size:23 final size:23
Alignment explanation
Indices: 3888989--3889204 Score: 210
Period size: 23 Copynumber: 9.4 Consensus size: 23
3888979 ACTTGTATAA
*
3888989 CATTTAAGCACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
*
3889012 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
* *
3889035 CACTTT-AACA-TCTCAATTAACAA
1 CA-TTTAAACACT-TCAATTTACAG
* *
3889058 CATTTATACAAC-TCAA-TTACAA
1 CATTTAAAC-ACTTCAATTTACAG
* *
3889080 CGA-TAAAACA-TCTCAATTTCCAG
1 C-ATTTAAACACT-TCAATTTACAG
** *
3889103 CAACTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
* * *
3889126 TACTTAAACACTTCAATTTACAA
1 CATTTAAACACTTCAATTTACAG
3889149 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
*
3889172 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
3889195 CATTTAAACA
1 CATTTAAACA
3889205 ACAGTAGCCA
Statistics
Matches: 159, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.01
22 19 0.12
23 134 0.84
24 5 0.03
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:3889094 original size:22 final size:23
Alignment explanation
Indices: 3889041--3889097 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
3889031 GCAGCACTTT
*
3889041 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACATTAA
* *
3889064 TACAACTCAATT-ACAACGA-TAA
1 AACATCTCAATTAACAAC-ATTAA
3889086 AACATCTCAATT
1 AACATCTCAATT
3889098 TCCAGCAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACATTAA
Found at i:3889165 original size:91 final size:91
Alignment explanation
Indices: 3889001--3889166 Score: 237
Period size: 91 Copynumber: 1.8 Consensus size: 91
3888991 TTTAAGCACT
** * *
3889001 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACATCTCAATTAACAACATTTAAA
3889066 CAACTCAATTACAACGATAAAACATC
66 CAACTCAATTACAACGATAAAACATC
* * *
3889092 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACA-CTTCAATTTACAACATTTAA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACATC-TCAATTAACAACATTTAA
3889156 AC-ACTTCAATT
65 ACAAC-TCAATT
3889167 TACAGCATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 3 0.05
91 63 0.95
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (91 bp):
TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACATCTCAATTAACAACATTTAAA
CAACTCAATTACAACGATAAAACATC
Found at i:3895294 original size:36 final size:36
Alignment explanation
Indices: 3895254--3895332 Score: 98
Period size: 30 Copynumber: 2.4 Consensus size: 36
3895244 AATCTTAGCA
*
3895254 TTTTCCACCACCACCACCAACTCCACTAGCCACTCC
1 TTTTCCACCACCACCACCAACTCCACTAGCCACACC
3895290 TTTT------CCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCACCACCAACTCCACTAGCCACACC
*
3895320 TTCTCCACCACCA
1 TTTTCCACCACCA
3895333 AATCCACTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
30 28 0.80
36 7 0.20
ACGTcount: A:0.25, C:0.52, G:0.03, T:0.20
Consensus pattern (36 bp):
TTTTCCACCACCACCACCAACTCCACTAGCCACACC
Found at i:3895298 original size:30 final size:30
Alignment explanation
Indices: 3895264--3895346 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
3895254 TTTTCCACCA
* *
3895264 CCACCACCAACTCCACTAGCCACTCCTTTT
1 CCACCACCAACTCCACTAGCCACACCTTCT
3895294 CCACCACCAACTCCACTAGCCACACCTTCT
1 CCACCACCAACTCCACTAGCCACACCTTCT
*
3895324 CCACCACCAAATCCACTAGCCAC
1 CCACCACCAACTCCACTAGCCAC
3895347 GCTTGCTACA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.52, G:0.04, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACCTTCT
Found at i:3898018 original size:3 final size:3
Alignment explanation
Indices: 3898005--3898217 Score: 72
Period size: 3 Copynumber: 71.7 Consensus size: 3
3897995 TATTATCCAA
* *
3898005 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT A-T ATT -TGCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT--T
** * * * * ** *
3898053 GCT ATC ATT AGT ATT ACT ACTT -TT ATT ACT ACC ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
3898098 A-T ATT -TT -TT ATGT TTT ATT CCTT TTCT ATT ATT ATTT ATT A-T ATT
1 ATT ATT ATT ATT AT-T ATT ATT -ATT AT-T ATT ATT A-TT ATT ATT ATT
* * * *
3898143 -TT A-T ATT ATC ATT ATT A-G ATT ATT ATT -TT CTT ATT AATGT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT
* *
3898186 ATT ATT TTCT ACT -TT ATT ATT ATT ATT ATT AT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT
3898218 CATTTCTATT
Statistics
Matches: 154, Mismatches: 35, Indels: 42
0.67 0.15 0.18
Matches are distributed among these distances:
2 21 0.14
3 117 0.76
4 15 0.10
5 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:3898149 original size:22 final size:22
Alignment explanation
Indices: 3898119--3898177 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
3898109 GTTTTATTCC
* *
3898119 TTTTCTATTATTATTTATTATA
1 TTTTATATTATTATTTATTAGA
*
3898141 TTTTATATTATCA-TTATTAGA
1 TTTTATATTATTATTTATTAGA
* *
3898162 TTATTATTTTCTTATT
1 TT-TTATATTATTATT
3898178 AATGTAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 9 0.31
22 19 0.66
23 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTATATTATTATTTATTAGA
Found at i:3902072 original size:35 final size:35
Alignment explanation
Indices: 3902014--3902108 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
3902004 ATAAATTTAG
* **
3902014 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
*
3902050 T-TAAATATAATTTGAAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
* *
3902085 TATGACTATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
3902109 AAATTTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
35 36 0.72
36 14 0.28
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:3904753 original size:26 final size:26
Alignment explanation
Indices: 3904717--3904826 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
3904707 CATGAAATTC
*
3904717 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3904743 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3904769 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
3904795 TTATCATGGAGCATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3904821 TTATCA
1 TTATCA
3904827 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3909432 original size:30 final size:30
Alignment explanation
Indices: 3909382--3909440 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3909372 AGCCCAAACA
3909382 CAAAGCCCAAATACCTCAGACCCGTTACAG
1 CAAAGCCCAAATACCTCAGACCCGTTACAG
*
3909412 CAAA-CCCAAAATAGCC-CAGACCTGTTACA
1 CAAAGCCC-AAATA-CCTCAGACCCGTTACA
3909441 CCCTACCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.39, C:0.36, G:0.12, T:0.14
Consensus pattern (30 bp):
CAAAGCCCAAATACCTCAGACCCGTTACAG
Found at i:3922458 original size:206 final size:206
Alignment explanation
Indices: 3922098--3922614 Score: 770
Period size: 206 Copynumber: 2.5 Consensus size: 206
3922088 TGGCTGAAGT
* * *
3922098 AGATCCAAGATGATTTAGCATCCTTGTACTTACAAGGAGCAAATTGAAAACATAGCTGATTTGGC
1 AGATCAAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGATTTGGC
* * *
3922163 TTTCACGTGTCTACGATGAAGCAAATCTAAAATGATTTGGCATCTCTGTATTGTCAGAGAGCAAA
66 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAA
*
3922228 TCGAAGTCTGGCATCTCCACTTCAACGG-GGAGCAGATACATAGCAAATCTCACCTTCAGATG-T
131 TCGAAGTCTGGCATCTCCACTTCAACGGAGG-GCAGACACATAGCAAATCTCACCTTCAGATGAT
*
3922291 TTATACTAAAGC-
195 TT-CACTAAAGCA
3922303 AGATTCAAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGATTTGG
1 AGA-TCAAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGATTTGG
*
3922368 CTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAA
65 CTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAA
* * *
3922433 ATCGAAGTCTGGCATCTCCACTTCAACGGAGGGTAGACACATTGCAGATCTCACCTTCAGATGAT
130 ATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATAGCAAATCTCACCTTCAGATGAT
*
3922498 TTCACTGAAGCA
195 TTCACTAAAGCA
* * * * * * * *
3922510 AGATCCAAGATGGTTTAGTATCCTTGCGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGT
1 AGATCAAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGATTTGGC
* * *
3922575 TTTCACGTGCTTACGCTAAAGCAAATCTAAGATGATTTGG
66 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGG
3922615 AGAACAAATC
Statistics
Matches: 283, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
205 3 0.01
206 272 0.96
207 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (206 bp):
AGATCAAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGATTTGGC
TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAA
TCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATAGCAAATCTCACCTTCAGATGATT
TCACTAAAGCA
