Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 95 of 425
Found at i:27496153 original size:40 final size:40
Alignment explanation
Indices: 27496045--27496254 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
27496035 CGGGATTTAA
* * * * *
27496045 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
27496085 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
27496125 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
27496165 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
27496205 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
27496245 CCGGATATAT
1 CCGGATATAT
27496255 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:27499276 original size:41 final size:40
Alignment explanation
Indices: 27499206--27499330 Score: 117
Period size: 41 Copynumber: 3.0 Consensus size: 40
27499196 ATCGAATACT
* *
27499206 TTATATTTTGCACACTAAGTGGTAATACATAGCCGAAGCTA
1 TTATATTTTGCAAACTAAGTGCT-ATACATAGCCGAAGCTA
27499247 TTATACTTTTGCAAACTAAGTGCCT-TACATAGCCGAAGCTA
1 TTATA-TTTTGCAAACTAAGTG-CTATACATAGCCGAAGCTA
*** * * * * *
27499288 TCTCGGTCTCGCACACTAAGTGCCATATATAGCCGAAGCTA
1 T-TATATTTTGCAAACTAAGTGCTATACATAGCCGAAGCTA
27499329 TT
1 TT
27499331 CCAAATCGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.03
41 51 0.73
42 16 0.23
43 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (40 bp):
TTATATTTTGCAAACTAAGTGCTATACATAGCCGAAGCTA
Found at i:27499351 original size:40 final size:40
Alignment explanation
Indices: 27499261--27499398 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
27499251 ACTTTTGCAA
* * * **
27499261 ACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTCTCGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAATCGCAC
*
27499302 ACTAAGTGCCATATATAGCCGAAGCTATTCCAAATCGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATTCCGAATCGCAC
* * *
27499342 ACTAAGTGCCATATATAGCCAAAGCT-TTCTTGAATCACAC
1 ACTAAGTGCCATATATAGCCGAAGCTATTC-CGAATCGCAC
* *
27499382 ATTAAGTGCTATATATA
1 ACTAAGTGCCATATATA
27499399 TATCCTAATT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.04
40 55 0.65
41 26 0.31
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCGAAGCTATTCCGAATCGCAC
Found at i:27501630 original size:68 final size:66
Alignment explanation
Indices: 27501584--27501741 Score: 262
Period size: 68 Copynumber: 2.3 Consensus size: 66
27501574 ATACTATATA
27501584 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAAATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAG-AATA
27501649 AAT
64 AAT
27501652 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGA-ATA
27501717 AAT
64 AAT
* *
27501720 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
27501742 TCCAAGTGAA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
67 1 0.01
68 86 0.99
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.24
Consensus pattern (66 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAATAAA
T
Found at i:27501815 original size:66 final size:69
Alignment explanation
Indices: 27501618--27501815 Score: 205
Period size: 68 Copynumber: 2.9 Consensus size: 69
27501608 GGGATGTATC
* * * *
27501618 CCATGTAGACAAGAGAGCTACGTGAGAAATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC-TGAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
27501680 TGTATC-
64 AGGA-CA
*
27501686 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC-TGAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
27501751 AGGACA
64 AGGACA
* *
27501757 CCATGTAGACAAGAGAGCTA-TGA-A-ATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACTGAGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
27501816 TTCACCATGT
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 6 0.05
68 55 0.48
69 4 0.03
70 1 0.01
71 25 0.22
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACTGAGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAG
GACA
Found at i:27509187 original size:68 final size:68
Alignment explanation
Indices: 27509115--27509298 Score: 259
Period size: 68 Copynumber: 2.7 Consensus size: 68
27509105 CATCATGTGT
* *
27509115 ACAAGAAG-GCTAC-GAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
1 ACAAGAAGAGCTACGGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
27509178 TGTAG
64 TGTAG
27509183 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTACG-GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
27509247 GTAG
65 GTAG
* * *
27509251 ACAAG-AGAGCTATGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTACG-GAGAGATAAATGTAGCTAGGTCACATGTGTGAT
27509299 TCCAAGTGAA
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
67 2 0.02
68 97 0.90
69 4 0.04
70 5 0.05
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (68 bp):
ACAAGAAGAGCTACGGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:27509372 original size:66 final size:67
Alignment explanation
Indices: 27509175--27509372 Score: 183
Period size: 68 Copynumber: 2.9 Consensus size: 67
27509165 GGGATGTATC
* * *
27509175 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
27509237 TGTATC-
62 AGGA-CA
*
27509243 CCATGTAGACAAGAGAGCTATGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
27509308 AGGACA
62 AGGACA
* * *
27509314 CCATGTAGACAAGAGAGCTA-CGAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTAGAGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
27509373 TTCACCATGT
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 54 0.47
69 1 0.01
70 1 0.01
71 25 0.22
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTAGAGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:27513762 original size:25 final size:25
Alignment explanation
Indices: 27513733--27513780 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27513723 TTATAATATG
* * *
27513733 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
27513758 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
27513781 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27513849 original size:20 final size:20
Alignment explanation
Indices: 27513824--27513882 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
27513814 TAAATATGGT
27513824 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
27513844 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
27513864 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
27513883 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:27514000 original size:25 final size:24
