Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 241 of 444
Found at i:68282062 original size:260 final size:260
Alignment explanation
Indices: 68281443--68282073 Score: 767
Period size: 260 Copynumber: 2.4 Consensus size: 260
68281433 ATCTATAATT
* * * * * * *
68281443 TTCAGCCTGTTACCCTACTACTTAGGGG-TCAAGGCTCATCGTCTTTGATCTG-CTCCACTACTG
1 TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCGTCTTCGATCTGTTTCC-CTACTG
* * * *
68281506 CTTAGGGAGATAAGATCTGTAAATTCAGCCCGTTACCCTACTACTTAGGGGTTTGAAGCCCTTCA
65 CTTAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGTTTGAAGCCCTTCA
* *
68281571 CCTTCGATCTGTTTCCTTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTA
129 CCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTA
* * * *
68281636 CTTAGGGGTTTAAGGCCCATCGTCTTTGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGA
194 CTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTCTCCCTACTGCTTAAGGGGATAAGATCTGGA
68281701 AA
259 AA
* *
68281703 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCGTCTTCGATCTGTTTCCTTACTGC
1 TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCGTCTTCGATCTGTTTCCCTACTGC
** ** *
68281768 TTAGGGGGTTAAGATC--TACAATTTGGTTTGTTACCCTACTGCTTA-AGGTTTTAAGACCCTTC
66 TTA-GGGGTTAAGATCTGTA-AATTCAGCCTGTTACCCTACTGCTTAGAGGTTTGAAG-CCCTTC
** * **
68281830 GTCTTCGATCTGTTTCCCTACTACTTATGGGGTTAAGATCTGGAAATTCAGCCTGTTGTCCTACT
128 ACCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACT
* * *
68281895 GCTTAGGGGTTTAAGGCTCTTCGCCTTCGATCTG-CTCCACTACTGCTT-AGGGAGATAAGATCT
193 ACTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTCTCC-CTACTGCTTAAGGG-GATAAGATCT
*
68281958 -GCAA
256 GGAAA
** * * * *
68281962 TTTGGTATGTTACCCTACTGCTTA-GGGTTTTAAGACCCTTCGTCTTCGATTTGTTTCCCTACTG
1 TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAAG-CCCATCGTCTTCGATCTGTTTCCCTACTG
68282026 CTTAGAGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
65 CTTAG-GGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
68282074 GGAGATAAGG
Statistics
Matches: 316, Mismatches: 43, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
258 10 0.03
259 81 0.26
260 180 0.57
261 39 0.12
262 6 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (260 bp):
TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCGTCTTCGATCTGTTTCCCTACTGC
TTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGTTTGAAGCCCTTCACC
TTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTACT
TAGGGGTTTAAGGCCCATCGCCTTCGATCTGTCTCCCTACTGCTTAAGGGGATAAGATCTGGAAA
Found at i:68282085 original size:173 final size:172
Alignment explanation
Indices: 68281450--68282075 Score: 801
Period size: 173 Copynumber: 3.6 Consensus size: 172
68281440 ATTTTCAGCC
* * * * * * * *
68281450 TGTTACCCTACTACTTAGGG-GTCAAGGCTCATCGTCTTTGATCTG-CTCCACTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGG
* * * * *
68281513 AGATAAGATCTGTAAATTCAGCCCGTTACCCTACTACTTAGGGGTTTGAA-GCCCTTCACCTTCG
65 -GTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT-AAGGCCCTTCGCCTTCG
* ** **
68281577 ATCTGTTTCCTTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCC
128 ATCTGTTTCCTTACTGCTTAGGGGGTTAAGATCT-GCAATTTGGTA
* * * * *
68281623 TGTTACCCTACTACTTAGGGGTTTAAGGCCCATCGTCTTTGATCTGTTTCCCTACTGCTTAAGGG
1 TGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTT-AGGG
* * *
68281688 GTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCGTCTTCGAT
65 GTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGCCTTCGAT
* *
68281753 CTGTTTCCTTACTGCTTAGGGGGTTAAGATCTACAATTTGGTT
130 CTGTTTCCTTACTGCTTAGGGGGTTAAGATCTGCAATTTGGTA
* *
68281796 TGTTACCCTACTGCTTAAGGTTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTACTTATGGG
1 TGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA-GGG
** *
68281861 GTTAAGATCTGGAAATTCAGCCTGTTGTCCTACTGCTTAGGGGTTTAAGGCTCTTCGCCTTCGAT
65 GTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGCCTTCGAT
* * * *
68281926 CTG-CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTA
130 CTGTTTCC-TTACTGCTTAGGGGGTTAAGATCTGCAATTTGGTA
*
68281969 TGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATTTGTTTCCCTACTGCTTAGAGG
1 TGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAG-GG
*
68282034 GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
65 GTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGG
68282076 AGATAAGGCT
Statistics
Matches: 404, Mismatches: 42, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
172 5 0.01
173 274 0.68
174 118 0.29
175 7 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (172 bp):
TGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
TTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGCCTTCGATC
TGTTTCCTTACTGCTTAGGGGGTTAAGATCTGCAATTTGGTA
Found at i:68294544 original size:9 final size:9
Alignment explanation
Indices: 68294530--68294573 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
68294520 GTATGTACAC
68294530 AATATATAT
1 AATATATAT
68294539 AATATAT-T
1 AATATATAT
68294547 AAT-TATAT
1 AATATATAT
68294555 -ATATATAT
1 AATATATAT
*
68294563 AATATTTAT
1 AATATATAT
68294572 AA
1 AA
68294574 AAATATATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 5 0.16
8 10 0.32
9 16 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATATATAT
Found at i:68294571 original size:19 final size:19
Alignment explanation
Indices: 68294531--68294582 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
68294521 TATGTACACA
*
68294531 ATATATATAATATATTAATT
1 ATATATAT-ATATAATAATT
*
68294551 ATATATATATATAATATTT
1 ATATATATATATAATAATT
* *
68294570 ATAAAAATATATA
1 ATATATATATATA
68294583 CATGGTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATATATATAATAATT
Found at i:68297202 original size:3 final size:3
Alignment explanation
Indices: 68297194--68297269 Score: 68
Period size: 3 Copynumber: 25.7 Consensus size: 3
68297184 AAAGGGAAAT
* * *
68297194 ATA ATA ATA ATA ATA ATA ATA ATA AT- ACA ATA GTA ATA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
68297241 AGGT- ATC GTA AT- ATA ATA ATA ATA ATA AT
1 A--TA ATA ATA ATA ATA ATA ATA ATA ATA AT
68297270 GATAGCAGTG
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
2 4 0.07
3 54 0.92
4 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:68297444 original size:3 final size:3
Alignment explanation
Indices: 68297428--68297459 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
68297418 TAATTAATGG
68297428 TAA TAA -AA -AA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
68297460 GTAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:68297482 original size:2 final size:2
Alignment explanation
Indices: 68297475--68297499 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68297465 TAAATACAAA
68297475 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
68297500 ACGTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68299661 original size:9 final size:9
Alignment explanation
Indices: 68299647--68299686 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
68299637 CCAATACAAA
*
68299647 CACCTCTGC
1 CACCTCTAC
68299656 CACCTCTAC
1 CACCTCTAC
*
68299665 CACCTCCAC
1 CACCTCTAC
*
68299674 CACCACTAC
1 CACCTCTAC
68299683 CACC
1 CACC
68299687 CTCCCTTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.23, C:0.60, G:0.03, T:0.15
Consensus pattern (9 bp):
CACCTCTAC
Found at i:68302822 original size:3 final size:3
Alignment explanation
Indices: 68302808--68302851 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
68302798 TTAGATTACA
*
68302808 ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
68302852 AAAATAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:68304280 original size:40 final size:40
Alignment explanation
Indices: 68304225--68304308 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
68304215 CCAGCTGCAT
* *
68304225 CATCAATGCCATAGGTTCTATTTAAGGCAACGTTTTATGC
1 CATCAATGCCATAGGTTCCATTTAAGGCAACGTTTTATAC
68304265 CATCAATGCCATAGGTTCCATTTAAGGCAACGTTTTATAC
1 CATCAATGCCATAGGTTCCATTTAAGGCAACGTTTTATAC
68304305 CATC
1 CATC
68304309 TCATGCTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (40 bp):
CATCAATGCCATAGGTTCCATTTAAGGCAACGTTTTATAC
Found at i:68305811 original size:46 final size:46
Alignment explanation
Indices: 68305755--68305927 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
68305745 TGGTTGAGCA
* *
68305755 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
68305801 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
68305848 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
68305894 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
68305928 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:68305911 original size:93 final size:93
Alignment explanation
Indices: 68305752--68305922 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
68305742 GGATGGTTGA
* * * *
68305752 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
68305817 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
68305845 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