Found at i:3922963 original size:30 final size:30
Alignment explanation
Indices: 3922913--3922971 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3922903 AGCCCAAACA
3922913 CAAAGCCCAAATACCTCAGACCCGTTACAG
1 CAAAGCCCAAATACCTCAGACCCGTTACAG
*
3922943 CAAA-CCCAAAATAGCC-CAGACCTGTTACA
1 CAAAGCCC-AAATA-CCTCAGACCCGTTACA
3922972 CCCTACCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.39, C:0.36, G:0.12, T:0.14
Consensus pattern (30 bp):
CAAAGCCCAAATACCTCAGACCCGTTACAG
Found at i:3926493 original size:49 final size:48
Alignment explanation
Indices: 3926384--3926502 Score: 121
Period size: 49 Copynumber: 2.4 Consensus size: 48
3926374 ATCCCAGATG
* * *
3926384 GCTCAAAAATGATGACTTTCATTATCTATATATTCTACCATCTCGAGT
1 GCTCAAAAATGATGACTTTCATTATCTATATATTCTACCAACCCAAGT
* * * * * *
3926432 GACCCGATAATGATGGCTTTCATTTTCTATATATTTTACCAACCCAAGT
1 G-CTCAAAAATGATGACTTTCATTATCTATATATTCTACCAACCCAAGT
* *
3926481 AGCTCAACAATGATGATTTTCA
1 -GCTCAAAAATGATGACTTTCA
3926503 CTATTTCGAT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
48 1 0.02
49 53 0.96
50 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (48 bp):
GCTCAAAAATGATGACTTTCATTATCTATATATTCTACCAACCCAAGT
Found at i:3927453 original size:20 final size:20
Alignment explanation
Indices: 3927428--3927475 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3927418 ATATATACAC
*
3927428 TTTAATTAATGTTAATTTAG
1 TTTAATTAATCTTAATTTAG
**
3927448 TTTAATTAATCTTGTTTTAG
1 TTTAATTAATCTTAATTTAG
3927468 -TTAATTAA
1 TTTAATTAA
3927476 GAGATTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTAATTAATCTTAATTTAG
Found at i:3932961 original size:20 final size:20
Alignment explanation
Indices: 3932936--3932974 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3932926 TTTATAACCA
*
3932936 TTATCAATTCCATGCTATTC
1 TTATCAATTCCATGATATTC
3932956 TTATCAATTCCATGATATT
1 TTATCAATTCCATGATATT
3932975 TTTACAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (20 bp):
TTATCAATTCCATGATATTC
Found at i:3937280 original size:14 final size:14
Alignment explanation
Indices: 3937261--3937290 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3937251 AAATTGTTTC
*
3937261 TGTTTTTTTTTGTT
1 TGTTTTTTTTTATT
3937275 TGTTTTTTTTTATT
1 TGTTTTTTTTTATT
3937289 TG
1 TG
3937291 CTCTTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.83
Consensus pattern (14 bp):
TGTTTTTTTTTATT
Found at i:3937619 original size:23 final size:22
Alignment explanation
Indices: 3937592--3937688 Score: 58
Period size: 24 Copynumber: 4.3 Consensus size: 22
3937582 AGTTATTATA
3937592 TATTATTTATTTAAAATCGTTT
1 TATTATTTATTTAAAATCGTTT
** *
3937614 TGATTACCTATTTTAAAATTGTTT
1 T-ATTATTTA-TTTAAAATCGTTT
** *
3937638 TATATACTTTATTTTGAA-C--TC
1 TAT-TA-TTTATTTAAAATCGTTT
3937659 TATTTATTTATTTTAAAAT-GTTT
1 TA-TTATTTA-TTTAAAATCGTTT
3937682 TATTATT
1 TATTATT
3937689 ATCATTTACT
Statistics
Matches: 54, Mismatches: 12, Indels: 18
0.64 0.14 0.21
Matches are distributed among these distances:
20 4 0.07
21 10 0.19
22 7 0.13
23 11 0.20
24 20 0.37
25 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (22 bp):
TATTATTTATTTAAAATCGTTT
Found at i:3939804 original size:17 final size:17
Alignment explanation
Indices: 3939782--3939817 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3939772 AAAAAGGTGA
* *
3939782 TTCTTTTTTTATTTATT
1 TTCTTTTTTAATCTATT
3939799 TTCTTTTTTAATCTATT
1 TTCTTTTTTAATCTATT
3939816 TT
1 TT
3939818 TTTATAACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTTTAATCTATT
Found at i:3940864 original size:21 final size:21
Alignment explanation
Indices: 3940838--3940893 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
3940828 AATAGCGGTG
*
3940838 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
3940859 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
*
3940880 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
3940894 AACAGCAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:3941027 original size:19 final size:18
Alignment explanation
Indices: 3941003--3941058 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
3940993 TAGAAATTTT
3941003 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
3941022 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
3941041 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
3941057 TA
1 TA
3941059 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:3948650 original size:44 final size:43
Alignment explanation
Indices: 3948546--3948653 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
3948536 CGGCATTTCC
* * *
3948546 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATCATTTCACCAGCATTAAAG
*
3948589 CCTGCTAGGCCCGAAGCCCGATAAT-ATTATTCACCAGC-TTAAAG
1 CCTGCTAGGCTCGAAGCCCGAT-ATCA-T-TTCACCAGCATTAAAG
* *
3948633 CTTGCTAGGCTCAAAGCCCGA
1 CCTGCTAGGCTCGAAGCCCGA
3948654 ATATTACCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
43 21 0.38
44 26 0.47
45 8 0.15
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
CCTGCTAGGCTCGAAGCCCGATATCATTTCACCAGCATTAAAG
Found at i:3952491 original size:10 final size:10
Alignment explanation
Indices: 3952476--3952526 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
3952466 TTAAACTCTA
3952476 AAAGATAAAT
1 AAAGATAAAT
3952486 AAAGATAAAT
1 AAAGATAAAT
*
3952496 AAAACATAAAT
1 -AAAGATAAAT
*
3952507 AAGGATAAAT
1 AAAGATAAAT
3952517 AAAGATAAAT
1 AAAGATAAAT
3952527 GCTAAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:3952498 original size:21 final size:21
Alignment explanation
Indices: 3952474--3952526 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
3952464 AATTAAACTC
3952474 TAAAAGATAAATAAAGATAAA
1 TAAAAGATAAATAAAGATAAA
* *
3952495 TAAAACATAAATAAGGATAAA
1 TAAAAGATAAATAAAGATAAA
3952516 T-AAAGATAAAT
1 TAAAAGATAAAT
3952527 GCTAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAAAGATAAATAAAGATAAA
Found at i:3960148 original size:213 final size:213
Alignment explanation
Indices: 3959840--3961043 Score: 1406
Period size: 213 Copynumber: 5.7 Consensus size: 213
3959830 ATCTATCTAG
* *
3959840 TTTTCCAGAAATCTTAAAGACCATGGAGAGGTTGATATATCTTGATTTAAGCGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGCGGAACGGCTTTGA
* * * * *
3959905 AGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTGTGAAC--TTGAGTTTGGACAACTGTA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTC-T-TAAACATTTGAGATTGAACAACTGTG
* * * * * *
3959968 AAAATCTTGTTTGCCTTCCTAACAGTTTTTATAAATTGAAATCTCTTAAGATATTCACAATTCAA
129 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATTTTCACACTTCAA
3960033 GGTTGCTCGAGATTGGAGAT
194 GGTTGCTCGAGATTGGAGAT
* **
3960053 ATTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGTAGAACTGG-TTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGCGGAAC-GGCTTTG
* * * *
3960117 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTACACAATTGAGACTGAGCAACTGTGA
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAACATTTGAGATTGAACAACTGTGA
* ** *
3960182 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTCAGTTTTTCA-ATCTTGAA
130 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATTTTCACA-CTTCAA
* **
3960246 GGTTGTTTAAGATTGGAGAT
194 GGTTGCTCGAGATTGGAGAT
* * * * * *
3960266 TTTTCCAAAAACCTTGGACACCATGGAGAGGTTG-G-TGCATCTTGATTTAAGCGGAATGTCTTT
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGAT--ATCTTGATTTAAGCGGAACGGCTTT
* * * * * *
3960329 GAAGGAATTACCATTCTCAAATGATAATCTTATTGGTCTTATATATTTAAGATTGAACAACTGTG
64 GAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAACATTTGAGATTGAACAACTGTG
* * * * * * *
3960394 AAAACCTTGTTTGTCTTCCTGACAACTTTTATAAATTGAAATATCTTATCTTTTTCTCTCTTCAA
129 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATTTTCACACTTCAA
**
3960459 AATTGCTCGAGATTGGAGAT
194 GGTTGCTCGAGATTGGAGAT
* * * * * *
3960479 TTTTCCAGAAATCTTAGAGGCCATGGTGTGGTTGAGGGT-GCTTGATTTAAGTGGAACGGCTTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGA-GATATCTTGATTTAAGCGGAACGGCTTTG
* * * * ** * * * * *
3960543 AAGAAACTACCATCCTCAATTGTCAATTTTATTTTTCTTATAGATTTGAGACTGAGCGACTGTGA
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAACATTTGAGATTGAACAACTGTGA
* * * * *
3960608 AAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAAACTCTT-ACCTTTTTAAATCTTCAA
130 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATTTTCACA-CTTCAA
**
3960672 AATTGCTCGAGATTGGAGAT
194 GGTTGCTCGAGATTGGAGAT
** *
3960692 TTTTCCAGAAATCTTAGAGACCATGGA-ATGGTTGAGGGAGCTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGA-GGTTGAGATATCTTGATTTAAGCGGAACGGCTTTG