Alignment explanation
Indices: 27513933--27514004 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
27513923 GAGGAAGTGA
*
27513933 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
27513957 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
27513981 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
27514005 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:27514231 original size:31 final size:31
Alignment explanation
Indices: 27514196--27514296 Score: 130
Period size: 31 Copynumber: 3.1 Consensus size: 31
27514186 CGTTTACAGT
27514196 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
27514227 AAAGGCTTCGGCCCAGTATTATGAAATAGAAACATGA
1 AAAGGCTTCGGCCCAGTA--AT---AT-GAAATATGA
*
27514264 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
27514295 AA
1 AA
27514297 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
31 28 0.46
32 2 0.03
33 2 0.03
35 1 0.02
36 2 0.03
37 26 0.43
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:27514273 original size:37 final size:37
Alignment explanation
Indices: 27514196--27514319 Score: 170
Period size: 37 Copynumber: 3.5 Consensus size: 37
27514186 CGTTTACAGT
27514196 AAAGGCTTCGGCCCAGTA--AT---AT-GAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATAGAAATATGA
*
27514227 AAAGGCTTCGGCCCAGTATTATGAAATAGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATAGAAATATGA
27514264 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATA-GAAATATGA
*
27514302 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
27514320 GCATGATTGA
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
31 18 0.22
33 2 0.02
36 2 0.02
37 36 0.44
38 11 0.13
39 13 0.16
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (37 bp):
AAAGGCTTCGGCCCAGTATTATGAAATAGAAATATGA
Found at i:27522005 original size:42 final size:40
Alignment explanation
Indices: 27521958--27522092 Score: 155
Period size: 40 Copynumber: 3.3 Consensus size: 40
27521948 GAATTATCGT
* *
27521958 ACACTAAGTGCCAAAACATAGCCGAAGCTAT-TTTAACCTCAC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATCTTGAA--TCAC
* *
27522000 ACACTAAGTGCCATACATTGCCAAAGCTATCTTGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCAC
* * * * *
27522040 GCACTAAGTGCCATATATAGCAGAAGCTATGTTGAATCCC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCAC
27522080 ACACTAAGTGCCA
1 ACACTAAGTGCCA
27522093 CATATAGGTG
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 49 0.61
41 15 0.19
42 16 0.20
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCAC
Found at i:27523610 original size:41 final size:40
Alignment explanation
Indices: 27523532--27523689 Score: 165
Period size: 41 Copynumber: 3.9 Consensus size: 40
27523522 TATACTTAAT
* *
27523532 ATTTTGCACACTAAGTGCTAATACATAGCCGAAGCTATTATA
1 ATTTCGCACACTAAGTGC-CATACATAGCCGAAGCTATT-TA
* * *
27523574 ATTTTGCACACTAAGTGCCTTACATAGCCGAAGCTATCTTG
1 ATTTCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TTA
* * * * *
27523615 GTCTCGCACACTAAGCGCCATATATAGCCGAAGCTATTCCA
1 ATTTCGCACACTAAGTGCCATACATAGCCGAAGCTATT-TA
* *
27523656 A-ATCGCACACTAAGTGCCATATATAGCCGAAGCT
1 ATTTCGCACACTAAGTGCCATACATAGCCGAAGCT
27523690 TTCTTGAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 32 0.32
41 49 0.49
42 19 0.19
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
ATTTCGCACACTAAGTGCCATACATAGCCGAAGCTATTTA
Found at i:27523675 original size:40 final size:40
Alignment explanation
Indices: 27523537--27523720 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
27523527 TTAATATTTT
* * * * *
27523537 GCACACTAAGTGCTAATACATAGCCGAAGCTATTATAATTTT
1 GCACACTAAGTGC-CATATATAGCCGAAGCTATTCTAA-ATC
* * ***
27523579 GCACACTAAGTGCCTTACATAGCCGAAGCTA-TCTTGGTCTC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTC-T-AAATC
* *
27523620 GCACACTAAGCGCCATATATAGCCGAAGCTATTCCAAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTCTAAATC
*
27523660 GCACACTAAGTGCCATATATAGCCGAAGCT-TTCTTGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTC-TAAATC
* *
27523700 GCACACTAATTGCTATATATA
1 GCACACTAAGTGCCATATATA
27523721 TATCTGAATT
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 55 0.46
41 46 0.39
42 15 0.13
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATTCTAAATC
Found at i:27523682 original size:81 final size:82
Alignment explanation
Indices: 27523537--27523708 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 82
27523527 TTAATATTTT
* * * * *
27523537 GCACACTAAGTGCTAATACATAGCCGAAGCTATTATAATTTTGCACACTAAGTGCCTTACATAGC
1 GCACACTAAGCGCTAATACATAGCCGAAGCTATTACAATATCGCACACTAAGTGCCATACATAGC
**
27523602 CGAAGCTATCTTGGTCTC
66 CGAAGCTATCTT-GAATC
* * * *
27523620 GCACACTAAGCGC-CATATATAGCCGAAGCTATTCCAA-ATCGCACACTAAGTGCCATATATAGC
1 GCACACTAAGCGCTAATACATAGCCGAAGCTATTACAATATCGCACACTAAGTGCCATACATAGC
*
27523683 CGAAGCTTTCTTGAATC
66 CGAAGCTATCTTGAATC
27523700 GCACACTAA
1 GCACACTAA
27523709 TTGCTATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 12 0.16
81 33 0.43
82 20 0.26
83 12 0.16
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (82 bp):
GCACACTAAGCGCTAATACATAGCCGAAGCTATTACAATATCGCACACTAAGTGCCATACATAGC
CGAAGCTATCTTGAATC
Found at i:27539892 original size:49 final size:48
Alignment explanation
Indices: 27539832--27539930 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 48
27539822 CTTTCCTCAC
*
27539832 ATATTTCTGAGCTAACATCGAAGATATCACTGCTGGCAAACCATTCTAT
1 ATATTTCTGAGCTAACATCGAAGATATCACTACTGGCAAACCATTC-AT
*
27539881 ATATTTTTGAGCTAACATCGAAGATATCACTACTGGCAAACCATTCAT
1 ATATTTCTGAGCTAACATCGAAGATATCACTACTGGCAAACCATTCAT
27539929 AT
1 AT
27539931 CATTAGATTC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 4 0.08
49 44 0.92
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (48 bp):
ATATTTCTGAGCTAACATCGAAGATATCACTACTGGCAAACCATTCAT
Found at i:27544475 original size:30 final size:29
Alignment explanation
Indices: 27544441--27544504 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
27544431 TATTGATACA
*
27544441 AGTCCAT-ATATT-TCATTTATTTCACATTTT
1 AGTCCATCAAATTATCATTT-TTTCA-A-TTT
*
27544471 AGTCCCTCAAATTATCATTTTTTCAATTT
1 AGTCCATCAAATTATCATTTTTTCAATTT
27544500 AGTCC
1 AGTCC
27544505 TAATTACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 9 0.30
32 6 0.20
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (29 bp):
AGTCCATCAAATTATCATTTTTTCAATTT
Found at i:27552255 original size:43 final size:42
Alignment explanation