68305910 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
68305923 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68310680 original size:46 final size:44
Alignment explanation
Indices: 68310575--68310783 Score: 161
Period size: 46 Copynumber: 4.5 Consensus size: 44
68310565 GTGCTGATGC
* * * * * *
68310575 CATGTCCTAGACATAGTCTTACACTGAC-ACATTTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCTCG-AGCCGAAG
* *
68310620 CATGTCCCACACATGTCTTACACTGGCTTACGTCTCGAGGCTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCGA-GCCGAAG
* * * *
68310666 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCGA-GCCGAAG
* * * *
68310712 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GCAGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCGT-CTCG-AGCCGAAG
68310760 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
68310784 AGCTCACACA
Statistics
Matches: 132, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 12 0.09
45 13 0.10
46 57 0.43
47 27 0.20
48 21 0.16
49 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCGTCTCGAGCCGAAG
Found at i:68310741 original size:94 final size:92
Alignment explanation
Indices: 68310613--68310786 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 92
68310603 ACATTTCGTA
* * * *
68310613 GCCGATGCATGTCCCACACATGTCTTACACTGGCT-TACGT-CT-CGAGGCTGAAGCATGTCCCA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAATGC-A-GCCGAAGCATGTCCCA
68310675 GACATGTCTTACACTAGCACTCGTCTCAAT
63 GACATGTCTTACACTAGCACTCGTCTCAAT
*
68310705 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGCAGCCGACGCATGTCCCAG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGCAGCCGAAGCATGTCCCAG
68310770 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
68310787 TCACACAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 48 0.67
95 3 0.04
96 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGCAGCCGAAGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:68314431 original size:15 final size:16
Alignment explanation
Indices: 68314397--68314432 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
68314387 GCACAAGAAT
68314397 AAAATAAAAAAAGATA
1 AAAATAAAAAAAGATA
*
68314413 AAAATAAAACAA-ATA
1 AAAATAAAAAAAGATA
68314428 AAAAT
1 AAAAT
68314433 GAAATAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAAGATA
Found at i:68319285 original size:18 final size:19
Alignment explanation
Indices: 68319257--68319293 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
68319247 TCGTGCGTTC
*
68319257 TTCTTTCTCTTTTCTTTCT
1 TTCTTTCTCTTTTATTTCT
68319276 TTCTTT-TCTTTTATTTCT
1 TTCTTTCTCTTTTATTTCT
68319294 AAATTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCTTTCTCTTTTATTTCT
Found at i:68319369 original size:20 final size:18
Alignment explanation
Indices: 68319327--68319361 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
68319317 CCTTTTGTAT
68319327 TTATTATTATAACTATAA
1 TTATTATTATAACTATAA
68319345 TTATT-TTATAACCTATA
1 TTATTATTATAA-CTATA
68319362 TATATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATTATTATAACTATAA
Found at i:68320842 original size:35 final size:35
Alignment explanation
Indices: 68320799--68320879 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
68320789 CAAACCACCC
* * **
68320799 AAACACACCAATGCTCATAAGAGCTAATCCCTCCA
1 AAACACACCAATGCTCATAAAAACTAATCCAACCA
*
68320834 AAACACACCAATGCTCATAAAAACTAATCCAACTA
1 AAACACACCAATGCTCATAAAAACTAATCCAACCA
68320869 AAACACACCAA
1 AAACACACCAA
68320880 AACATAGAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.48, C:0.32, G:0.05, T:0.15
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAAAACTAATCCAACCA
Found at i:68322850 original size:43 final size:44
Alignment explanation
Indices: 68322768--68322855 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
68322758 TTTTATCCTA
* ***
68322768 GAAAAAAGAGTTTAGAAAAAAGGAGAAGATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAGAAAAAAGGAGAAGATAAAAATGGGTTGTT
*
68322812 GAAAAAAGAATTTA-AAAAGAGGAGAAGATAAAAATGGGTTGTT
1 GAAAAAAGAATTTAGAAAAAAGGAGAAGATAAAAATGGGTTGTT
68322855 G
1 G
68322856 GATTTACCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 26 0.67
44 13 0.33
ACGTcount: A:0.49, C:0.01, G:0.27, T:0.23
Consensus pattern (44 bp):
GAAAAAAGAATTTAGAAAAAAGGAGAAGATAAAAATGGGTTGTT
Found at i:68324054 original size:15 final size:15
Alignment explanation
Indices: 68324036--68324067 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
68324026 TTTACTTCTA
*
68324036 TTAGTTTTATTTAAT
1 TTAGTTATATTTAAT
68324051 TTAGTTATATTTAAT
1 TTAGTTATATTTAAT
68324066 TT
1 TT
68324068 CTACAGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TTAGTTATATTTAAT
Found at i:68326330 original size:19 final size:19
Alignment explanation
Indices: 68326270--68326331 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
68326260 CATGAAGCAC
*
68326270 ATCCTAGCACACGAAGTGT
1 ATCCTGGCACACGAAGTGT
* * *
68326289 ATACTGACACACGAAGTGG
1 ATCCTGGCACACGAAGTGT
* *
68326308 ATCCTGGCACATGAGGTGT
1 ATCCTGGCACACGAAGTGT
68326327 ATCCT
1 ATCCT
68326332 AACGCATAAG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (19 bp):
ATCCTGGCACACGAAGTGT
Found at i:68328848 original size:16 final size:15
Alignment explanation
Indices: 68328827--68328857 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
68328817 GTTAAAGATT
68328827 TTATTAATAGTATATA
1 TTATTAATA-TATATA
68328843 TTATTAATATATATA
1 TTATTAATATATATA
68328858 ACTAGAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTATTAATATATATA
Found at i:68331325 original size:48 final size:48
Alignment explanation
Indices: 68331258--68331634 Score: 621
Period size: 48 Copynumber: 7.9 Consensus size: 48
68331248 TATATATGTG
* *
68331258 TGTGGTGAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
68331306 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATACGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
68331354 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAGGCATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
68331402 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
68331450 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
68331498 TGTGGTAAAGCCGAATGG-TGAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGAGATATGTATA
*
68331546 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAAA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
68331594 TGTGGAAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
68331635 GTGTGTATAT
Statistics
Matches: 314, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 313 1.00
49 1 0.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.28
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:68331824 original size:37 final size:37
Alignment explanation
Indices: 68331773--68331844 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
68331763 TTGGAAATAT
* *
68331773 ATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGAG
1 ATTTTGTCCAGGTAAGACCCGATAACTACGTGTGGAG
68331810 ATTTTGTCCAGGTAAGACCCGATAACTACGTGTGG
1 ATTTTGTCCAGGTAAGACCCGATAACTACGTGTGG
68331845 GGACTATTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
ATTTTGTCCAGGTAAGACCCGATAACTACGTGTGGAG
Found at i:68333863 original size:3 final size:3
Alignment explanation
Indices: 68333857--68333939 Score: 57
Period size: 3 Copynumber: 28.7 Consensus size: 3
68333847 ACAATAAAAA
* *
68333857 AAG AAG AGAG AAG AAG ACG -AG ATG AAG AAG AA- AAG AAG AAG AAG
1 AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
** * * * *
68333901 GGG ATG AGG AAG -AG GAG GAG AAG AAG AAG AA- AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
68333940 TTGGAGATGC
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
2 7 0.11
3 54 0.84
4 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.39, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:68333883 original size:11 final size:10
Alignment explanation
Indices: 68333857--68333939 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 10
68333847 ACAATAAAAA
68333857 AAGAAGAGAG
1 AAGAAGAGAG
68333867 AAGAAGACGAG
1 AAGAAGA-GAG
*
68333878 ATGAAGA-AG
1 AAGAAGAGAG
68333887 AA-AAGA-AG
1 AAGAAGAGAG
*
68333895 AAGAAGGGGATG
1 AAGAA-GAGA-G
*
68333907 AGGAAGAGGAG
1 AAGAAGA-GAG
*
68333918 GAGAAGA-AG
1 AAGAAGAGAG
68333927 AAGAA-A-AG
1 AAGAAGAGAG
68333935 AAGAA
1 AAGAA
68333940 TTGGAGATGC
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
8 16 0.27
9 11 0.19
10 8 0.14
11 17 0.29
12 7 0.12
ACGTcount: A:0.58, C:0.01, G:0.39, T:0.02
Consensus pattern (10 bp):
AAGAAGAGAG
Found at i:68333897 original size:14 final size:14
Alignment explanation
Indices: 68333855--68333939 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
68333845 AAACAATAAA
68333855 AAAAGAAGAGAGAAG
1 AAAAGAAGA-AGAAG
*
68333870 AAGACGAGATGAAGAAG
1 AA-A--AGAAGAAGAAG
68333887 AAAAGAAGAAGAAGG
1 AAAAGAAGAAGAA-G
** * * *
68333902 GGATGAGGAAGAGG
1 AAAAGAAGAAGAAG
**
68333916 AGGAGAAGAAGAAG
1 AAAAGAAGAAGAAG
68333930 AAAAGAAGAA
1 AAAAGAAGAA
68333940 TTGGAGATGC
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
14 27 0.52