* **
3960756 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAACTGTGA
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAACATTTGAGATTGAACAACTGTGA
* * ** *
3960821 AAACCTTGTTTGCCTTCCTGATAGCCTTTATAAATTGAAATCTCTTAACAGATTCACACTTGAAG
130 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATTTTCACACTTCAAG
3960886 GTTGCTCGAGATTGGAGAT
195 GTTGCTCGAGATTGGAGAT
* * * * *
3960905 TTTTCCAGAAATCTTAGAAACCATGGA-ATGGTTGAGCTTTCTTAATTTAAGCAGAACGGCTTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGA-GGTTGAGATATCTTGATTTAAGCGGAACGGCTTTG
* *
3960969 AAGGAATTACCATTCTCAATTGACAATCTTATTGGTCTTCAAA-ACTTGAGATTGAACAACTGTG
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTT-AAACATTTGAGATTGAACAACTGTG
*
3961033 AGAA-CTTGTTT
129 AAAACCTTGTTT
3961044 ACTGCCATTG
Statistics
Matches: 844, Mismatches: 131, Indels: 33
0.84 0.13 0.03
Matches are distributed among these distances:
211 4 0.00
212 18 0.02
213 811 0.96
214 9 0.01
215 1 0.00
216 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (213 bp):
TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGCGGAACGGCTTTGA
AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAACATTTGAGATTGAACAACTGTGAA
AACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATTTTCACACTTCAAGG
TTGCTCGAGATTGGAGAT
Found at i:3960999 original size:639 final size:637
Alignment explanation
Indices: 3959840--3961043 Score: 1590
Period size: 639 Copynumber: 1.9 Consensus size: 637
3959830 ATCTATCTAG
* *
3959840 TTTTCCAGAAATCTTAAAGACCATGGAGAGGTTGATATATCTTGATTTAAGCGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAAAGACCATGGAGAGGTTGAGATAGCTTGATTTAAGCGGAACGGCTTTGA
* * * **
3959905 AGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTGTGAACTTGAGTTTGGACAACTGTAAA
66 AGAAACTACCATCCTCAATTGATAATCTTATTGGTCTTATGAACTTGAGACTGGACAACTGTAAA
* ** * * **
3959970 AATCTTGTTTGCCTTCCTAACAGTTTTTATAAATTGAAATCTCTTAAGATATTCACAATTCAAGG
131 AACCTTGTTTGCCTTCCTAACAACTTTTATAAATTGAAAACTCTTAACATATTCACAATTCAAAA
* *
3960035 TTGCTCGAGATTGGAGATATTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATT
196 TTGCTCGAGATTGGAGATATTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGAGAGCTTGATT
*
3960100 TAAGTAGAACTGGTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTACACAATTG
261 TAAGCAGAACTGGTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTACACAATTG
* *
3960165 AGACTGAGCAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTCA
326 AGACTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTCA
* * * * *
3960230 GTTTTTCAATCTTGAAGGTTGTTTAAGATTGGAGATTTTTCCAAAAACCTTGGACACCATGGAGA
391 G-TATTCAATCTTGAAGGTTGCTCAAGATTGGAGATTTTTCCAAAAACCTTAGAAACCATGGAGA
* * * * * *
3960295 GGTTGGTGCATCTTGATTTAAGCGGAATGTCTTTGAAGGAATTACCATTCTCAAATGATAATCTT
455 GGTTGGAGCATCTTAATTTAAGCAGAACGGCTTTGAAGGAATTACCATTCTCAAATGACAATCTT
* *
3960360 ATTGGTCTT-ATATATTTAAGATTGAACAACTGTGAAAACCTTGTTTGTCTTCCTGACAACTTTT
520 ATTGGTCTTCA-AAACTTAAGATTGAACAACTGTGAAAA-CTTGTTTGTCTTCCTGACAACTTTT
3960424 ATAAATTGAAATATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAGATTGGAGAT
583 ATAAATTGAAATATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAGATTGGAGAT
* * * * * *
3960479 TTTTCCAGAAATCTTAGAGGCCATGGTGTGGTTGAGGGT-GCTTGATTTAAGTGGAACGGCTTTG
1 TTTTCCAGAAATCTTAAAGACCATGGAGAGGTTGA-GATAGCTTGATTTAAGCGGAACGGCTTTG
* ** * *
3960543 AAGAAACTACCATCCTCAATTG-TCAATTTTATTTTTCTTAT-AGATTTGAGACT-GAGCGACTG
65 AAGAAACTACCATCCTCAATTGAT-AATCTTATTGGTCTTATGA-ACTTGAGACTGGA-CAACTG
* * * * *
3960605 TGAAAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAAACTCTT-ACCTTTTTA-AATCT
127 TAAAAACCTTGTTTGCCTTCCTAACAACTTTTATAAATTGAAAACTCTTAACATATTCACAA--T
* *
3960668 TCAAAATTGCTCGAGATTGGAGATTTTTCCAGAAATCTTAGAGACCATGGA-ATGGTTGAGGGAG
190 TCAAAATTGCTCGAGATTGGAGATATTTCCAGAAATCTTAGAGACCATGGAGA-GGTTGAGAGAG
*
3960732 CTTGATTTAAGCGGAAC-GGCTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTG
254 CTTGATTTAAGCAGAACTGG-TTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTT-
** * * *
3960796 A-GGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGATAGCCTTTATAAATTGAA
317 ACACAATTGAGACTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAA
* * *
3960860 ATCTCTTAACAG-ATTCACA-CTTGAAGGTTGCTCGAGATTGGAGATTTTTCCAGAAATCTTAGA
382 ATCTCTT--CAGTATTCA-ATCTTGAAGGTTGCTCAAGATTGGAGATTTTTCCAAAAACCTTAGA
*
3960923 AACCATGGA-ATGGTT-GAGCTTTCTTAATTTAAGCAGAACGGCTTTGAAGGAATTACCATTCTC
444 AACCATGGAGA-GGTTGGAGC-ATCTTAATTTAAGCAGAACGGCTTTGAAGGAATTACCATTCTC
* * *
3960986 AATTGACAATCTTATTGGTCTTCAAAACTTGAGATTGAACAACTGTGAGAACTTGTTT
507 AAATGACAATCTTATTGGTCTTCAAAACTTAAGATTGAACAACTGTGAAAACTTGTTT
3961044 ACTGCCATTG
Statistics
Matches: 487, Mismatches: 63, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
637 2 0.00
638 23 0.05
639 455 0.93
640 4 0.01
641 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (637 bp):
TTTTCCAGAAATCTTAAAGACCATGGAGAGGTTGAGATAGCTTGATTTAAGCGGAACGGCTTTGA
AGAAACTACCATCCTCAATTGATAATCTTATTGGTCTTATGAACTTGAGACTGGACAACTGTAAA
AACCTTGTTTGCCTTCCTAACAACTTTTATAAATTGAAAACTCTTAACATATTCACAATTCAAAA
TTGCTCGAGATTGGAGATATTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGAGAGCTTGATT
TAAGCAGAACTGGTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTACACAATTG
AGACTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTCA
GTATTCAATCTTGAAGGTTGCTCAAGATTGGAGATTTTTCCAAAAACCTTAGAAACCATGGAGAG
GTTGGAGCATCTTAATTTAAGCAGAACGGCTTTGAAGGAATTACCATTCTCAAATGACAATCTTA
TTGGTCTTCAAAACTTAAGATTGAACAACTGTGAAAACTTGTTTGTCTTCCTGACAACTTTTATA
AATTGAAATATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAGATTGGAGAT
Found at i:3962249 original size:42 final size:42
Alignment explanation
Indices: 3962190--3962274 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
3962180 GGATTCCAAG
3962190 TATGACCGCTGAATGATGCTTCAACCTCATTTAGTTATCTCA
1 TATGACCGCTGAATGATGCTTCAACCTCATTTAGTTATCTCA
*
3962232 TATGACCGTTGAATGATGCTTCAACCTCATTTAGTTATCTCA
1 TATGACCGCTGAATGATGCTTCAACCTCATTTAGTTATCTCA
3962274 T
1 T
3962275 CTGTACTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (42 bp):
TATGACCGCTGAATGATGCTTCAACCTCATTTAGTTATCTCA
Found at i:3964765 original size:3 final size:3
Alignment explanation
Indices: 3964752--3965026 Score: 67
Period size: 3 Copynumber: 93.0 Consensus size: 3
3964742 AACAAAATGA
* * * * ** *
3964752 AAT AA- AAT AAT AAT AGT AAT GAT ACT ACT ACC AAT AAT AAT AAT AGTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * * * * *
3964800 AA- AA- AAT AAT AAT ACT AGT AAT AGT AAT TAC AAC AAT GAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
3964846 AAT AA- AAT AA- GAT GAT AAT AAT AAAT ACA- AGT -AT ATT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT AAT AAT
* * **
3964888 AAGT AA- AAA AAT AA- AAT AAA AAT AAT AAT AGC AAT AAT AAGT -AT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * * **
3964932 ATT AAT AAT AGT AAT AAT AAC AAC AAT ACG AAT AAT AAT ATAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT
* *
3964979 AAAT AAT AAT AGTT AGA- AAT AA- AA- AAT AAT AGA- AGT AAT AAT AAT
1 -AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
3965024 AAT
1 AAT
3965027 GGTATTAGAA
Statistics
Matches: 200, Mismatches: 50, Indels: 44
0.68 0.17 0.15
Matches are distributed among these distances:
2 22 0.11
3 156 0.78
4 21 0.10
5 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3964900 original size:14 final size:14
Alignment explanation
Indices: 3964882--3964915 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3964872 ACAAGTATAT
3964882 TAATAAAAGTAAAAA
1 TAATAAAA-TAAAAA
3964897 -AATAAAATAAAAA
1 TAATAAAATAAAAA
3964910 TAATAA
1 TAATAA
3964916 TAGCAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
TAATAAAATAAAAA
Found at i:3964916 original size:52 final size:51
Alignment explanation
Indices: 3964846--3964945 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 51
3964836 TGATAATAGT
* * *
3964846 AATAAAATAAGATGATAATAATAAAT-ACAAGTATATTAATAAAAGTAAAAA
1 AATAAAATAAAATAATAAT-AGAAATAACAAGTATATTAATAAAAGTAAAAA
* * *
3964897 AATAAAATAAAAATAATAATAGCAATAATAAGTATATTAATAATAGTAA
1 AATAAAAT-AAAATAATAATAGAAATAACAAGTATATTAATAAAAGTAA
3964946 TAATAACAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 12 0.29
52 29 0.71
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (51 bp):
AATAAAATAAAATAATAATAGAAATAACAAGTATATTAATAAAAGTAAAAA
Found at i:3965086 original size:21 final size:21
Alignment explanation
Indices: 3965062--3965106 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3965052 TACAAGTATG