Indices: 27552103--27552274 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 42
27552093 ACTCAAAAAT
* * * *
27552103 CACATAAGCTCATACAATGTC-ATATCCCAGATATGGTCTTA
1 CACATAATCTCATACAATGCCAATGTCCCAGACATGGTCTTA
** * * *
27552144 CATGTTATCACATATCAATGCCACA-GTCCCAGACAGGGTCTTA
1 CACATAATCTCATA-CAATGCCA-ATGTCCCAGACATGGTCTTA
* * * *
27552187 CTCAAAATC-GATTAACGATGCCAATGTCCCAGACATGGTCTTA
1 CACATAATCTCA-T-ACAATGCCAATGTCCCAGACATGGTCTTA
* *
27552230 CACATAATCTCAATACAATGGCAATGTCCCAGACATGGCCTTA
1 CACATAATCTC-ATACAATGCCAATGTCCCAGACATGGTCTTA
27552273 CA
1 CA
27552275 TGTAATCACA
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
41 9 0.09
42 8 0.08
43 79 0.79
44 3 0.03
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
CACATAATCTCATACAATGCCAATGTCCCAGACATGGTCTTA
Found at i:27560343 original size:29 final size:29
Alignment explanation
Indices: 27560302--27560465 Score: 283
Period size: 29 Copynumber: 5.7 Consensus size: 29
27560292 ATAAACGATC
*** *
27560302 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
27560331 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27560360 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27560389 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27560418 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27560447 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
27560466 CCTTCCAAGC
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 129 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:27560481 original size:87 final size:87
Alignment explanation
Indices: 27560303--27560492 Score: 274
Period size: 87 Copynumber: 2.2 Consensus size: 87
27560293 TAAACGATCT
* *
27560303 CGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
* **
27560368 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTCAAGCC
* * *
27560390 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
**
27560455 TTAGTGCCATA-CCTTCCAAGCC
66 TTAGTGCCATATAATT-CAAGCC
27560477 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27560493 ATCTTGTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 2 0.02
87 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
TTAGTGCCATATAATTCAAGCC
Found at i:27568464 original size:29 final size:29
Alignment explanation
Indices: 27568423--27568557 Score: 225
Period size: 29 Copynumber: 4.7 Consensus size: 29
27568413 ATAAACGATC
*** *
27568423 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
27568452 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27568481 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27568510 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
27568539 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
27568558 CCTTCCAAGC
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 100 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:27568490 original size:58 final size:58
Alignment explanation
Indices: 27568423--27568584 Score: 227
Period size: 58 Copynumber: 2.8 Consensus size: 58
27568413 ATAAACGATC
* *
27568423 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
* * *
27568481 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
* * * *
27568539 TCGCACACTTAGTGCCATAC-CTTCCAAGCCCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATACAATT-TAAGCTCGCACACATAGTGCCA
27568585 ATCTTGTCAC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
57 2 0.02
58 91 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
Found at i:27568573 original size:87 final size:87
Alignment explanation
Indices: 27568423--27568584 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
27568413 ATAAACGATC
* * * **
27568423 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACA
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTCAAGCCCGCACA
27568488 CTTAGTGCCATATAATTTAAGT
66 CTTAGTGCCATATAATTTAAGT
* * * **
27568510 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATA-CCTTCCAAGCCCGCAC
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATT-CAAGCCCGCAC
27568574 ACTTAGTGCCA
65 ACTTAGTGCCA
27568585 ATCTTGTCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 2 0.03
87 62 0.97
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (87 bp):
TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTCAAGCCCGCACA
CTTAGTGCCATATAATTTAAGT
Found at i:27569882 original size:34 final size:33
Alignment explanation
Indices: 27569844--27569908 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
27569834 GTAGCAGTAA
27569844 CAGTCTGGGCCTGAGCCCATTACAGTATCAGTGG
1 CAGTCTGGGCCTGAGCCCATTACAGTA-CAGTGG
* * *
27569878 CAGTCTGGGCCTTATCCCATTTCAGTACAGT
1 CAGTCTGGGCCTGAGCCCATTACAGTACAGT
27569909 ATGCAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (33 bp):
CAGTCTGGGCCTGAGCCCATTACAGTACAGTGG
Found at i:27570632 original size:16 final size:16
Alignment explanation
Indices: 27570611--27570644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27570601 CACTTTTTTG
27570611 GCTTTTCAGCCTTTCA
1 GCTTTTCAGCCTTTCA
* *
27570627 GCTTTTCGGCTTTTCA
1 GCTTTTCAGCCTTTCA
27570643 GC
1 GC
27570645 CTTTACAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.29, G:0.18, T:0.44
Consensus pattern (16 bp):
GCTTTTCAGCCTTTCA
Found at i:27573831 original size:28 final size:28
Alignment explanation
Indices: 27573795--27573858 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
27573785 TTTTCATTTA
* *
27573795 TTTCCCAATTTAA-CCCTCAATTTACACT
1 TTTCTCAATTTAATCCCT-AATTGACACT
*
27573823 TTTCTCAATTTAATCCCTAATTGACATT
1 TTTCTCAATTTAATCCCTAATTGACACT
*
27573851 TTTGTCAA
1 TTTCTCAA
27573859 AAATCACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (28 bp):
TTTCTCAATTTAATCCCTAATTGACACT
Found at i:27581517 original size:47 final size:47
Alignment explanation
Indices: 27581463--27581656 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
27581453 TTAGGATTTT
** * *
27581463 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
27581510 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
27581557 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
27581604 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
27581651 ATGTGA
1 ATGTGA
27581657 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:27581563 original size:22 final size:22
Alignment explanation
Indices: 27581492--27581563 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
27581482 GTATATATGA
27581492 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