15 11 0.21
16 2 0.04
17 7 0.13
18 5 0.10
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.02
Consensus pattern (14 bp):
AAAAGAAGAAGAAG
Found at i:68336949 original size:29 final size:29
Alignment explanation
Indices: 68336917--68337019 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
68336907 GTGACGAGAT
* *
68336917 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
68336946 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
68336975 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
68337004 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
68337020 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:68339418 original size:10 final size:10
Alignment explanation
Indices: 68339403--68339427 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68339393 TTTTTCATTC
68339403 TTTAATTTTG
1 TTTAATTTTG
68339413 TTTAATTTTG
1 TTTAATTTTG
68339423 TTTAA
1 TTTAA
68339428 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:68345576 original size:27 final size:27
Alignment explanation
Indices: 68345546--68345607 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
68345536 GGGCAAAATG
68345546 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
68345573 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
68345600 GTAATTTT
1 GTAATTTT
68345608 TCAAACCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:68345622 original size:54 final size:54
Alignment explanation
Indices: 68345563--68345713 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
68345553 TACCCCACAA
** * * *
68345563 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* ** *
68345617 TGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
68345671 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
68345714 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 81 0.98
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:68345679 original size:81 final size:81
Alignment explanation
Indices: 68345561--68345713 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
68345551 TTTACCCCAC
** **
68345561 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATTGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
68345625 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
68345642 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
68345706 TGGTAATT
65 TGGTAATT
68345714 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:68345720 original size:27 final size:27
Alignment explanation
Indices: 68345590--68345713 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
68345580 TACCCTACAG
* *
68345590 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
* *
68345617 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
68345644 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
68345671 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
68345698 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
68345714 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:68345727 original size:27 final size:27
Alignment explanation
Indices: 68345697--68345767 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
68345687 TTATAAACCA
* *
68345697 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
68345724 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
68345751 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
68345768 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:68345729 original size:54 final size:54
Alignment explanation
Indices: 68345590--68345713 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
68345580 TACCCTACAG
* **
68345590 GGGTATTTTAGTAATTTTTCAAACCATTGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
68345644 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
68345698 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
68345714 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:68350211 original size:37 final size:39
Alignment explanation
Indices: 68350150--68350325 Score: 281
Period size: 38 Copynumber: 4.6 Consensus size: 39
68350140 AACACAAATG
*
68350150 CCTTCGGGACTTAGCCCGGATATAACACTAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
68350189 CCTTC-GGACTTAG-CCGGATATAACACCAGCACG-ATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
68350225 CCTTC-GGACTTAGCCTGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
68350263 CCTTCGGGACTTAGCCCGGATATAACA-CAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
68350301 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
68350326 ATCTCACACA
Statistics
Matches: 130, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
36 16 0.12
37 38 0.29
38 51 0.39
39 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:68350352 original size:38 final size:38
Alignment explanation
Indices: 68350149--68350355 Score: 239
Period size: 38 Copynumber: 5.5 Consensus size: 38
68350139 CAACACAAAT
*
68350149 GCCTTCGGGACTTAGCCCGGATATAACACTAGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAACAC-AGCACGAAG
*
68350188 ACCTTC-GGACTTAG-CCGGATATAACACCAGCACGATA-
1 GCCTTCGGGACTTAGCCCGGATATAACA-CAGCACGA-AG
* *
68350225 -CCTTC-GGACTTAGCCTGGATATAACACCAGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAACA-CAGCACGAAG
*
68350262 GCCTTCGGGACTTAGCCCGGATATAACACAGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAACACAGCACGAAG
*
68350300 GCCTTCGGGACTTAGCCCGGATATAAATCTCA-CAC-AAG
1 GCCTTCGGGACTTAGCCCGGATAT-AA-CACAGCACGAAG
* *
68350338 GCCTGCGGGTCTTAGCCC
1 GCCTTCGGGACTTAGCCC
68350356 TGTTATATCC
Statistics
Matches: 153, Mismatches: 7, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
36 14 0.09
37 39 0.25
38 67 0.44
39 30 0.20
40 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (38 bp):
GCCTTCGGGACTTAGCCCGGATATAACACAGCACGAAG
Found at i:68359829 original size:14 final size:14
Alignment explanation
Indices: 68359799--68359847 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
68359789 AGAGAGGGGG
*
68359799 AAGAGAAGA-AAGA
1 AAGAAAAGAGAAGA
* *
68359812 AAGAAAATAGAGGA
1 AAGAAAAGAGAAGA
68359826 AAGAAAAGAGAAGA
1 AAGAAAAGAGAAGA
*
68359840 AATAAAAG
1 AAGAAAAG
68359848 GTATTATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (14 bp):
AAGAAAAGAGAAGA
Found at i:68363014 original size:14 final size:14
Alignment explanation
Indices: 68362995--68363029 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
68362985 TAATGTATTT
68362995 AATTTATATAACAA
1 AATTTATATAACAA
*
68363009 AATTTATATTACAA
1 AATTTATATAACAA
*
68363023 AGTTTAT
1 AATTTAT
68363030 TCCAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:68363023 original size:62 final size:62
Alignment explanation
Indices: 68362947--68363139 Score: 323
Period size: 62 Copynumber: 3.1 Consensus size: 62
68362937 CAATGTACTT
*
68362947 AATTTATATTACAAAGTTTATTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
68363009 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
** * * *
68363071 AATTTATATTATGAAGTTTATTCCAATTTTTAAGGTTGTAATATATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
68363133 AGTTTAT
1 AATTTAT
68363140 TCCAATTTTT
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 124 1.00
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:68363061 original size:48 final size:48
Alignment explanation
Indices: 68363009--68363187 Score: 144
Period size: 48 Copynumber: 3.4 Consensus size: 48
68362999 TATATAACAA
*
68363009 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTT
1 AATTTATATAACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTT
* ** *
68363057 AATTTATATAACAAAATTTATATTATGAAGTTTATTCCAAT-TTTTAAGGTTGTAATATATTT
1 AATTTATATAAC-AAAGTT-TATT-CCAA-TTT-TT--AATGTTGTAA---TG---TA--TTT
* *
68363119 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTT
1 AATTTATATAACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTT
*
68363167 AATTTATATAACAAAATTTAT
1 AATTTATATAACAAAGTTTAT
68363188 ATTACAAAGT
Statistics
Matches: 102, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
48 33 0.32
49 5 0.05
50 6 0.06
51 2 0.02
52 3 0.03
53 4 0.04
54 5 0.05
55 6 0.06
56 4 0.04
57 4 0.04
58 3 0.03
59 2 0.02
60 6 0.06
61 5 0.05
62 14 0.14
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.49
Consensus pattern (48 bp):
AATTTATATAACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTT
Found at i:68363131 original size:110 final size:110
Alignment explanation
Indices: 68363009--68363243 Score: 418
Period size: 110 Copynumber: 2.1 Consensus size: 110
68362999 TATATAACAA
*
68363009 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAAT
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATAACAAAAT
**
68363074 TTATATTATGAAGTTTATTCCAATTTTTAAG-GTTGTAATATATTT
66 TTATATTACAAAGTTTATTCCAATTTTT-AGTGTTGTAATATATTT
68363119 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATAACAAAAT
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATAACAAAAT
*
68363184 TTATATTACAAAGTTTATTCCAATTTTTAGTGTTGTAATGTATTT
66 TTATATTACAAAGTTTATTCCAATTTTTAGTGTTGTAATATATTT
68363229 AATTTATATTACAAA
1 AATTTATATTACAAA
68363244 CAAAATTTAT