* *
3965062 ATAATAATAATGGTAATAAAA
1 ATAAAAATAATAGTAATAAAA
*
3965083 ATAAAAATAATAGTAATAATA
1 ATAAAAATAATAGTAATAAAA
3965104 ATA
1 ATA
3965107 CGTTAAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
ATAAAAATAATAGTAATAAAA
Found at i:3968053 original size:20 final size:20
Alignment explanation
Indices: 3968018--3968055 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3968008 AGCGAACAAA
3968018 ATATAAAAATATAAATATTT
1 ATATAAAAATATAAATATTT
3968038 ATATATAAAATA-AAATAT
1 ATATA-AAAATATAAATAT
3968056 AAATTGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAAAATATAAATATTT
Found at i:3968544 original size:20 final size:20
Alignment explanation
Indices: 3968501--3968549 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
3968491 AGGGGCAATT
* * *
3968501 AAATCAATTTGGTTAAAATC
1 AAATCAAATTGATTAAAATA
*
3968521 AAATCAAATTGATTAGAATA
1 AAATCAAATTGATTAAAATA
*
3968541 AAATAAAAT
1 AAATCAAAT
3968550 CAGGATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:3971984 original size:86 final size:86
Alignment explanation
Indices: 3971743--3972082 Score: 404
Period size: 86 Copynumber: 4.0 Consensus size: 86
3971733 TAAACAGCGG
* *
3971743 GAATAAATCCCGAAACATATTTAATTTAA-TTTAATTCTCATTTGGAAATAAAATAAAATAA---
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAA-AATGG
* *
3971804 AATAAAATCTTGTTAAATGACGA
65 AATAAAATC-TGTTGAACGACGA
** * * *
3971827 GAATAAATCTTGAAACAGATTTTATTTAATTTTAATTTCTCATTTTGATAACAAAATAAAAAATG
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAA-TTCTCATTTGGA-AATAAAATAAAAAATG
* *
3971892 GAATAAAATCTGTTGAACGTCAA
64 GAATAAAATCTGTTGAACGACGA
* * * * *
3971915 GAATAAATCCCAAAATAGATTTTATTTAA-TTCAATACTCGTTTTGGAAATAAAATAAAAAATGG
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTC-ATTTGGAAATAAAATAAAAAATGG
*
3971979 AATAAAATCCT-TTGAACGACGG
65 AATAAAAT-CTGTTGAACGACGA
* * *
3972001 GAATAAATCCCGAAAGAGATTTTTTTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGAA
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
3972066 ATAAAATCTGTTGAACG
66 ATAAAATCTGTTGAACG
3972083 GCGGAAATAA
Statistics
Matches: 217, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
84 25 0.12
85 7 0.03
86 112 0.52
87 30 0.14
88 34 0.16
89 9 0.04
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (86 bp):
GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
ATAAAATCTGTTGAACGACGA
Found at i:3972071 original size:172 final size:172
Alignment explanation
Indices: 3971743--3972082 Score: 445
Period size: 172 Copynumber: 2.0 Consensus size: 172
3971733 TAAACAGCGG
* * * *
3971743 GAATAAATCCCGAAACATATTTAATTTAATTTAATTCTCATTTGGAAATAAAATAAAATAAAATA
1 GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTCATTTGGAAATAAAATAAAATAAAATA
* * ** * *
3971808 AAATCTTGTTAAATGACGAGAATAAATCTTGAAACAGATTTTATTTAATTTTAATTTCTCATTTT
66 AAATCCTGTTAAACGACGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCATTTG
*
3971873 GATAACAAAATAAAAAATGGAATAAAATCTGTTGAACGTCAA
131 GATAACAAAATAAAAAATGAAATAAAATCTGTTGAACGTCAA
* * *
3971915 GAATAAATCCCAAAATAGATTTTATTTAATTCAATACTCGTTTTGGAAATAAAATAAAA-AATGG
1 GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTC-ATTTGGAAATAAAATAAAATAA---
* * * *
3971979 AATAAAATCCT-TTGAACGACGGGAATAAATCCCGAAAGAGATTTTTTTTAACTTTAA-TTCTCA
62 AATAAAATCCTGTTAAACGACGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCA
*
3972042 TTTGGA-AATAAAATAAAAAATGAAATAAAATCTGTTGAACG
127 TTTGGATAACAAAATAAAAAATGAAATAAAATCTGTTGAACG
3972083 GCGGAAATAA
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
172 68 0.47
173 29 0.20
174 38 0.26
175 10 0.07
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (172 bp):
GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTCATTTGGAAATAAAATAAAATAAAATA
AAATCCTGTTAAACGACGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCATTTG
GATAACAAAATAAAAAATGAAATAAAATCTGTTGAACGTCAA
Found at i:3972292 original size:22 final size:23
Alignment explanation
Indices: 3972265--3972308 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3972255 TTAGTGAACA
3972265 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
3972287 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
3972309 ATATAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:3972310 original size:20 final size:21
Alignment explanation
Indices: 3972264--3972313 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
3972254 GTTAGTGAAC
3972264 AAAATATATAAATATAAATAA
1 AAAATATATAAATATAAATAA
* * *
3972285 ACAAATATTTATATATAAA-AT
1 A-AAATATATAAATATAAATAA
3972306 AAAATATA
1 AAAATATA
3972314 AATCAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.25
21 3 0.12
22 15 0.62
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATATATAAATATAAATAA
Found at i:3972310 original size:28 final size:33
Alignment explanation
Indices: 3972267--3972335 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 33
3972257 AGTGAACAAA
3972267 ATATAT-AAAT-ATAA-ATAAA-CAAAT-ATTT
1 ATATATAAAATAATAATATAAATCAAATAATTT
3972295 ATATATAAAATAA-AATATAAATCAAATAATTT
1 ATATATAAAATAATAATATAAATCAAATAATTT
*
3972327 ATATTTAAA
1 ATATATAAA
3972336 TTGTCAGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 6 0.17
29 6 0.17
30 6 0.17
31 5 0.14
32 12 0.34
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (33 bp):
ATATATAAAATAATAATATAAATCAAATAATTT
Found at i:3973086 original size:23 final size:23
Alignment explanation
Indices: 3973060--3973111 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
3973050 TTATTTTTAA
* *
3973060 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
3973083 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
3973106 ATTTAG
1 ATTTAG
3973112 TGATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:3973087 original size:13 final size:13
Alignment explanation
Indices: 3973069--3973124 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
3973059 AATTTTGAAT
3973069 TATTTAGTGATAA
1 TATTTAGTGATAA
*
3973082 TATTTA--GA-AT
1 TATTTAGTGATAA
*
3973092 TATTTAATGATAA
1 TATTTAGTGATAA
3973105 TATTTAGTGATAA
1 TATTTAGTGATAA
3973118 TATTTAG
1 TATTTAG
3973125 GAAAAATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 2 0.05
12 2 0.05
13 26 0.70
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:3983897 original size:22 final size:22
Alignment explanation
Indices: 3983871--3983915 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
3983861 GGGCAATTTG
*
3983871 CCCAATGAGTCCCTCTTGTTTA
1 CCCAATGAGTCCCTATTGTTTA
3983893 CCCAATGAGTCCCTATTGTTTA
1 CCCAATGAGTCCCTATTGTTTA
3983915 C
1 C
3983916 GCACGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (22 bp):
CCCAATGAGTCCCTATTGTTTA
Found at i:3984051 original size:12 final size:12
Alignment explanation
Indices: 3983997--3984088 Score: 53
Period size: 12 Copynumber: 7.8 Consensus size: 12
3983987 AATTTAACCC
*
3983997 TATA-TATTTAT
1 TATATTATTTTT
*
3984008 TATATTATTATT
1 TATATTATTTTT
* *
3984020 TGTTTTATTTTT
1 TATATTATTTTT
* **
3984032 AACCTTATTTTT
1 TATATTATTTTT
* *
3984044 TATATTATATAT
1 TATATTATTTTT
**
3984056 TATAAAATTATTT
1 TATATTATT-TTT
*
3984069 TATA-TATTATT
1 TATATTATTTTT
3984080 TATATTATT
1 TATATTATT
3984089 ATTATTCATT
Statistics
Matches: 58, Mismatches: 20, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
11 10 0.17
12 42 0.72
13 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:3984092 original size:27 final size:27
Alignment explanation
Indices: 3984036--3984236 Score: 103
Period size: 27 Copynumber: 7.1 Consensus size: 27
3984026 ATTTTTAACC
* *
3984036 TTATTTTTTATATTA--TATATTATAAAA
1 TTATTTTATATATTATTTATATTAT--TA
3984063 TTATTTTATATATTATTTATATTATTA
1 TTATTTTATATATTATTTATATTATTA
* *
3984090 TTATTCATTATATGTTATTCTTCACAAGTTATTA
1 TTATT--TTATATATTA-T-TT-A-TA-TTATTA
**
3984124 TTATTTTGCATCATTATTTATA-TATTA
1 TTATTTTATAT-ATTATTTATATTATTA
* *
3984151 TTATATTATATGTTTATTATATATTATATA
1 TTATTTTATAT-ATTATT-TATATTAT-TA
*
3984181 TTATTTT-TATATATATGCTTTTA-TATTA
1 TTATTTTATATAT-TAT--TTATATTATTA
*
3984209 -TATATTATA-ATTATTT-TATATATTA
1 TTATTTTATATATTATTTATAT-TATTA
3984234 TTA
1 TTA
3984237 AGTCATTTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 41
0.70 0.09 0.21
Matches are distributed among these distances:
23 2 0.01
24 2 0.01
25 5 0.04
26 5 0.04
27 45 0.33
28 9 0.07
29 30 0.22
30 13 0.09
31 5 0.04
32 6 0.04
33 4 0.03
34 11 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTTTATATATTATTTATATTATTA
Found at i:3984154 original size:30 final size:27