27581514 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
27581539 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
27581561 GAT
1 GAT
27581564 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:27581612 original size:25 final size:25
Alignment explanation
Indices: 27581537--27581612 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
27581527 ATGCATATAT
27581537 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
27581562 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
27581584 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
27581609 GTGA
1 GTGA
27581613 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:27581691 original size:48 final size:48
Alignment explanation
Indices: 27581626--27581814 Score: 272
Period size: 48 Copynumber: 3.8 Consensus size: 48
27581616 TGAACATGCA
27581626 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
27581674 TGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
27581722 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG----A-A-ATATGTATGAGATATG
*
27581776 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
27581815 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 16
0.85 0.05 0.11
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 1 0.01
50 1 0.01
52 1 0.01
53 1 0.01
54 41 0.33
55 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:27581806 original size:102 final size:96
Alignment explanation
Indices: 27581627--27581814 Score: 279
Period size: 102 Copynumber: 1.9 Consensus size: 96
27581617 GAACATGCAT
* *
27581627 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGTATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
27581692 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
27581723 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATATGAGATATGTATATGTGGTA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG----A-A-ATATATATGAGATATGTATATGTGGTA
*
27581787 AAGCCGAATGGCTAGTGTGAAATATGTA
59 AAGCCGAATGGCTAATGTGAAATATGTA
27581815 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
100 1 0.01
101 1 0.01
102 52 0.63
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:27582068 original size:37 final size:37
Alignment explanation
Indices: 27581960--27582068 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
27581950 GGAAATATAT
*
27581960 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
27581997 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
27582034 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
27582069 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:27585643 original size:60 final size:60
Alignment explanation
Indices: 27585569--27585688 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
27585559 AATGGTAGAA
* *
27585569 ATCTTATTGGGATCAACTTC-AATACCATTTCCTGAAACGATGTGGCCTAGGAATCCAACT
1 ATCTTATTAGGATCAAC-TCGAATACCATTGCCTGAAACGATGTGGCCTAGGAATCCAACT
*
27585629 ATCTTATTAGGATCAACTCGAATACCATTGCCTGAAATGATGTGGCCTAGGAATCCAACT
1 ATCTTATTAGGATCAACTCGAATACCATTGCCTGAAACGATGTGGCCTAGGAATCCAACT
27585689 TCCCGAAGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.04
60 54 0.96
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (60 bp):
ATCTTATTAGGATCAACTCGAATACCATTGCCTGAAACGATGTGGCCTAGGAATCCAACT
Found at i:27587864 original size:28 final size:28
Alignment explanation
Indices: 27587819--27587887 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
27587809 CTTAAAACCC
*
27587819 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
27587846 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
27587874 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
27587888 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:27589524 original size:20 final size:20
Alignment explanation
Indices: 27589501--27589538 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27589491 CACATCCAAA
*
27589501 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
27589521 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
27589539 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:27595846 original size:28 final size:28
Alignment explanation
Indices: 27595800--27595868 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
27595790 TTTAAAACCC
*
27595800 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
27595827 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
27595855 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
27595869 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:27597505 original size:20 final size:20
Alignment explanation
Indices: 27597482--27597519 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27597472 CACATCCAAA
*
27597482 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
27597502 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
27597520 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:27599361 original size:23 final size:23
Alignment explanation
Indices: 27599331--27599389 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
27599321 CCTCTGGCCT
27599331 CACACGCCCGTGTAAAGGCACAC
1 CACACGCCCGTGTAAAGGCACAC
*
27599354 CACACGCCCGTGTAGAGGCACAC
1 CACACGCCCGTGTAAAGGCACAC
27599377 CACACGCCCGTGT
1 CACACGCCCGTGT
27599390 GCTTGGGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.41, G:0.24, T:0.10
Consensus pattern (23 bp):
CACACGCCCGTGTAAAGGCACAC
Found at i:27599627 original size:19 final size:17
Alignment explanation
Indices: 27599578--27599634 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
27599568 CACGTCCAAA
*
27599578 GCACATGGCCGTGTGTC
1 GCACACGGCCGTGTGTC
27599595 GCACACGGCCGTGTGTC
1 GCACACGGCCGTGTGTC
27599612 GCACACGGCCGTGTGTC
1 GCACACGGCCGTGTGTC
*
27599629 ACACAC
1 GCACAC
27599635 AGATGAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.18
Consensus pattern (17 bp):
GCACACGGCCGTGTGTC
Found at i:27603548 original size:40 final size:40
Alignment explanation
Indices: 27603474--27603653 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
27603464 ATGATGTCCA
* *
27603474 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
27603514 GACTAAGAT-CCGAAGGCATTTGTGCGACTTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
27603554 GGCTAAGT-CCGAAGGCA-TTGTGCGAGTTACTAAATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
27603592 GGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
27603632 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