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
109 2 0.02
110 118 0.98
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (110 bp):
AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATAACAAAAT
TTATATTACAAAGTTTATTCCAATTTTTAGTGTTGTAATATATTT
Found at i:68363185 original size:62 final size:64
Alignment explanation
Indices: 68363119--68363261 Score: 236
Period size: 62 Copynumber: 2.2 Consensus size: 64
68363109 TAATATATTT
68363119 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATA-T-AACAA
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATTAAACAA
* *
68363181 AATTTATATTACAAAGTTTATTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATTACAAACA
1 AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATT--AAACA
68363246 A
64 A
68363247 AATTTATATTACAAA
1 AATTTATATTACAAA
68363262 ATTTGTTAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
62 54 0.72
63 1 0.01
66 20 0.27
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (64 bp):
AATTTATATTACAAAGTTTATTCCAATTTTTAATGTTGCAATGTATTTAATTTATATTAAACAA
Found at i:68363186 original size:14 final size:14
Alignment explanation
Indices: 68363167--68363201 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
68363157 CAATGTATTT
68363167 AATTTATATAACAA
1 AATTTATATAACAA
*
68363181 AATTTATATTACAA
1 AATTTATATAACAA
*
68363195 AGTTTAT
1 AATTTAT
68363202 TCCAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:68363989 original size:6 final size:6
Alignment explanation
Indices: 68363829--68363986 Score: 271
Period size: 6 Copynumber: 26.3 Consensus size: 6
68363819 ATGCGACCGT
*
68363829 TCGGGC TCGGGC TCAGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC
1 TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC
*
68363877 TCAGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC
1 TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC
*
68363925 TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCAGGC TCGGGC TCGGGC
1 TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC
* *
68363973 TCAGGC TCAGGC TC
1 TCGGGC TCGGGC TC
68363987 AGGTTCTGCC
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 145 1.00
ACGTcount: A:0.03, C:0.34, G:0.46, T:0.17
Consensus pattern (6 bp):
TCGGGC
Found at i:68364651 original size:14 final size:14
Alignment explanation
Indices: 68364632--68364666 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
68364622 CAAATTACAT
68364632 GTTAGAATAGTATC
1 GTTAGAATAGTATC
68364646 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
68364660 ATTAGAA
1 GTTAGAA
68364667 AAAAATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:68375355 original size:25 final size:24
Alignment explanation
Indices: 68375326--68375382 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
68375316 AGCTCTCTCG
*
68375326 AGCATCCTATTATATAGTTCCTGCA
1 AGCATCCTATTATATAGTTCCT-AA
* *
68375351 AGCATCATGTTATATAGTTCCTAA
1 AGCATCCTATTATATAGTTCCTAA
68375375 AGCATCCT
1 AGCATCCT
68375383 GATCAGTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (24 bp):
AGCATCCTATTATATAGTTCCTAA
Found at i:68375653 original size:23 final size:23
Alignment explanation
Indices: 68375585--68375654 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
68375575 TTTCTGATAA
* *
68375585 AAAACTCTTCA-GAGTTACCTGTT
1 AAAACTCTT-ATGAGTTTCCTATT
*
68375608 -AAGCTC-TATGAGCTTT-CTGATT
1 AAAACTCTTATGAG-TTTCCT-ATT
68375630 AAAACTCTTATGAGTTTCCTATT
1 AAAACTCTTATGAGTTTCCTATT
68375653 AA
1 AA
68375655 GCTTGGATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 1 0.03
21 6 0.16
22 9 0.24
23 13 0.35
24 8 0.22
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (23 bp):
AAAACTCTTATGAGTTTCCTATT
Found at i:68377971 original size:30 final size:30
Alignment explanation
Indices: 68377935--68377992 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
68377925 TACTGGGGGT
*
68377935 TAGAGTGACCCATAACAGATAGATATATCG
1 TAGAGTGACCCATAACAGACAGATATATCG
68377965 TAGAGTGACCCATAACAGACAGATATAT
1 TAGAGTGACCCATAACAGACAGATATAT
68377993 TGTACTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.22
Consensus pattern (30 bp):
TAGAGTGACCCATAACAGACAGATATATCG
Found at i:68380246 original size:40 final size:40
Alignment explanation
Indices: 68380022--68380218 Score: 294
Period size: 40 Copynumber: 5.0 Consensus size: 40
68380012 TCGAATGATG
* * * *
68380022 TCCGGGCTAAG-TCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
68380061 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68380101 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68380141 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
68380181 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
68380219 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 11 0.07
40 128 0.86
41 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68380260 original size:40 final size:40
Alignment explanation
Indices: 68380074--68380265 Score: 121
Period size: 40 Copynumber: 4.8 Consensus size: 40
68380064 GGACTAAGAT
** *
68380074 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
68380114 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
68380154 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
68380194 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
68380234 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
68380266 TTAAACTCCG
Statistics
Matches: 141, Mismatches: 7, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
39 3 0.02
40 133 0.94
41 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:68380265 original size:120 final size:119
Alignment explanation
Indices: 68380022--68380253 Score: 285
Period size: 120 Copynumber: 1.9 Consensus size: 119
68380012 TCGAATGATG
* *
68380022 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
* **
68380087 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* *
68380141 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCA
1 TCCGGACTAAG-TCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGCA
* * *
68380203 TTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
62 TTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
68380254 AGCTATATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
119 12 0.12
120 73 0.75
121 12 0.12
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:68388436 original size:40 final size:40
Alignment explanation
Indices: 68388214--68388408 Score: 292
Period size: 40 Copynumber: 5.0 Consensus size: 40
68388204 TCGAATGATG
* * * *
68388214 TCCGGGCTAAG-TCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
68388253 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68388293 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68388333 TCCGGACTAAGATCCGAAGGCATTTGTGCGAG-TACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
68388372 TCCGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
68388409 TAACCGGGCT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
37 1 0.01
38 23 0.16
39 28 0.19
40 89 0.60
41 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68388455 original size:118 final size:119
Alignment explanation
Indices: 68388214--68388443 Score: 292
Period size: 118 Copynumber: 1.9 Consensus size: 119
68388204 TCGAATGATG
* *
68388214 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
* **
68388279 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
*
68388333 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGT-ACTAAATCCGGA-TAAG-TCCCGAAGGCAT
1 TCCGGACTAAG-TCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
68388394 TTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
63 TTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
68388444 AGCTATATCC
Statistics
Matches: 97, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
117 2 0.02
118 53 0.55
119 23 0.24
120 12 0.12
121 7 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:68391799 original size:18 final size:20
Alignment explanation
Indices: 68391759--68391805 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
68391749 TATAATTTTT
* *
68391759 AAATATATATAATACATCAA
1 AAATATATAAAATAAATCAA
68391779 AAATAT-TAAAATAAATCAA
1 AAATATATAAAATAAATCAA
*
68391798 AAAAATAT
1 AAATATAT
68391806 TTTCCAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATATAAAATAAATCAA
Found at i:68391915 original size:30 final size:30
Alignment explanation
Indices: 68391881--68391940 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68391871 ACTTAACAAG
68391881 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* * *
68391911 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
68391941 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:68391943 original size:12 final size:12
Alignment explanation
Indices: 68391921--68391949 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
68391911 CAAATGCCTT
68391921 TAAAA-TAATAA
1 TAAAATTAATAA
68391932 TAAAATTAATAA
1 TAAAATTAATAA
68391944 TAAAAT
1 TAAAAT
68391950 AAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:68393553 original size:5 final size:6