Alignment explanation
Indices: 3984118--3984187 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
3984108 TCTTCACAAG
3984118 TTATTATTATTTTGCATCATTATTTATATA
1 TTATTATTATTTT--ATCATTA-TTATATA
* **
3984148 TTATTA-TATTATATGTTTATTATATA
1 TTATTATTATTTTATCATTATTATATA
3984174 TTATATATTATTTT
1 TTAT-TATTATTTT
3984188 TATATATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 11 0.32
27 7 0.21
28 5 0.15
29 5 0.15
30 6 0.18
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (27 bp):
TTATTATTATTTTATCATTATTATATA
Found at i:3984175 original size:18 final size:17
Alignment explanation
Indices: 3984146--3984234 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 17
3984136 ATTATTTATA
3984146 TATTATTATATTATATGTT
1 TATTA-TATATTATAT-TT
*
3984165 TATTATATATTATATAT
1 TATTATATATTATATTT
* *
3984182 TATTTTTATATATATGCTTTT
1 TA-TTATATAT-TAT--ATTT
3984203 ATATTATATATTATAATTAT
1 -TATTATATATTAT-ATT-T
3984223 T-TTATATATTAT
1 TATTATATATTAT
3984235 TAAGTCATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.05
18 28 0.49
19 11 0.19
20 4 0.07
21 9 0.16
22 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATATATTATATTT
Found at i:3984205 original size:25 final size:25
Alignment explanation
Indices: 3984141--3984229 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
3984131 GCATCATTAT
3984141 TTATATATTATTATATTATATGTTTA
1 TTATATATT-TTATATTATATGTTTA
*
3984167 TTATATATTATATATTAT-T-TTTA
1 TTATATATTTTATATTATATGTTTA
* *
3984190 TATATATGCTTTTATATTATAT-ATTA
1 T-TATAT-ATTTTATATTATATGTTTA
*
3984216 TAAT-TATTTTATAT
1 TTATATATTTTATAT
3984230 ATTATTAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 13 0.24
24 7 0.13
25 20 0.37
26 14 0.26
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATATATTTTATATTATATGTTTA
Found at i:3984251 original size:19 final size:19
Alignment explanation
Indices: 3984206--3984255 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3984196 TGCTTTTATA
*
3984206 TTATATATTA-TAATTATT
1 TTATATATTATTAATCATT
3984224 TTATATATTATTAAGTCATT
1 TTATATATTATTAA-TCATT
3984244 TT-TATATTATTA
1 TTATATATTATTA
3984256 TACATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATATTATTAATCATT
Found at i:3984256 original size:3 final size:3
Alignment explanation
Indices: 3984062--3984236 Score: 55
Period size: 3 Copynumber: 56.3 Consensus size: 3
3984052 ATATTATAAA
*
3984062 ATT ATT -TT ATAT ATT ATT -TAT ATT ATT ATT ATT CATT ATAT GTT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT -ATT AT-T ATT ATT
* ** *
3984109 CTT CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATT A-T
1 ATT -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT ATT ATT
* * *
3984155 ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG CTT
1 ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT ATT
*
3984201 -TT A-T ATT ATAT ATT ATA ATT ATT -TT ATAT ATT ATT A
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT A
3984237 AGTCATTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 52
0.65 0.09 0.26
Matches are distributed among these distances:
2 18 0.14
3 78 0.60
4 32 0.25
5 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:3984273 original size:14 final size:14
Alignment explanation
Indices: 3984248--3984281 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3984238 GTCATTTTTA
3984248 TATTAT-TATACAT
1 TATTATCTATACAT
*
3984261 TTTTATCTATACAT
1 TATTATCTATACAT
3984275 TATTATC
1 TATTATC
3984282 ATTAAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTATCTATACAT
Found at i:3984343 original size:24 final size:25
Alignment explanation
Indices: 3984301--3984350 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
3984291 TTTAAACTTG
*
3984301 TATTATATATTTATCTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
*
3984326 TATTA-ATAATTATTTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
3984350 T
1 T
3984351 TCTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATATAATTATCTTTATTTATA
Found at i:3986045 original size:71 final size:71
Alignment explanation
Indices: 3985908--3986048 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 71
3985898 GATTTACCTC
* * * * * **
3985908 ACGAGCATTCGCACACTTGCAAATCTACAAAATACCGGTTTTCGATATTTCGGCTTTTTGGGTTT
1 ACGAGCATTCGCACACTCGCAAATATACAAAATACCGGTTTTCGACATTTCGGATTTTCGACTTT
3985973 TGCCGT
66 TGCCGT
*
3985979 ACGAGCATTCGCACACTCGCAAATATACAAAATACCGGTTTTCGGCATTTCGGATTTTCGACTTT
1 ACGAGCATTCGCACACTCGCAAATATACAAAATACCGGTTTTCGACATTTCGGATTTTCGACTTT
3986044 TGCCG
66 TGCCG
3986049 ATCTAGACTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (71 bp):
ACGAGCATTCGCACACTCGCAAATATACAAAATACCGGTTTTCGACATTTCGGATTTTCGACTTT
TGCCGT
Found at i:3987260 original size:26 final size:26
Alignment explanation
Indices: 3987222--3987305 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3987212 CATGAAATTC
* *
3987222 TTATCATGAAACATTAACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
3987248 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
3987274 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
3987300 TTATCA
1 TTATCA
3987306 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:3990583 original size:5 final size:5
Alignment explanation
Indices: 3990573--3990634 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
3990563 AAATTATGGG
3990573 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3990623 ATAAT ATAAT AT
1 ATAAT ATAAT AT
3990635 GGCGTTTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:3995635 original size:12 final size:12
Alignment explanation
Indices: 3995618--3995646 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
3995608 GGTAAATAAA
3995618 ATATACATATAT
1 ATATACATATAT
3995630 ATATACATATAT
1 ATATACATATAT
3995642 ATATA
1 ATATA
3995647 ACTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:3997647 original size:132 final size:132
Alignment explanation
Indices: 3997540--3998260 Score: 1131
Period size: 132 Copynumber: 5.5 Consensus size: 132
3997530 ATCAATATAG
* * * * * * * *
3997540 GAAGATAAGACCTGCTATCTTCGATCTACTTC-ACGCCAATA-CATGAAGACAAGATCTGCTTTC
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGA-GAAGACAAGATCTGC-ATC
* * * * * * * * * * *
3997603 TGCGGTCTACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCTAAT
64 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAAT
3997668 ACAT
129 ACAT
* *
3997672 GAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTT
*
3997737 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACTCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATAC
3997802 AT
131 AT
3997804 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTT
*
3997869 CGATCCACTTCCTGCCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATAC
3997934 AT
131 AT
*
3997936 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTT
3998001 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATAC
3998066 AT
131 AT
*
3998068 GAAGACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATTCT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCA-TCT
* * *
3998133 GCGGTCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATA
65 TCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATA
3998198 CAT
130 CAT
* *
3998201 GAAGACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGC
3998261 TTTAATGACT
Statistics
Matches: 554, Mismatches: 32, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
132 404 0.73
133 149 0.27
134 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATAC
AT
Found at i:3997926 original size:264 final size:264
Alignment explanation
Indices: 3997455--3998260 Score: 1170
Period size: 264 Copynumber: 3.0 Consensus size: 264
3997445 CAAATACAGG
* * * * * * * * *
3997455 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCTTGG
1 GACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCG
** * * * * * * * * *
3997519 ATCCACTTC-CTATCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTC-ACGCCAATA-
64 ATCTTCTTCACT-CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
* * * * * * *
3997581 CATGAAGACAAGATCTGCTTTCTGCGGTCTACTTCCTACCAATATAGGAAGACAAGACCTACTAT
128 GA-GAAGACAAGATCTGC-ATCTGCGGTCTACTTCCTACCAATATAGGAAGATAGGATCTGCTAC
* * * * *
3997646 CTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCA
191 CTTCGATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
*
3997711 ATATGAGAA
256 ATATGGGAA
3997720 GACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGAT
1 GACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGAT
3997785 CTTCTTCACTCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAG
66 CTTCTTCACTCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAG
* * * *
3997850 AAGACAAGATCTGCATCTTCGATCCACTTCCTGCCAATATAGGAAGATAGGATCTGCTACCTTCG
131 AAGACAAGATCTGCATCTGCGGTCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
3997915 ATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATG
196 ATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATG
3997980 GGAA
261 GGAA
3997984 GACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGAT
1 GACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGAT
* *
3998049 CTTCTTCACGCCAATACATGAAGACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAG
66 CTTCTTCACTCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAG
3998114 AAGACAAGATCTGCATTCTGCGGTCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
131 AAGACAAGATCTGCA-TCTGCGGTCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
*
3998179 GATCTTCTTCACGCCAATACATGAAGACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
195 GATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
3998244 GGGAA
260 GGGAA
3998249 GACAAGATCTGC
1 GACAAGATCTGC
3998261 TTTAATGACT
Statistics
Matches: 492, Mismatches: 44, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
263 21 0.04
264 308 0.63
265 162 0.33
266 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (264 bp):
GACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGAT
CTTCTTCACTCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAG
AAGACAAGATCTGCATCTGCGGTCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
ATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATG
GGAA
Found at i:3998063 original size:44 final size:44
Alignment explanation
Indices: 3997455--3998261 Score: 706
Period size: 44 Copynumber: 18.3 Consensus size: 44
3997445 CAAATACAGG
* * *
3997455 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAA
* * *
3997500 GACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * *
3997543 GATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * *
3997587 GACAAGATCTGCTTTCTGCGGTCTACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * * *
3997631 GACAAGACCTACTATCTTTGATCTACTTCACGCTAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * *
3997675 GACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATAT-GAGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG-GAA
*
3997720 GACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * * *
3997763 GATAGGATCTGCTACCTTCGATCTTCTTCACTCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * *
3997807 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT-GAGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG-GAA
* *
3997852 GACAAGATCTGC-ATCTTCGATCCACTTC-CTGCCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * * *
3997895 GATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * * *
3997939 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAA
*
3997984 GACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * * *
3998027 GATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * * *
3998071 GACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATAT-GAGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG-GAA
* *
3998116 GACAAGATCTGC-ATTCTGCGGTCTACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTA-TCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * * *
3998160 GATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * * * *
3998204 GACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAA
3998249 GACAAGATCTGCT
1 GACAAGATCTGCT
3998262 TTAATGACTT
Statistics
Matches: 600, Mismatches: 133, Indels: 58
0.76 0.17 0.07
Matches are distributed among these distances:
42 4 0.01
43 84 0.14
44 372 0.62
45 140 0.23
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
Found at i:4008173 original size:31 final size:31
Alignment explanation
Indices: 4008138--4008201 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
4008128 ATTTCGGTTA
4008138 CAACTTGTTTCAATATTTTTCTTTCATTCTT
1 CAACTTGTTTCAATATTTTTCTTTCATTCTT
4008169 CAACTTGTTTCAATATTTTTCTTTCATTCTT
1 CAACTTGTTTCAATATTTTTCTTTCATTCTT
4008200 CA
1 CA
4008202 TTTGCTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.56
Consensus pattern (31 bp):
CAACTTGTTTCAATATTTTTCTTTCATTCTT
Found at i:4010821 original size:13 final size:13
Alignment explanation
Indices: 4010803--4010834 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4010793 ATAGTTTAAT
4010803 AATAAAATAAAGA
1 AATAAAATAAAGA
*
4010816 AATAAACTAAAGA
1 AATAAAATAAAGA
4010829 AATAAA
1 AATAAA
4010835 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:4020200 original size:214 final size:213
Alignment explanation
Indices: 4019822--4020361 Score: 814
Period size: 214 Copynumber: 2.5 Consensus size: 213
4019812 TGGAACAACA
** * * *
4019822 GAGGGAACTTAATTTAAGCAAAACGACTTTGAAGGAATTACCATCAC-CAATTGGCAATCTTATT
1 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATC-CTCAATTGACAATCTTATT
* *
4019886 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTAACAGCCTTTATAA
65 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTAACAACCTTTATAA
* * * * *
4019951 ATTGAAATCTCTTGAAAAATTTGACGTTGAAGGTTGCTTAAGATTGGAGGCTTTCCCAGAAATCT
130 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCT
**
4020016 TGGACATCATGGAGTGGTT
195 TGGACATCATGGAGCAGTT
*
4020035 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAAGTGACAATCTTATTT
1 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTA-TT
** * * * *
4020100 GGTCTTGAGAAATTGGTATTGAGTAATTGTGAAAACTTTGTTTGCCTTCCTACCAACTTTTATAA
65 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTAACAACCTTTATAA
4020165 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCT
130 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCT
4020230 TGGACATCATGGAGCAGTT
195 TGGACATCATGGAGCAGTT
* * *
4020249 GAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCTTCAATTGACAATCTTATTG
1 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTATTG
*
4020314 GTCTTGA-AAATTTGGTATTGAACAACTGTGAAAACGTTGTTTGCCTTC
66 GTCTTGAGAAA-TTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTC
4020362 TTGATAGCTT
Statistics
Matches: 295, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
212 4 0.01
213 97 0.33
214 194 0.66
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (213 bp):
GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTATTG
GTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTAACAACCTTTATAAA
TTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCTT
GGACATCATGGAGCAGTT
Found at i:4022226 original size:17 final size:16
Alignment explanation
Indices: 4022191--4022248 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
4022181 TACTTTTGTA
*
4022191 TTTTTCTTTTTTGTGAAT
1 TTTTTCTATTTT-T-AAT
4022209 TTTTTGCTATTTTTAAT
1 TTTTT-CTATTTTTAAT
*
4022226 TTTTTCTTTTTTTAAT
1 TTTTTCTATTTTTAAT
4022242 TTATTTC
1 TT-TTTC
4022249 AAGAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 12 0.33
17 12 0.33
18 6 0.17
19 6 0.17
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTCTATTTTTAAT
Found at i:4023494 original size:22 final size:21
Alignment explanation
Indices: 4023449--4023495 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4023439 TTTTGTTGCT
* **
4023449 ATTTTTCCATGTTTTGCTGTC
1 ATTTTCCCATGTTTTGCTACC
4023470 ATTTTCCCACTGTTTTGCTACC
1 ATTTTCCCA-TGTTTTGCTACC
4023492 ATTT
1 ATTT
4023496 CACAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.13, C:0.23, G:0.11, T:0.53
Consensus pattern (21 bp):
ATTTTCCCATGTTTTGCTACC
Found at i:4028548 original size:26 final size:26
Alignment explanation
Indices: 4028519--4028575 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
4028509 GCACAAGGGA
4028519 AAGAGGACTATGTGTGCAGATTGAAG
1 AAGAGGACTATGTGTGCAGATTGAAG
4028545 AAGAGGACTATGTGTGCAGATTGAAG
1 AAGAGGACTATGTGTGCAGATTGAAG
4028571 AAGAG
1 AAGAG
4028576 CTTGTATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (26 bp):
AAGAGGACTATGTGTGCAGATTGAAG
Found at i:4034257 original size:64 final size:64
Alignment explanation
Indices: 4034186--4034313 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
4034176 TTAAATAAAT
*
4034186 TATTTATATTAAATAAAATTTGAAATATTTATATATATATAGTTAATCATATGATATTTTCTAA
1 TATTTATATTAAATAAAATTAGAAATATTTATATATATATAGTTAATCATATGATATTTTCTAA
4034250 TATTTATATTAAATAAAATTAGAAATATTTATATATATATAGTTAATCATATGATATTTTCTAA