27603654 AATGAGTAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 25 0.21
39 19 0.16
40 67 0.55
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:27603606 original size:78 final size:80
Alignment explanation
Indices: 27603474--27603651 Score: 220
Period size: 78 Copynumber: 2.2 Consensus size: 80
27603464 ATGATGTCCA
*
27603474 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
* *
27603539 GACTTACTA-ATTCCG
66 AACTTACTATA-ACCG
* * * **
27603554 GGCTAAGT-CCGAAGGCATTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTG
*
27603616 CAAGTTACTATAACCG
65 CAACTTACTATAACCG
*
27603632 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
27603652 TGAATGAGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 50 0.59
79 26 0.31
80 8 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
AACTTACTATAACCG
Found at i:27605059 original size:65 final size:64
Alignment explanation
Indices: 27604979--27605103 Score: 214
Period size: 65 Copynumber: 1.9 Consensus size: 64
27604969 AGTGGATTAA
*
27604979 GCCCGTTAACCCCTCGTGTCTGACTCCGGCAACGGTCTCAGGTACGGGGTGTTACAGTTTTATTG
1 GCCCGTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCAGGTACGGGGTGTTACA-TTTTATTG
* *
27605044 GCCCGTTAACCCCTCGTGTCCGACTTCGGCAACGGTCTCGGGTACGGGGTGTTACATTTT
1 GCCCGTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCAGGTACGGGGTGTTACATTTT
27605104 GCATCTTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 4 0.07
65 53 0.93
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.29
Consensus pattern (64 bp):
GCCCGTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCAGGTACGGGGTGTTACATTTTATTG
Found at i:27605394 original size:31 final size:31
Alignment explanation
Indices: 27605347--27605416 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
27605337 CTTAAGTACC
*
27605347 AAGCATTTCCATAAATCATATCACTGGGCCG
1 AAGCCTTTCCATAAATCATATCACTGGGCCG
* *
27605378 AAGCCTTTTCATAAATCATATCACTGGGCTG
1 AAGCCTTTCCATAAATCATATCACTGGGCCG
27605409 AAGCCTTT
1 AAGCCTTT
27605417 ACTGTAAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (31 bp):
AAGCCTTTCCATAAATCATATCACTGGGCCG
Found at i:27605487 original size:42 final size:42
Alignment explanation
Indices: 27605440--27605524 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
27605430 TGGCCCTTAG
* *
27605440 GCCCATTTCAATATCATATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
27605482 GCCCATTTCAATATCGCATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
27605524 G
1 G
27605525 ATCATTTGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:27606664 original size:27 final size:26
Alignment explanation
Indices: 27606635--27606728 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 26
27606625 ATCTACAAAC
27606635 CAAGGGTATTTC-AGTAATTTTGTAAT
1 CAAGGGTATTTCTA-TAATTTTGTAAT
* *
27606661 CCAATGGTATTTCTATAATTTTTAGAAAGT
1 -CAAGGGTATTTCTATAA-TTTT-GTAA-T
27606691 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCTATAATTTTGT-AAT
*
27606718 CAGGGGTATTT
1 CAAGGGTATTT
27606729 TGGTAACTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 26 0.46
28 11 0.19
29 19 0.33
30 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (26 bp):
CAAGGGTATTTCTATAATTTTGTAAT
Found at i:27606744 original size:27 final size:27
Alignment explanation
Indices: 27606719--27606817 Score: 155
Period size: 27 Copynumber: 3.7 Consensus size: 27
27606709 TTTGTAAATC
*
27606719 AGGGGTATTTTGGTAACTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
27606745 TGAGGGTATTTCGGTAATTTTACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
27606773 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
27606800 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
27606818 CTATCCTACA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.02
27 63 0.95
28 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:27606777 original size:54 final size:53
Alignment explanation
Indices: 27606693--27606817 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 53
27606683 TAGAAAGTCA
** ** *
27606693 AGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAACTTTACAAATT
1 AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAACTTTACAAACT
*
27606746 GAGGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAACTTTACAAACT
*
27606800 AGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATT
27606818 CTATCCTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.03
54 60 0.97
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAACTTTACAAACT
Found at i:27606831 original size:54 final size:53
Alignment explanation
Indices: 27606718--27606859 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 53
27606708 TTTTGTAAAT
* * *
27606718 CAGGGGTATTTTGGTAACTTTACAAATTGAGGGTATTTCGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAA
* **
27606771 CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCTATCCTA
1 C-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTCTA-CAAA
** * *
27606826 CAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTA
27606860 AAATGATAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
52 2 0.03
53 8 0.11
54 60 0.80
55 5 0.07
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.37
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAA
Found at i:27606857 original size:27 final size:26
Alignment explanation
Indices: 27606715--27606857 Score: 96
Period size: 27 Copynumber: 5.3 Consensus size: 26
27606705 TAATTTTGTA
27606715 AATCAGGGGTATTTTGGTAACTTT-AC
1 AATCAGGGGTATTTTGGTAA-TTTCAC
* * *
27606741 AAAT-TGAGGGTATTTCGGTAATTTTAC
1 -AATCAG-GGGTATTTTGGTAATTTCAC
* *
27606768 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATC-AGGGGTATTTTGGTAATTTCAC
*
27606795 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTTGGTAATTTC-A-C
* **
27606823 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTTGGTAATTTCAC
27606849 AATCGAGGG
1 AATC-AGGG
27606858 TAAAATGATA
Statistics
Matches: 95, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
26 10 0.11
27 79 0.83
28 6 0.06
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (26 bp):
AATCAGGGGTATTTTGGTAATTTCAC
Found at i:27606869 original size:26 final size:26
Alignment explanation
Indices: 27606840--27606898 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
27606830 GGTATTTCAG
*
27606840 TAATTT-CACAATCGAGGGTAAAATGA
1 TAATTTGCAAAAT-GAGGGTAAAATGA
* *
27606866 TAATTTTGTAAAATGAGGGTAAAATGG
1 TAA-TTTGCAAAATGAGGGTAAAATGA