Alignment explanation
Indices: 68393523--68393551 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
68393513 AGGCTTATAG
68393523 ATTAAA ATTAAA ATTAAA ATT-AA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
68393552 TTTTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATTAAA
Found at i:68393722 original size:35 final size:35
Alignment explanation
Indices: 68393683--68393755 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
68393673 ATTGAATTCA
* *
68393683 ATTAATTTAGTAGTGTAATTTAAGCTTAAATGTCT
1 ATTAATGTAGTAGTGTAATTTAAGCTTAAATATCT
68393718 ATTAATGTAGTAGTGTAATTTAAGCTTAAATATCT
1 ATTAATGTAGTAGTGTAATTTAAGCTTAAATATCT
68393753 ATT
1 ATT
68393756 TGAGTGCGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (35 bp):
ATTAATGTAGTAGTGTAATTTAAGCTTAAATATCT
Found at i:68403545 original size:47 final size:47
Alignment explanation
Indices: 68403489--68403591 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
68403479 GTATTAATTT
* * * *
68403489 TGTGGTAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGAAGAATGTGAAAGTGTATAAA
68403536 TGTGATAAGGCCGAATGGCCAATGTGAAGAATGTGAAAGTGTATAAA
1 TGTGATAAGGCCGAATGGCCAATGTGAAGAATGTGAAAGTGTATAAA
68403583 TGTGATAAG
1 TGTGATAAG
68403592 TCCCGAAGGG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGAAGAATGTGAAAGTGTATAAA
Found at i:68405624 original size:42 final size:42
Alignment explanation
Indices: 68405536--68405646 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
68405526 GTCGGCGCCG
* * * * *
68405536 ATGCCATGTCCCAGACATGTTCTTATACGGGGCCTCACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGACCTCACATCA
* ** *
68405578 ATGCCATGTCCCAGACATGGTCTTACACGATATTTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGACCTCACATCA
* *
68405620 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
68405647 GTAGCATACG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGACCTCACATCA
Found at i:68405750 original size:48 final size:47
Alignment explanation
Indices: 68405576--68405753 Score: 172
Period size: 48 Copynumber: 3.9 Consensus size: 47
68405566 GGCCTCACAT
** *
68405576 CGATGCCATGTCCCAGACATGGTCTTACAC-GATATTTCATATC-A--
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTCATATCAACG
* * * * * *
68405620 --ATGCCATATCCCAGATATGGTCTTACAGTAGCAT-ACGTATCAACGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATCAAC-G
* *
68405666 TGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCAACG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACG
68405713 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
68405754 TAACTGTGGT
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
42 30 0.28
43 2 0.02
47 2 0.02
48 73 0.68
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACG
Found at i:68407247 original size:26 final size:26
Alignment explanation
Indices: 68407209--68407275 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
68407199 AAATTTACCT
*
68407209 TAGTAAAGTTTTTGACAATTTTAC-CC
1 TAGTAAA-ATTTTGACAATTTTACTCC
* * * *
68407235 TCATTAAAATTTTAACCATTTTACTGC
1 T-AGTAAAATTTTGACAATTTTACTCC
68407262 TAGTAAAATTTTGA
1 TAGTAAAATTTTGA
68407276 GAAAATTTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
26 25 0.78
27 7 0.22
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (26 bp):
TAGTAAAATTTTGACAATTTTACTCC
Found at i:68409487 original size:49 final size:49
Alignment explanation
Indices: 68409424--68409605 Score: 190
Period size: 49 Copynumber: 3.7 Consensus size: 49
68409414 TTGGTACGCA
* *
68409424 TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACAAG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAAG
* * * * * *
68409473 TAGTAGCCTGCACTTAGTATTACACACGTGATCACAGTTTTCGGGTATGCAA-
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCTGGTA--CAAG
* * *
68409525 -AGTAGCTTGCACTTAGTACTACACATACGACCAATTATCCT-GTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-CTGGTACAAG
*
68409573 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
68409606 TCACAATAGT
Statistics
Matches: 106, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
47 2 0.02
49 64 0.60
50 3 0.03
51 34 0.32
53 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAAG
Found at i:68409542 original size:100 final size:100
Alignment explanation
Indices: 68409416--68409603 Score: 279
Period size: 100 Copynumber: 1.9 Consensus size: 100
68409406 GAAGCTATTT
* *
68409416 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAAT-CTGGTACAAGTAGTAGC
1 GGTACGCAAAGTAGCCTACACTTAGTACTACACATACGACCAATAATCCT-GTACAAGTAGTAGC
*
68409480 CTGCACTTAGTATTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * * *
68409516 GGTATGCAAAGTAGCTTGCACTTAGTACTACACATACGACCAATTATCCTGTACACGTAGTAGCC
1 GGTACGCAAAGTAGCCTACACTTAGTACTACACATACGACCAATAATCCTGTACAAGTAGTAGCC
*
68409581 TGCACTTAGTACTACACATGTGA
66 TGCACTTAGTACTACACACGTGA
68409604 CCTCACAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 76 0.97
101 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCAAAGTAGCCTACACTTAGTACTACACATACGACCAATAATCCTGTACAAGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:68411637 original size:30 final size:30
Alignment explanation
Indices: 68411602--68411661 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
68411592 CAAGAAAACC
*
68411602 GAATAAAGAAATCCA-AGATAGAAAAACCCA
1 GAATAAAGAAATCCAGA-ATAAAAAAACCCA
68411632 GAATAAAGAAATCCAGAATAAAAAAACCCA
1 GAATAAAGAAATCCAGAATAAAAAAACCCA
68411662 AGATACGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAAAAACCCA
Found at i:68411649 original size:15 final size:15
Alignment explanation
Indices: 68411593--68411653 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
68411583 TAAAGATAAC
*
68411593 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
68411607 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
68411622 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
68411637 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
68411652 AA
1 AA
68411654 AAAACCCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.28
15 25 0.64
16 3 0.08
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:68414704 original size:49 final size:49
Alignment explanation
Indices: 68414641--68414815 Score: 194
Period size: 49 Copynumber: 3.5 Consensus size: 49
68414631 TTGGTACGCA
* * *
68414641 TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACAAG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACAAG
* * * * *
68414690 TAGTAGCCTGCACTTAGTATTACACACGTGATCACAGTTTTCGGGTACGCAA-
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCTGGTA--CAAG
* *
68414742 -AGTGGCCTGCACTTAGTACTACACACGCGACCAATTATCCT-GTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CTGGTACAAG
68414790 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
68414816 TGTGACCTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
47 2 0.02
49 59 0.57
50 3 0.03
51 36 0.35
53 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACAAG
Found at i:68414757 original size:100 final size:100
Alignment explanation
Indices: 68414633--68414820 Score: 288
Period size: 100 Copynumber: 1.9 Consensus size: 100
68414623 GAAGCTATTT
* *
68414633 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAAT-CTGGTACAAGTAGTAGC
1 GGTACGCAAAGTAGCCTACACTTAGTACTACACACGCGACCAATAATCCT-GTACAAGTAGTAGC
*
68414697 CTGCACTTAGTATTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * *
68414733 GGTACGCAAAGTGGCCTGCACTTAGTACTACACACGCGACCAATTATCCTGTACACGTAGTAGCC
1 GGTACGCAAAGTAGCCTACACTTAGTACTACACACGCGACCAATAATCCTGTACAAGTAGTAGCC
*
68414798 TGCACTTAGTACTACACATGTGA
66 TGCACTTAGTACTACACACGTGA
68414821 CCTCACAATA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 77 0.97
101 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCAAAGTAGCCTACACTTAGTACTACACACGCGACCAATAATCCTGTACAAGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:68416857 original size:30 final size:30
Alignment explanation
Indices: 68416822--68416881 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68416812 CAAGAAAACC
*
68416822 GAATAAAGAAATACAAG-ATAGAAAAACCCA
1 GAATAAAGAAAT-CAAGAATAAAAAAACCCA
* *
68416852 GAATAACGAAATCCAGAATAAAAAAACCCA
1 GAATAAAGAAATCAAGAATAAAAAAACCCA
68416882 AGATACGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCAAGAATAAAAAAACCCA
Found at i:68420029 original size:49 final size:49
Alignment explanation
Indices: 68419873--68420055 Score: 204
Period size: 49 Copynumber: 3.7 Consensus size: 49
68419863 TTGGTACGCA
* * *
68419873 TAGTAGCCTACACTTAGTACTGCACATGCGAACCAATAATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCG-ACCAATTATCAGGTACACG
* * * * * * *
68419923 TAGTAGCCTACACTTATTACTACACACGTGATCACAATTTTTAGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGCGA-C-CAATTATCAGGTACACG
* * *
68419974 TAGTAGCCTGCAATTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* *
68420023 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTACACTTAGTACTACACATGCGACC
68420056 TCACAATAGT
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 44 0.40
50 28 0.26
51 37 0.34