1 TATTTATATTAAATAAAATTAGAAATATTTATATATATATAGTTAATCATATGATATTTTCTAA
4034314 GTGCCACTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (64 bp):
TATTTATATTAAATAAAATTAGAAATATTTATATATATATAGTTAATCATATGATATTTTCTAA
Found at i:4036426 original size:12 final size:11
Alignment explanation
Indices: 4036396--4036464 Score: 63
Period size: 12 Copynumber: 6.3 Consensus size: 11
4036386 TTTACAAATA
*
4036396 AAATATAT-AC
1 AAATATATAAT
4036406 AAATCATATAAT
1 AAAT-ATATAAT
4036418 AAATAATATAA-
1 AAAT-ATATAAT
4036429 AAATATATAAT
1 AAATATATAAT
*
4036440 AAAATCTATAAT
1 -AAATATATAAT
*
4036452 ATATATAT-AT
1 AAATATATAAT
4036462 AAA
1 AAA
4036465 AGAAAGATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
10 14 0.29
11 14 0.29
12 21 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATAAT
Found at i:4036449 original size:22 final size:22
Alignment explanation
Indices: 4036392--4036465 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
4036382 ATAATTTACA
*
4036392 AATAAAATATATACAAATCATAT
1 AATAAAATATATAAAAAT-ATAT
4036415 AAT-AAATAATATAAAAATATAT
1 AATAAAAT-ATATAAAAATATAT
* *
4036437 AATAAAATCTAT-AATATATAT
1 AATAAAATATATAAAAATATAT
4036458 ATATAAAA
1 A-ATAAAA
4036466 GAAAGATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
21 9 0.20
22 20 0.44
23 16 0.36
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATATATAAAAATATAT
Found at i:4044308 original size:213 final size:210
Alignment explanation
Indices: 4043930--4044968 Score: 1170
Period size: 213 Copynumber: 4.9 Consensus size: 210
4043920 TCAAGTATTC
* * ** * * * * *
4043930 ATAAACTGAAATCTCTCGAGTATTTCGATCTTCAAGGTTGTTCCAGATTGGAGATTTTCCCTGAA
1 ATAAATTGAAATCTCTTGAAAATTTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * ** * * **
4043995 ATCATGGACACTATGGAGAGGT-TAAGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTTAC
65 ATCATGGACACCATGGAGAGGTGT-A-TGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
* * * * *
4044059 CATCCTCAATTGATAATCTTGTTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGACCTTGTT
128 CATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
*
4044124 TGCCTTCCTAAAAGCTTTT
192 TGCCTTCCTAACAGCTTTT
* * *
4044143 ATAAATTGGAATCTCTTGAAAATTTCAATCTTGGAAA-TTGCTCAATATTGGAGACTTTCCCAGA
1 ATAAATTGAAATCTCTTGAAAATTTCAATCTT--AAAGTTGCTCAAGATTGGAGATTTTCCCAGA
* * *
4044207 AATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
64 AATCATGGACACCATGGA-GAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
* * *
4044272 CATCTTCAATTACCAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTCAAAACCTTATT
128 CATCCTCAATTA-CAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
*
4044337 TGCCTTCCTAATAGCTTTT
192 TGCCTTCCTAACAGCTTTT
** * * *
4044356 ATAAATTGAAATCTCTTG-AGTTATTCAGTCTTGAAGGTTGCTCGAGATTGGAGATTTTCCCAGA
1 ATAAATTGAAATCTCTTGAAAAT-TTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGA
* * * *
4044420 AATCATGGAAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGGACAGCTTTGAAGGAATTAC
64 AATCATGGACACCATGGAGAGG-TGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
* ** * *
4044485 CATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTT
128 CATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
* *
4044550 TGCCTTCCTGACAGTTTTT
192 TGCCTTCCTAACAGCTTTT
* * * *
4044569 ATAAATTGAAATCTCTTGAGATTTTCAATGTTAAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTTGAAAATTTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGAA
* **
4044634 ATTATGGACACCATGGAGAGGTTGTATGAACTTGATTTAATTGGAACGGCTTTGAAAGAATTACC
65 ATCATGGACACCATGGAGAGG-TGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACC
* * * *
4044699 ATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACTGTGAAAACCTTATTT
129 ATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
** *
4044764 ATCTTCCTAACAGTTTTT
193 GCCTTCCTAACAGCTTTT
* * *
4044782 ATAAATTGCAATCTCTAGAGAAA-TTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTCCCAGA
1 ATAAATTGAAATCTCTTGA-AAATTTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGA
* * *
4044846 AATCATGGACAGCC---------TGTATGAACTTGATTTAAGCAGAACAG-TTTTAAAGGAATTA
64 AATCATGGACA-CCATGGAGAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAA-GAATTA
*
4044901 CCATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
127 CCATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
4044966 TTG
191 TTG
4044969 TAGTAATTCA
Statistics
Matches: 711, Mismatches: 102, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
203 6 0.01
204 91 0.13
212 11 0.02
213 590 0.83
214 12 0.02
215 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (210 bp):
ATAAATTGAAATCTCTTGAAAATTTCAATCTTAAAGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGACACCATGGAGAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACCAT
CCTCAATTACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGCC
TTCCTAACAGCTTTT
Found at i:4044729 original size:426 final size:423
Alignment explanation
Indices: 4043930--4044968 Score: 1323
Period size: 426 Copynumber: 2.5 Consensus size: 423
4043920 TCAAGTATTC
* * * * * *
4043930 ATAAACTGAAATCTCTCGAGTATTTC-GATCTTCAAGGTTGTTCCAGATTGGAGATTTTCCCTGA
1 ATAAATTGAAATCTCTAGAGTA-TTCAG-TCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGA
* * ** * * **
4043994 AATCATGGACACTATGGAGAGG-T-TAAGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTT
64 AATCATGGA-ACCATGGAGAGGCTGT-A-TGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATT
* * * *
4044057 ACCATCCTCAATTGATAATCTTGTTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGACCTTG
126 ACCATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTG
*
4044122 TTTGCCTTCCTAAAAGCTTTTATAAATTGGAATCTCTTGAAAATTTCAATCTTGGAAATTGCTCA
191 TTTGCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTT-GAAATTGCTCA
*
4044187 ATATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGG
255 AGATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGG
* * *
4044252 AACGGCTTTGAAAGAATTACCATCTTCAATTACCAATCTTATTGGTCTTAAGGATTTGAGATTGA
320 AACGGCTTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGA
* *
4044317 ACAACTGTCAAAACCTTATTTGCCTTCCTAATAGCTTTT
385 ACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * *
4044356 ATAAATTGAAATCTCTTGAGTTATTCAGTCTTGAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTAGAG-TATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
*
4044421 ATCATGGAAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGGACAGCTTTGAAGGAATTACC
65 ATCATGG-AACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACC
** ** * *
4044486 ATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTTT
129 ATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
* * * * * * *
4044551 GCCTTCCTGACAGTTTTTATAAATTGAAATCTCTTGAGATTTTCAATGTT-AAAGGTTGCTCGAG
194 GCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTTGAAA--TTGCTCAAG
* * * **
4044615 ATTGGAGATTTTCCCAGAAAT-TATGGACACCATGGA-GAGGTTGTATGAACTTGATTTAATTGG
257 ATTGGAGACTTTCCCAGAAATCT-TGGACACCATGGAGGA-GATGTATAAACTTGATTTAAGCGG
**
4044678 AACGGCTTTGAAAGAATTACCATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGA
320 AACGGCTTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGA
* * *
4044743 ACAACTGTGAAAACCTTATTTATCTTCCTAACAGTTTTT
385 ACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * * *
4044782 ATAAATTGCAATCTCTAGAGAAATTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTCCCAGAA
1 ATAAATTGAAATCTCTAGAG-TATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * * *
4044847 ATCATGG-A-C------AGCCTGTATGAACTTGATTTAAGCAGAACAGTTTTAAAGGAATTACCA
65 ATCATGGAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACCA
4044904 TCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
130 TCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
4044969 TAGTAATTCA
Statistics
Matches: 536, Mismatches: 68, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
417 102 0.19
423 1 0.00
424 4 0.01
425 3 0.01
426 419 0.78
427 6 0.01
428 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (423 bp):
ATAAATTGAAATCTCTAGAGTATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACCAT
CCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGC
CTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTTGAAATTGCTCAAGATTG
GAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGGAACGGC
TTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACT
GTCAAAACCTTATTTACCTTCCTAACAGCTTTT
Found at i:4046675 original size:17 final size:18
Alignment explanation