27606893 TAATTT
1 TAATTT
27606899 TGTAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.21
27 18 0.64
28 4 0.14
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (26 bp):
TAATTTGCAAAATGAGGGTAAAATGA
Found at i:27606883 original size:27 final size:27
Alignment explanation
Indices: 27606849--27606951 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 27
27606839 GTAATTTCAC
* *
27606849 AATCGAGGGTAAAATGATAATTTTGTAA
1 AATCAAGGGTAAAATGGTAATTTTGT-A
*
27606877 AAT-GAGGGTAAAATGGTAATTTTGTA
1 AATCAAGGGTAAAATGGTAATTTTGTA
* *
27606903 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAATGGTAATTTTGTA
27606930 AATCAAGGGTAAAATGGTAATT
1 AATCAAGGGTAAAATGGTAATT
27606952 CTACAAATCG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 4 0.06
27 62 0.90
28 3 0.04
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCAAGGGTAAAATGGTAATTTTGTA
Found at i:27606960 original size:54 final size:54
Alignment explanation
Indices: 27606849--27606965 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
27606839 GTAATTTCAC
* * * * **
27606849 AATCGAGGGTAAAATGATAATTTTGTAAAATGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAAATAAGGGTAAAATGGTAATTCTACA
* *
27606903 AATCAAGGGTAAAACGGTAATTCTGT-AAATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGATAATTCTGTAAAAT-AAGGGTAAAATGGTAATTCTACA
27606957 AATCGAGGG
1 AATCGAGGG
27606966 CATTTCAGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.08
54 49 0.92
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTCTGTAAAATAAGGGTAAAATGGTAATTCTACA
Found at i:27606965 original size:27 final size:27
Alignment explanation
Indices: 27606849--27606965 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
27606839 GTAATTTCAC
* * *
27606849 AATCGAGGGTAAAATGATAATTTTGTAA
1 AATCGAGGGTAAAATGGTAATTCTAT-A
* *
27606877 AAT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
27606903 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
27606930 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
27606957 AATCGAGGG
1 AATCGAGGG
27606966 CATTTCAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.05
27 73 0.91
28 3 0.04
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:27609260 original size:31 final size:31
Alignment explanation
Indices: 27609217--27609424 Score: 366
Period size: 31 Copynumber: 6.7 Consensus size: 31
27609207 TTAGTCTTGA
*
27609217 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
27609247 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
27609278 CATATCACTGGGCCGAA-CCTTTTTCATAAAT
1 CATATCACTGGGCCGAAGCC-TTTTCATAAAT
*
27609309 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
27609340 CATATCACTGGCCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
27609371 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
27609402 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
27609425 ACTGTAAAAG
Statistics
Matches: 170, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.04
31 161 0.95
32 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:27609496 original size:42 final size:42
Alignment explanation
Indices: 27609448--27609539 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
27609438 TGGCCCTTAG
* * *
27609448 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGAAAGCAA
*
27609490 GGCCATTTCAATATCACATGTAATGTCAATGAATGAAAGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGAAAGCAA
27609532 GCCCATTT
1 GCCCATTT
27609540 TGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGAAAGCAA
Found at i:27609715 original size:25 final size:25
Alignment explanation
Indices: 27609687--27609756 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
27609677 CTCTTTTAAT
27609687 AACTGGGGCAAAG-CCTTTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
27609712 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
27609737 AACTCGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27609757 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 34 0.83
26 7 0.17
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27610594 original size:27 final size:27
Alignment explanation
Indices: 27610564--27610628 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
27610554 GGGCATATTC
27610564 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
27610591 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
27610618 GTCTTTTTACC
1 GTCATTTTACC
27610629 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:27610719 original size:27 final size:27
Alignment explanation
Indices: 27610681--27610776 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
27610671 GCAAATCTAC
27610681 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
27610708 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
27610734 AAAAGTCAAGGGTATTTCTATAATTTTGT
1 -AAA-CCAAGGGTATTTCTATAATTTTGT
*
27610763 AAATC-AGGGTATTT
1 AAACCAAGGGTATTT
27610777 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.16
27 26 0.42
28 25 0.40
29 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:27610748 original size:28 final size:27
Alignment explanation
Indices: 27610685--27610776 Score: 118
Period size: 28 Copynumber: 3.4 Consensus size: 27
27610675 ATCTACAAAC
*
27610685 CAAGGGTATTT-TAGTAATTTTGTAAAC
1 CAAGGGTATTTCTA-TAATTTTGTAAAT
*
27610712 CAATGGTATTTCTATAATTTT-TAAAAGT
1 CAAGGGTATTTCTATAATTTTGT-AAA-T
27610740 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCTATAATTTTGTAAAT
27610767 C-AGGGTATTT
1 CAAGGGTATTT
27610777 TGGTAATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
26 10 0.17
27 22 0.38
28 25 0.43
29 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTGTAAAT
Found at i:27610808 original size:27 final size:26
Alignment explanation
Indices: 27610742--27610891 Score: 167
Period size: 27 Copynumber: 5.7 Consensus size: 26
27610732 TTAAAAGTCA
** **
27610742 AGGGTATTTCTATAATTTTGTAAA-T
1 AGGGTATTTCGGTAATTTTACAAACT
* *
27610767 CAGGGTATTTTGGTAATTTTACAAATT
1 -AGGGTATTTCGGTAATTTTACAAACT
*
27610794 GAGGGTATTTCGGTAATTTCACAAACT
1 -AGGGTATTTCGGTAATTTTACAAACT
*
27610821 AGTGGTATTTCAGTAATTTTACAAACT
1 AG-GGTATTTCGGTAATTTTACAAACT
*
27610848 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTCGGTAATTTTACAAACT
*
27610875 AGGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
27610892 CTATCCTATA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 37 0.34
27 70 0.65
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAAACT
Found at i:27610828 original size:54 final size:53
Alignment explanation
Indices: 27610768--27610960 Score: 183
Period size: 53 Copynumber: 3.6 Consensus size: 53
27610758 TTTGTAAATC
27610768 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACT
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACT
** * * *
27610821 AGTGGTATTTCAGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACT
* ** * * * *
27610875 AGGGTATTTTGGTAATTCTATCCTATAG-GGGTATTTCAGTAATTTCACAATCG
1 AGGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCGGTAATTTCACAAACT
*** * **
27610928 AGGGTAAAATAGTAATTTTGTAAATTGAGGGTA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTA
27610961 AAATGGTAAT
Statistics
Matches: 108, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
52 3 0.03
53 57 0.53
54 48 0.44
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACT
Found at i:27610904 original size:53 final size:52
Alignment explanation
Indices: 27610768--27610933 Score: 197
Period size: 54 Copynumber: 3.1 Consensus size: 52
27610758 TTTGTAAATC
*
27610768 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACT
1 AGGGTATTTTGGTAATTTTACAAATAG-GGGTATTTCGGTAATTTCACAAACT
** * *
27610821 AGTGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAA-TAGGGGTATTTCGGTAATTTCACAAACT
* ** * * *
27610875 AGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCAGTAATTTCACAATCG
1 AGGGTATTTTGGTAATTTTA-CAAATAGGGGTATTTCGGTAATTTCACAAACT
27610928 AGGGTA
1 AGGGTA
27610934 AAATAGTAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 46 0.48
54 47 0.49
55 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (52 bp):
AGGGTATTTTGGTAATTTTACAAATAGGGGTATTTCGGTAATTTCACAAACT
Found at i:27610908 original size:80 final size:81
Alignment explanation
Indices: 27610769--27610924 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 81
27610759 TTGTAAATCA
* *
27610769 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCAG
*
27610834 TAATTTTACAAACTAG
66 TAATTTCACAAACTAG
* **
27610850 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAA-TTCTATCCTA-TAGGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTC-A-CAAACTAGGGGTATTTC
27610912 AGTAATTTCACAA
64 AGTAATTTCACAA
27610925 TCGAGGGTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 3 0.04
80 38 0.57
81 26 0.39
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:27610931 original size:27 final size:27
Alignment explanation
Indices: 27610769--27610924 Score: 149
Period size: 27 Copynumber: 5.8 Consensus size: 27
27610759 TTGTAAATCA
* * *
27610769 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTCGGTAATTTCACAAACTAG
27610795 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTCGGTAATTTCACAAACTAG
* * *
27610823 TGGTATTTCAGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
27610850 GGGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTCGGTAATTTCACAAACTAG
* **
27610876 GGGTATTTTGGTAA-TTCTATCCTA-TAG
1 GGGTATTTCGGTAATTTC-A-CAAACTAG
*
27610903 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
27610925 TCGAGGGTAA
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.02
26 18 0.17
27 83 0.77
28 5 0.05
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:27610957 original size:27 final size:27
Alignment explanation
Indices: 27610923--27611120 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
27610913 GTAATTTCAC
* *
27610923 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
27610950 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
***
27610977 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
27611004 AATCGAGGGTAAAATGCTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
27611031 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
27611058 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
27611085 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
27611112 AATCGAGGG
1 AATCGAGGG
27611121 CATTTCAGTA
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:27610959 original size:80 final size:81
Alignment explanation
Indices: 27610779--27610960 Score: 192
Period size: 80 Copynumber: 2.3 Consensus size: 81
27610769 GGGTATTTTG
* *
27610779 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCAGTAATTTTACA
1 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCAGTAATTTCACA
* *** *
27610844 AACTAGGGGTATTTTG
66 AACGAGGGGTAAAATA
* * **
27610860 GTAATTTTACAAACT-AGGGTATTTTGGTAA-TTCTATCCTA-TAGGGGTATTTCAGTAATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTC-A-CAAACTAGGGGTATTTCAGTAATTTCA
*
27610922 CAATCGA-GGGTAAAATA
64 CAAACGAGGGGTAAAATA
**
27610939 GTAATTTTGTAAATTGAGGGTA
1 GTAATTTTACAAATTGAGGGTA
27610961 AAATGGTAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
79 21 0.25
80 46 0.55
81 16 0.19
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
GTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCAGTAATTTCACA
AACGAGGGGTAAAATA
Found at i:27611033 original size:81 final size:80
Alignment explanation
Indices: 27610923--27611120 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 80
27610913 GTAATTTCAC
* * * * *
27610923 AATCGAGGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAAT-GTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
*
27610988 AAACAATAATTCTGTA
65 AAACAATAATTCTATA
*
27611004 AATCGAGGGTAAAATGCTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATG-TAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
**
27611069 AAACGGTAATTCTATA
65 AAACAATAATTCTATA
*
27611085 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAAT-GTAATTCTATAAATCGAGGG
27611121 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 103 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (80 bp):
AATCGAGGGTAAAATGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAA
AACAATAATTCTATA
Found at i:27614540 original size:40 final size:40
Alignment explanation
Indices: 27614495--27614662 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
27614485 CGGAATATAA
27614495 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
27614535 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
27614575 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
27614615 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
27614655 CCGGATAT
1 CCGGATAT
27614663 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:27617761 original size:10 final size:10
Alignment explanation