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:68420044 original size:100 final size:102
Alignment explanation
Indices: 68419865--68420062 Score: 301
Period size: 100 Copynumber: 2.0 Consensus size: 102
68419855 GAAGCTATTT
* * *
68419865 GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGAACCAATAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACAATTAGTACTACACATGCGAACCAATAATCCGGTACACGTAGTAGC
*
68419930 CTACACTTATTACTACACACGTGA-TCACAATTTTTA
66 CTACACTTAGTACTACACACGTGACTCACAATTTTTA
* *
68419966 GGTACGCATAGTAGCCTGCAATTAGTACTACACATGCG-ACCAATTATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACAATTAGTACTACACATGCGAACCAATAATCCGGTACACGTAGTAGC
* *
68420030 CTGCACTTAGTACTACACATGTGACCTCACAAT
66 CTACACTTAGTACTACACACGTGA-CTCACAAT
68420063 AGTTCATTTG
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 45 0.52
101 35 0.40
102 7 0.08
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (102 bp):
GGTACGCATAGTAGCCTACAATTAGTACTACACATGCGAACCAATAATCCGGTACACGTAGTAGC
CTACACTTAGTACTACACACGTGACTCACAATTTTTA
Found at i:68426362 original size:28 final size:28
Alignment explanation
Indices: 68426297--68426397 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68426287 ATAGTGAATC
*
68426297 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
68426326 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
68426354 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
68426384 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68426398 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:68429195 original size:48 final size:46
Alignment explanation
Indices: 68429037--68429203 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
68429027 TGATATGTGT
* ** * *
68429037 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCA-C-ATTACGAAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CATCGA-GATGAAA
* * * *
68429083 G-TAAGTGTAAGACATGTCTGGGATATGCATCAGCATTGAGATGAGA
1 GCT-AGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGATGAAA
* *
68429129 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATATATAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGAT-GA-AA
*
68429177 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
68429204 ACGTCAGCTT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.03
46 68 0.67
47 3 0.03
48 27 0.27
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGATGAAA
Found at i:68429279 original size:49 final size:49
Alignment explanation
Indices: 68429223--68429350 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
68429213 TATTGTGTGT
*
68429223 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CAATAGATAAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATAAAAGC
* * * * * * *
68429272 CAGTGTAAGACTTGTCTGGGACACGGCAAT-GGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGC-ATCGACCTCAATAGATAAAAGC
*
68429321 CAGTGTAAGACCTGTCTGGGACATGACATC
1 CAGTGTAAGACCTGTCTGGGACATGGCATC
68429351 AACTTTGATG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
48 3 0.05
49 60 0.92
50 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATAAAAGC
Found at i:68436199 original size:14 final size:14
Alignment explanation
Indices: 68436182--68436215 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
68436172 ACATAACATA
68436182 AAAGAAAATAAAAT
1 AAAGAAAATAAAAT
68436196 AAAG-AAATAAAAT
1 AAAGAAAATAAAAT
68436209 AGAAGAA
1 A-AAGAA
68436216 GAAACATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.56
14 7 0.39
15 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAGAAAATAAAAT
Found at i:68436274 original size:16 final size:17
Alignment explanation
Indices: 68436243--68436275 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
68436233 GAAAAGGGAG
68436243 AAAGAAAGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
*
68436260 AAAGAAA-AGGGAAAAA
1 AAAGAAAGAAGGAAAAA
68436276 TGAGGTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGGAAAAA
Found at i:68437413 original size:29 final size:30
Alignment explanation
Indices: 68437369--68437427 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
68437359 TTCCCGAGCC
*
68437369 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
68437399 TAGGGG-AAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
68437428 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:68449275 original size:27 final size:27
Alignment explanation
Indices: 68449234--68449287 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
68449224 TGTCATGTGA
* *
68449234 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
68449261 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
68449288 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:68449587 original size:35 final size:35
Alignment explanation
Indices: 68449521--68449587 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
68449511 AGGTCACGTG
*
68449521 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGA
*
68449556 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACC
68449588 CGATAACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (35 bp):
TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGA
Found at i:68449727 original size:49 final size:50
Alignment explanation
Indices: 68449556--68449740 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 50
68449546 GTGTACCGGA
* * *
68449556 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTAGGTCACATG
* * * ** *
68449607 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTAGGTCACATG
* *
68449657 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTAGGTCACATG
*
68449706 TGTAGTACTAAGTGCAGGCTACTATCCGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
68449741 GAGCCTTGTC
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
49 40 0.34
50 45 0.38
51 32 0.27
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTAGGTCACATG
Found at i:68457580 original size:46 final size:44
Alignment explanation
Indices: 68457522--68457697 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 44
68457512 GGGTTATTGT
* *
68457522 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GA
* *
68457568 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG--TATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AGA
* *
68457613 CGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CC-TCGAGA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCAT-TAGA
*
68457659 CGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGGC
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
68457698 TAAGACCATG
Statistics
Matches: 109, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
45 5 0.05
46 60 0.55
47 25 0.23
48 19 0.17
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGA
Found at i:68457714 original size:27 final size:28
Alignment explanation
Indices: 68457671--68457724 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
68457661 TAAGCCAATG
68457671 TAAGACATGTCTGGGACAT-GCATCGGC
1 TAAGACATGTCTGGGACATGGCATCGGC
68457698 TAAGACCATGTCT-GGACATGGCATCGG
1 TAAGA-CATGTCTGGGACATGGCATCGG
68457725 TACCTTACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (28 bp):
TAAGACATGTCTGGGACATGGCATCGGC
Found at i:68462483 original size:43 final size:42
Alignment explanation
Indices: 68462416--68462532 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 42
68462406 AGATTACGTG
* * * *
68462416 TAAGATCATATCTGGGATATGGCATTGATATGAGA-CCTCGTA
1 TAAGACCATAGCTAGGATATGGCATTGATATGAGATCC-CATA
* * * *
68462458 TAAGACCATAGCTAGGCTATTGGCATCGATATTAGATCCCATG
1 TAAGACCATAGCTAGGATA-TGGCATTGATATGAGATCCCATA
* * *
68462501 TAAGACCATATCTGGGATATGGCATTGGTATG
1 TAAGACCATAGCTAGGATATGGCATTGATATG
68462533 GTATTGTATG
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 25 0.42
43 32 0.54
44 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGACCATAGCTAGGATATGGCATTGATATGAGATCCCATA
Found at i:68466118 original size:6 final size:6
Alignment explanation
Indices: 68466109--68466138 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
68466099 AAAAGCATGT
*
68466109 GAAAAA GAAAAA GAAATA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
68466139 AATAATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:68466148 original size:18 final size:17
Alignment explanation
Indices: 68466108--68466167 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
68466098 AAAAAGCATG
*
68466108 TGAAAAAGAAAAAGAAA
1 TGAAAAAGAAAAAAAAA
68466125 TAGAAAAAGAAAAAAATAA
1 T-GAAAAAGAAAAAAA-AA
*
68466144 TG--AAAGAAAACAAAA
1 TGAAAAAGAAAAAAAAA
*
68466159 GGAAAAAGA
1 TGAAAAAGA
68466168 GAGCAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.08
16 10 0.28
17 6 0.17
18 14 0.39
19 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.07
Consensus pattern (17 bp):
TGAAAAAGAAAAAAAAA
Found at i:68471198 original size:46 final size:44
Alignment explanation
Indices: 68471094--68471201 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
68471084 TGTCTTTGAC
** * * *
68471094 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
68471138 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