Indices: 4046647--4046681 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4046637 ACTTATAAAT
*
4046647 ATTTTTTATAAAGTTTTA
1 ATTTTTTATAAAATTTTA
4046665 ATTTTTT-TAAAATTTTA
1 ATTTTTTATAAAATTTTA
4046682 TAAATATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTTTTATAAAATTTTA
Found at i:4046882 original size:18 final size:17
Alignment explanation
Indices: 4046856--4046889 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4046846 CAAGGTTTTT
*
4046856 TTTATAAATTATATAAAG
1 TTTAAAAATTAT-TAAAG
4046874 TTTAAAAATTATTAAA
1 TTTAAAAATTATTAAA
4046890 AATTAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAAAATTATTAAAG
Found at i:4047830 original size:6 final size:6
Alignment explanation
Indices: 4047819--4047844 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4047809 CTTCTCTCTT
4047819 TTCCCC TTCCCC TTCCCC TTCCCC TT
1 TTCCCC TTCCCC TTCCCC TTCCCC TT
4047845 GGGTTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:4047969 original size:25 final size:25
Alignment explanation
Indices: 4047941--4047991 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4047931 CAGGTAAGGC
* *
4047941 TCCTTCTCCTTCTTTCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTATTCAT
4047966 TCCTTCTCCTTCTTCCGTTATTCAT
1 TCCTTCTCCTTCTTCCGTTATTCAT
4047991 T
1 T
4047992 TTCTCTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.06, C:0.35, G:0.04, T:0.55
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTATTCAT
Found at i:4053020 original size:68 final size:68
Alignment explanation
Indices: 4052941--4053080 Score: 280
Period size: 68 Copynumber: 2.1 Consensus size: 68
4052931 ATTTATATAA
4052941 AAAATAAAATTAAAAAATTAATACAGACTAGGTCCGAGTTTTAGCATGTTTATTCGAGCCGACTT
1 AAAATAAAATTAAAAAATTAATACAGACTAGGTCCGAGTTTTAGCATGTTTATTCGAGCCGACTT
4053006 GGG
66 GGG
4053009 AAAATAAAATTAAAAAATTAATACAGACTAGGTCCGAGTTTTAGCATGTTTATTCGAGCCGACTT
1 AAAATAAAATTAAAAAATTAATACAGACTAGGTCCGAGTTTTAGCATGTTTATTCGAGCCGACTT
4053074 GGG
66 GGG
4053077 AAAA
1 AAAA
4053081 ATCTAGACCC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (68 bp):
AAAATAAAATTAAAAAATTAATACAGACTAGGTCCGAGTTTTAGCATGTTTATTCGAGCCGACTT
GGG
Found at i:4053411 original size:14 final size:14
Alignment explanation
Indices: 4053392--4053418 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4053382 TTTTAAATTC
4053392 AAATCCTAATTCTA
1 AAATCCTAATTCTA
4053406 AAATCCTAATTCT
1 AAATCCTAATTCT
4053419 CAAGCGCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCCTAATTCTA
Found at i:4073007 original size:26 final size:26
Alignment explanation
Indices: 4072971--4073080 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4072961 TGATACAAAT
4072971 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
4072997 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4073023 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4073049 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
4073075 TGATAA
1 TGATAA
4073081 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:4093691 original size:15 final size:15
Alignment explanation
Indices: 4093655--4093701 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4093645 CGATATCCTT
4093655 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
4093669 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
4093685 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
4093698 TTTG
1 TTTG
4093702 TATTCAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 11 0.38
16 6 0.21
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:4094437 original size:59 final size:59
Alignment explanation
Indices: 4094345--4094467 Score: 219
Period size: 59 Copynumber: 2.1 Consensus size: 59
4094335 GGTGCTTTCT
* * *
4094345 CATAAATTTAAGATTCCAGAGTTTGAAAAGTACAACGGGACTCCTTGCCCAGAGGCATA
1 CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
4094404 CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
1 CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
4094463 CATAA
1 CATAA
4094468 CAATGTTTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (59 bp):
CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
Found at i:4102193 original size:205 final size:205
Alignment explanation
Indices: 4101857--4102544 Score: 1034
Period size: 206 Copynumber: 3.3 Consensus size: 205
4101847 AGATCTGGCA
4101857 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATCCTTGTGCTTACAAGGAACAAA
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTGTGCTTACAAGGAACAAA
* * *
4101922 TCAAAGACATAGCTAATTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCAT
65 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCAT
* * *
4101987 CTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGGGAGCAGATACATAG
130 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAA
*
4102052 CAAATCTCACC
195 CAGATCTCACC
* * * * *
4102063 TTTAGATGTTTATACTGAAGTAGATCCAAGATGATTTAGCATCCTTGTGCCTACAAGGAGCAAAT
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
* * *
4102128 TGAAGACATGGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCATC
66 CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATC
*
4102193 TCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGATACATAAC
131 TCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAAC
*
4102258 AGATCTGACC
196 AGATCTCACC
* * * *
4102268 TTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAA
1 TTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAA
* *
4102333 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCAT
65 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCAT
* * * * ** *
4102398 CTCTGTATTATCAGAGAACGAATCGAAGTCTGGCTTCTTCACTTTGATGGAGAGCAGATACATAC
130 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAA
4102463 CAGATCTCACC
195 CAGATCTCACC
* * * * *
4102474 TTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
*
4102539 TGAAGA
66 CGAAGA
4102545 AGCAAATTTG
Statistics
Matches: 433, Mismatches: 48, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
205 213 0.49
206 220 0.51
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATC
TCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAAC
AGATCTCACC
Found at i:4104227 original size:3 final size:3
Alignment explanation
Indices: 4104184--4104435 Score: 93
Period size: 3 Copynumber: 82.0 Consensus size: 3
4104174 TTTTTTAACC
* *
4104184 TTA TTT TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* ** *
4104228 TATA TTA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTG TTA TTA
1 T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA
*
4104275 TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTA -TA TGT- TTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA
*
4104318 TTAA TTA -TA TATA TTA TT- TTT TTA TATA TATA CTT- TTA -TA TTA
1 TT-A TTA TTA T-TA TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA
* *
4104361 TATA TTA TAA TTA TT- TTA -TA TTA TTA TGTCA TTT TTA -TA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA
* * *
4104406 TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
4104436 AAGGTTTTAA
Statistics
Matches: 189, Mismatches: 26, Indels: 68
0.67 0.09 0.24
Matches are distributed among these distances:
2 27 0.14
3 112 0.59
4 47 0.25
5 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4104230 original size:19 final size:19
Alignment explanation
Indices: 4104184--4104428 Score: 82
Period size: 17 Copynumber: 13.3 Consensus size: 19
4104174 TTTTTTAACC
*
4104184 TTATTT-TTATATTATATA
1 TTATTTATTTTATTATATA
4104202 TTATAATTATTTTATTATATA
1 TTAT--TTATTTTATTATATA
4104223 TTATTTA---TATTAT-TA
1 TTATTTATTTTATTATATA
*
4104238 TTATTTATTATATATTAT-TT
1 TTATTTATT-T-TATTATATA
***
4104258 TTCACAAATTGTTATTAT-T-
1 TT-ATTTATT-TTATTATATA
* *
4104277 TTACATTATTAT-TTATATA
1 TTA-TTTATTTTATTATATA
* *
4104296 TTA-TTATTATATTATATG
1 TTATTTATTTTATTATATA
*
4104314 TT-TATTA-ATTA-TATATA
1 TTAT-TTATTTTATTATATA
4104331 TTATTT-TTTTA-TATATA
1 TTATTTATTTTATTATATA
* *
4104348 -TACTT-TTATATTATATA
1 TTATTTATTTTATTATATA
4104365 TTATAATTATTTTA-TAT-TA
1 TTAT--TTATTTTATTATATA
*
4104384 TTATGTCA-TTT-TTATATTA
1 TTAT-TTATTTTATTATA-TA
**
4104403 TTATACATTTTTATCTATATA
1 TTATTTA-TTTTAT-TATATA
4104424 TTATT
1 TTATT
4104429 ATCATTAAAG
Statistics
Matches: 175, Mismatches: 23, Indels: 55
0.69 0.09 0.22
Matches are distributed among these distances:
15 9 0.05
16 14 0.08
17 41 0.23
18 24 0.14
19 26 0.15
20 26 0.15
21 31 0.18
22 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TTATTTATTTTATTATATA
Done.