68471184 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
68471202 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:68478574 original size:46 final size:44
Alignment explanation
Indices: 68478470--68478577 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
68478460 TGTCTTTGAC
** * * *
68478470 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
68478514 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
68478560 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
68478578 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:68483593 original size:29 final size:29
Alignment explanation
Indices: 68483560--68483633 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
68483550 GTGACGAGAT
68483560 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
68483589 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
68483618 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
68483634 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:68483649 original size:29 final size:29
Alignment explanation
Indices: 68483617--68483692 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
68483607 CTGGAAATAT
* *
68483617 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
68483646 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
68483675 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
68483693 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:68483660 original size:58 final size:58
Alignment explanation
Indices: 68483560--68483692 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
68483550 GTGACGAGAT
* * * * * *
68483560 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
68483618 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
68483676 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
68483693 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:68486564 original size:2 final size:2
Alignment explanation
Indices: 68486557--68486589 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
68486547 TCATGACATG
68486557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
68486590 GACTAATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68488895 original size:16 final size:16
Alignment explanation
Indices: 68488874--68488906 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
68488864 AAACGGAGTA
68488874 AAAACCAAATTTCATG
1 AAAACCAAATTTCATG
68488890 AAAACCAAATTTCATG
1 AAAACCAAATTTCATG
68488906 A
1 A
68488907 TCCATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAACCAAATTTCATG
Found at i:68496696 original size:36 final size:36
Alignment explanation
Indices: 68496613--68496787 Score: 260
Period size: 39 Copynumber: 4.7 Consensus size: 36
68496603 TGATACCAAC
*
68496613 ATAAAATTTTAACACGAATATTTAATAGTATCATCA
1 ATAAAATTTTAACACGAATATTTAATAGCATCATCA
*
68496649 ATAATTCAATTTTAACACGAATATTTAATGGCATCATCA
1 ATAA---AATTTTAACACGAATATTTAATAGCATCATCA
*
68496688 ATAAAATTTTAACACGAATATTTAATAGTATCATCA
1 ATAAAATTTTAACACGAATATTTAATAGCATCATCA
*
68496724 ATAATTCAATTTTAACACGAATATTTAATGGCATCATCA
1 ATAA---AATTTTAACACGAATATTTAATAGCATCATCA
68496763 ATAAAATTTTAACACGAATATTTAA
1 ATAAAATTTTAACACGAATATTTAA
68496788 AGGGGGGTAG
Statistics
Matches: 127, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
36 59 0.46
39 68 0.54
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (36 bp):
ATAAAATTTTAACACGAATATTTAATAGCATCATCA
Found at i:68496736 original size:75 final size:75
Alignment explanation
Indices: 68496613--68496787 Score: 350
Period size: 75 Copynumber: 2.3 Consensus size: 75
68496603 TGATACCAAC
68496613 ATAAAATTTTAACACGAATATTTAATAGTATCATCAATAATTCAATTTTAACACGAATATTTAAT
1 ATAAAATTTTAACACGAATATTTAATAGTATCATCAATAATTCAATTTTAACACGAATATTTAAT
68496678 GGCATCATCA
66 GGCATCATCA
68496688 ATAAAATTTTAACACGAATATTTAATAGTATCATCAATAATTCAATTTTAACACGAATATTTAAT
1 ATAAAATTTTAACACGAATATTTAATAGTATCATCAATAATTCAATTTTAACACGAATATTTAAT
68496753 GGCATCATCA
66 GGCATCATCA
68496763 ATAAAATTTTAACACGAATATTTAA
1 ATAAAATTTTAACACGAATATTTAA
68496788 AGGGGGGTAG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 100 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (75 bp):
ATAAAATTTTAACACGAATATTTAATAGTATCATCAATAATTCAATTTTAACACGAATATTTAAT
GGCATCATCA
Found at i:68503305 original size:43 final size:42
Alignment explanation
Indices: 68503257--68503355 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
68503247 TCCCAGATGA
* *
68503257 GGTCTTACATGTAATCAAATATCGATGCCACTATCACAGACAG
1 GGTCTTACAAGTAATCAAATA-CGATGCCAATATCACAGACAG
** * * * *
68503300 GGTCTTACAAAAAATCATATACGATGTCAATATCTCAGACAT
1 GGTCTTACAAGTAATCAAATACGATGCCAATATCACAGACAG
*
68503342 GGTCTTACACGTAA
1 GGTCTTACAAGTAA
68503356 ATCTCAAATC
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 28 0.62
43 17 0.38
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (42 bp):
GGTCTTACAAGTAATCAAATACGATGCCAATATCACAGACAG
Found at i:68503340 original size:42 final size:43
Alignment explanation
Indices: 68503269--68503350 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
68503259 TCTTACATGT
*
68503269 AATCAAATATCGATGCCACTATCACAGACAGGGTCTTACAAAA
1 AATCAAATATCGATGCCAATATCACAGACAGGGTCTTACAAAA
* * * *
68503312 AATCATATA-CGATGTCAATATCTCAGACATGGTCTTACA
1 AATCAAATATCGATGCCAATATCACAGACAGGGTCTTACA
68503351 CGTAAATCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATATCACAGACAGGGTCTTACAAAA
Found at i:68509865 original size:34 final size:34
Alignment explanation
Indices: 68509821--68509907 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
68509811 TACATACTGT
* * *
68509821 ACTAATATGGGCTAAGGTCCAGACTGCTTTTATC
1 ACTAAAATGGGCTAAGGCCCAGACTGCTATTATC
* *
68509855 ACTAAAATGGGCTAAGGCCCAGACTGCTATTGTT
1 ACTAAAATGGGCTAAGGCCCAGACTGCTATTATC
*
68509889 ACTGAAAAGGGGCTAAGGC
1 ACT-AAAATGGGCTAAGGC
68509908 TCCTAACTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 32 0.70
35 14 0.30
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (34 bp):
ACTAAAATGGGCTAAGGCCCAGACTGCTATTATC
Found at i:68517123 original size:17 final size:17
Alignment explanation
Indices: 68517101--68517134 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
68517091 GTGAAATTGA
68517101 GATAAATAAATTACTGC
1 GATAAATAAATTACTGC
68517118 GATAAATAAATTACTGC
1 GATAAATAAATTACTGC
68517135 AATGACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
GATAAATAAATTACTGC
Found at i:68521775 original size:31 final size:31
Alignment explanation
Indices: 68521752--68521825 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
68521742 ATAGTGAATC
**
68521752 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATGAAGCT
68521783 CGCACACTTAGTGCTATATA-ATCA--AA-CT
1 CGCACACTTAGTGCTATATATAT-ATGAAGCT
68521811 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68521826 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 17 0.41
29 1 0.02
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATGAAGCT
Found at i:68521847 original size:30 final size:29
Alignment explanation
Indices: 68521751--68521854 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 29
68521741 TATAGTGAAT
* *
68521751 CCGCACACTTAGTGCTATATATATATTCAGC
1 CCGCACACTTAGTGCTATATA-AT-TTAAAC
* *
68521782 TCGCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTATATAATTTAAAC
* * *
68521810 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATAA-TTTAAAC
68521840 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
68521855 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 23 0.37
30 20 0.32
31 20 0.32
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATATAATTTAAAC
Found at i:68529562 original size:31 final size:31
Alignment explanation
Indices: 68529539--68529612 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
68529529 ATAGTGAATC
**
68529539 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATGAAGCT
68529570 CGCACACTTAGTGCTATATA-ATCA--AA-CT
1 CGCACACTTAGTGCTATATATAT-ATGAAGCT
68529598 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68529613 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 17 0.41
29 1 0.02
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATGAAGCT
Found at i:68529634 original size:30 final size:29
Alignment explanation
Indices: 68529538--68529641 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 29
68529528 TATAGTGAAT
* *
68529538 CCGCACACTTAGTGCTATATATATATTCAGC
1 CCGCACACTTAGTGCTATATA-AT-TTAAAC
* *
68529569 TCGCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTATATAATTTAAAC
* * *
68529597 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATAA-TTTAAAC
68529627 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
68529642 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 23 0.37
30 20 0.32
31 20 0.32
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATATAATTTAAAC
Found at i:68533144 original size:46 final size:46
Alignment explanation
Indices: 68533094--68533222 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
68533084 TGGTTGAGCA
*
68533094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
68533140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
68533186 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68533223 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:68538574 original size:46 final size:46
Alignment explanation
Indices: 68538524--68538652 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
68538514 TGGTTGAGCA
*
68538524 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
68538570 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
68538616 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68538653 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:68539435 original size:26 final size:26
Alignment explanation
Indices: 68539401--68539453 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
68539391 TGAGTCTATT
68539401 TTCATATGGATGGAACAAAACAGGTA
1 TTCATATGGATGGAACAAAACAGGTA
68539427 TTCATATGGATGGAACAAAACAGGTA
1 TTCATATGGATGGAACAAAACAGGTA
68539453 T
1 T
68539454 ATGAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (26 bp):
TTCATATGGATGGAACAAAACAGGTA
Found at i:68550078 original size:29 final size:27
Alignment explanation
Indices: 68550036--68550090 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
68550026 TAATCAATTG
* *
68550036 CAGTCTGGGGCTTGAGCTCATTACAGATT
1 CAGTCTGGGCCTTG-GCCCATT-CAGATT
*
68550065 CAGTTTGGGCCTTGGCCCATTCAGAT
1 CAGTCTGGGCCTTGGCCCATTCAGAT
68550091 AGAGTCTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 6 0.26
29 12 0.52
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (27 bp):
CAGTCTGGGCCTTGGCCCATTCAGATT
Found at i:68555161 original size:13 final size:13
Alignment explanation
Indices: 68555139--68555178 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
68555129 GCTCGGTAGG
*
68555139 GACACACCCGTGT
1 GACACGCCCGTGT
68555152 GACACGCCCGTGT
1 GACACGCCCGTGT
*
68555165 GACACGCCCATGT
1 GACACGCCCGTGT
68555178 G
1 G
68555179 CGATAACTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:68559121 original size:13 final size:13
Alignment explanation
Indices: 68559103--68559129 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
68559093 TGTGTGGGTG
68559103 CACATGGCCGTGT
1 CACATGGCCGTGT
68559116 CACATGGCCGTGT
1 CACATGGCCGTGT
68559129 C
1 C
68559130 TTGCTTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CACATGGCCGTGT
Found at i:68566912 original size:6 final size:6
Alignment explanation
Indices: 68566889--68566963 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
68566879 GATCTCGATC
* * ** **
68566889 TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TCAATT TCATTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT
68566938 TCTTTT TCTTATT CTCTTTT TGCTTT
1 TCTTTT TCTT-TT -TCTTTT T-CTTT
68566964 CTTTCACACC
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
6 37 0.70
7 12 0.23
8 4 0.08
ACGTcount: A:0.07, C:0.21, G:0.01, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:68567753 original size:27 final size:27
Alignment explanation
Indices: 68567723--68567777 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
68567713 GATGTTACGG
68567723 TGTACGGGAAGGCTAAAAGAAAAATTT
1 TGTACGGGAAGGCTAAAAGAAAAATTT
68567750 TGTACGGGAAGGCTAAAAGAAAAATTT
1 TGTACGGGAAGGCTAAAAGAAAAATTT
68567777 T
1 T
68567778 CTTCGGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.24
Consensus pattern (27 bp):
TGTACGGGAAGGCTAAAAGAAAAATTT
Found at i:68575565 original size:29 final size:29
Alignment explanation
Indices: 68575541--68575634 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
68575531 TCGCACACCC
*
68575541 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
68575570 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
68575599 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
68575628 AGTGCCA
1 AGTGCCA
68575635 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:68575566 original size:58 final size:58
Alignment explanation
Indices: 68575503--68575634 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
68575493 AATTTAAGCC
* * * *
68575503 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
68575561 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
68575619 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
68575635 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:68583525 original size:29 final size:29
Alignment explanation
Indices: 68583501--68583594 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
68583491 TCGCACACCC
*
68583501 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
68583530 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
68583559 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
68583588 AGTGCCA
1 AGTGCCA
68583595 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:68583526 original size:58 final size:58
Alignment explanation
Indices: 68583463--68583594 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
68583453 GATTTAAGCC
* * * *
68583463 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
68583521 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
68583579 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
68583595 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:68588593 original size:20 final size:20
Alignment explanation
Indices: 68588568--68588609 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
68588558 TACTTATGAC
68588568 TATTAGGTATTTTTACCGAT
1 TATTAGGTATTTTTACCGAT
68588588 TATTAGGTATTTTTACCGAT
1 TATTAGGTATTTTTACCGAT
68588608 TA
1 TA
68588610 AGCTCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
TATTAGGTATTTTTACCGAT
Found at i:68591394 original size:21 final size:21
Alignment explanation
Indices: 68591368--68591407 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
68591358 GGCGGGGTTA
* *
68591368 CCAGTCTAGGCTAAATCCCCG
1 CCAGTCCAGGATAAATCCCCG
68591389 CCAGTCCAGGATAAATCCC
1 CCAGTCCAGGATAAATCCC
68591408 TTATAGTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (21 bp):
CCAGTCCAGGATAAATCCCCG
Found at i:68594180 original size:43 final size:42
Alignment explanation
Indices: 68594132--68594314 Score: 170
Period size: 43 Copynumber: 4.3 Consensus size: 42
68594122 CCACTATAAT
* *
68594132 ACATGACCTTTAGCGGTGCTTCTCCCATAAACGTCGCTAAAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCATAAACG-CGCTAAAGA
* * * * *
68594175 ACATGACCTTTAGCAGCGCTTTTCCTAAAAACACCACTAAAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCATAAAC-GCGCTAAAGA
* *
68594218 ACATGACCTTTAGCGGCACTTTTCCCATAAATGCTGCTAAAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCATAAACGC-GCTAAAGA
* * * * * * *
68594261 GCATGACCTTTAGCAGCG-ATTTCCCACAAACACCACTCAAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCATAAAC-GCGCTAAAGA
*
68594303 GCATGACCTTTA
1 ACATGACCTTTA
68594315 TAGGAACTTT
Statistics
Matches: 114, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.25
43 85 0.75
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (42 bp):
ACATGACCTTTAGCGGCGCTTTTCCCATAAACGCGCTAAAGA
Found at i:68594260 original size:86 final size:85
Alignment explanation
Indices: 68594115--68594358 Score: 260
Period size: 86 Copynumber: 2.9 Consensus size: 85
68594105 GTTTATGTGG
* * ** * *
68594115 AAAAACGCCACTATAA-TACATGACCTTTAGCGGTGCTTCTCCCATAAACG-TCGCTAAAGAACA
1 AAAAACACCACTA-AAGAACATGACCTTTAGCGGAACTTTTCCCATAAATGCT-GCTAAAGAACA
* *
68594178 TGACCTTTAGCAGCGCTTTTCCT
64 TGACCTTTAGCAGCG-ATTTCCC
* *
68594201 AAAAACACCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCATAAATGCTGCTAAAGAGCATG
1 AAAAACACCACTAAAGAACATGACCTTTAGCGGAACTTTTCCCATAAATGCTGCTAAAGAACATG
68594266 ACCTTTAGCAGCGATTTCCC
66 ACCTTTAGCAGCGATTTCCC
* * * ** * * * *
68594286 ACAAACACCACTCAAGAGCATGACCTTTATAGGAAC-TTTCCTAAAAAATGCCGCTAAAAAACAT
1 AAAAACACCACTAAAGAACATGACCTTTAGCGGAACTTTTCC-CATAAATGCTGCTAAAGAACAT
68594350 GACCTTTAG
65 GACCTTTAG
68594359 TGGCATTGTC
Statistics
Matches: 135, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
84 5 0.04
85 63 0.47
86 66 0.49
87 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (85 bp):
AAAAACACCACTAAAGAACATGACCTTTAGCGGAACTTTTCCCATAAATGCTGCTAAAGAACATG
ACCTTTAGCAGCGATTTCCC
Found at i:68594335 original size:85 final size:86
Alignment explanation
Indices: 68594166--68594358 Score: 246
Period size: 85 Copynumber: 2.3 Consensus size: 86
68594156 CCATAAACGT
* *
68594166 CGCTAAAGAACATGACCTTTAGCAGCGCTTTTCCTAAAAACACCACTAAAGAACATGACCTTTAG
1 CGCTAAAGAACATGACCTTTAGCAGCGCATTTCCCAAAAACACCACTAAAGAACATGACCTTTAG
* * * *
68594231 CGGCACTTTTCCCATAAATGC
66 AGGAACTTTTCCAAAAAATGC
* * * * * *
68594252 TGCTAAAGAGCATGACCTTTAGCAGCG-ATTTCCCACAAACACCACTCAAGAGCATGACCTTTAT
1 CGCTAAAGAACATGACCTTTAGCAGCGCATTTCCCAAAAACACCACTAAAGAACATGACCTTTAG
68594316 AGGAAC-TTTCCTAAAAAATGC
66 AGGAACTTTTCC-AAAAAATGC
*
68594337 CGCTAAAAAACATGACCTTTAG
1 CGCTAAAGAACATGACCTTTAG
68594359 TGGCATTGTC
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 5 0.05
85 61 0.67
86 25 0.27
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (86 bp):
CGCTAAAGAACATGACCTTTAGCAGCGCATTTCCCAAAAACACCACTAAAGAACATGACCTTTAG
AGGAACTTTTCCAAAAAATGC
Done.