Indices: 27617746--27617771 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27617736 CACAACTTTA
27617746 ATCATACATC
1 ATCATACATC
27617756 ATCATACATC
1 ATCATACATC
27617766 ATCATA
1 ATCATA
27617772 TCATAGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (10 bp):
ATCATACATC
Found at i:27624762 original size:23 final size:24
Alignment explanation
Indices: 27624735--27624779 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27624725 TTTCACAAGC
*
27624735 TTATTCAATTCA-ATTTTCATACA
1 TTATTCAATTCACACTTTCATACA
27624758 TTATTCAATTCACACTTTCATA
1 TTATTCAATTCACACTTTCATA
27624780 TAATCAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTCAATTCACACTTTCATACA
Found at i:27625256 original size:42 final size:42
Alignment explanation
Indices: 27625159--27625315 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 42
27625149 CCAACATCTT
* * * * * *
27625159 AGACATGGTCTTACATGTAATCAAACATTAATGCTACTGTCCC
1 AGACATGGTCTTACACGAAATCAAATA-TGATGCCAATGTCCC
* * *
27625202 AGATAGGGTCTTACACGAAATCAAATATGATGGCAATGTCCC
1 AGACATGGTCTTACACGAAATCAAATATGATGCCAATGTCCC
* * * *
27625244 AGACATGATCTTACACGTAAATCATAAGT-CGATGCCAACGTTCC
1 AGACATGGTCTTACACG-AAATCA-AA-TATGATGCCAATGTCCC
* *
27625288 AGACATGGTCTTACATGAAATCACATAT
1 AGACATGGTCTTACACGAAATCAAATAT
27625316 TGGATCCTAT
Statistics
Matches: 90, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 34 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATATGATGCCAATGTCCC
Found at i:27625478 original size:2 final size:2
Alignment explanation
Indices: 27625471--27625496 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27625461 TTCAAAATAC
27625471 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27625497 CTTACCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27633702 original size:24 final size:24
Alignment explanation
Indices: 27633629--27633696 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
27633619 CTTATTATGT
*
27633629 TCGCACACATAGTGCCATGGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27633653 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
27633677 TCGCACACTTAGTGCAATAG
1 TCGCACACATAGTGCCATAG
27633697 AGAATCCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:27641629 original size:24 final size:24
Alignment explanation
Indices: 27641556--27641623 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
27641546 CTTATTATGT
*
27641556 TCGCACACATAGTGCCATGGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27641580 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
27641604 TCGCACACTTAGTGCAATAG
1 TCGCACACATAGTGCCATAG
27641624 AGAATCCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:27652814 original size:29 final size:29
Alignment explanation
Indices: 27652780--27652940 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
27652770 TACTCGATTT
** * *
27652780 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
27652809 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
27652838 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
27652867 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27652896 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27652925 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27652941 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:27660312 original size:29 final size:29
Alignment explanation
Indices: 27660278--27660438 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
27660268 TACTCGATTT
** * *
27660278 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
27660307 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
27660336 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
27660365 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27660394 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27660423 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27660439 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:27675847 original size:86 final size:85
Alignment explanation
Indices: 27675705--27675862 Score: 192
Period size: 86 Copynumber: 1.8 Consensus size: 85
27675695 ATAAGCTCAT
* * * * * * * * * *
27675705 ACAATGCCATATCCCAGATATGGTCTTATATGTTATCACATATCAATGTCACTGTCCCAGACA-G
1 ACAATGCCATATCACAAACATGGTCTTACACGTAATCACAAATCAATGCCAATGTCCCAAACATG
27675769 GATCTTACTCAAAATCGATAG
66 G-TCTTACTCAAAATCGATAG
*
27675790 ACAATGCCAATATCACAAACATGGTCTTACACGTAATCTCAAATCAATGCCAATGTCCCAAACAT
1 ACAATGCC-ATATCACAAACATGGTCTTACACGTAATCACAAATCAATGCCAATGTCCCAAACAT
27675855 GGTCTTAC
65 GGTCTTAC
27675863 ATGTAATCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 8 0.13
86 50 0.83
87 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (85 bp):
ACAATGCCATATCACAAACATGGTCTTACACGTAATCACAAATCAATGCCAATGTCCCAAACATG
GTCTTACTCAAAATCGATAG
Found at i:27681706 original size:40 final size:39
Alignment explanation
Indices: 27681596--27681739 Score: 198
Period size: 39 Copynumber: 3.6 Consensus size: 39
27681586 AATGTTCAAA
*
27681596 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
27681635 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
* * * *
27681674 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG
* * *
27681714 TCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
27681740 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 53 0.56
40 42 0.44
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
Found at i:27681766 original size:79 final size:78
Alignment explanation
Indices: 27681596--27681767 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 78
27681586 AATGTTCAAA
* * * *
27681596 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGTTAAGCCCAAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGCCCGAAGGCA
** *
27681661 ATTGTGCGAGTTG
66 ATTGAACGAGTAG
* * * *
27681674 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGTTAAG-CCCAAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAG-CCCGAAGG
**
27681739 CGTTTGAACGAGTAG
64 CAATTGAACGAGTAG
27681754 CT-ATATCC-GGTTAA
1 -TGATATCCGGGTTAA
27681768 ACTCCGACGG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 15 0.19
79 38 0.49
80 24 0.31
81 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (78 bp):
TGATATCCGGGTTAAGCCCAAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGCCCGAAGGCA
ATTGAACGAGTAG
Found at i:27685294 original size:34 final size:33
Alignment explanation
Indices: 27685256--27685320 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
27685246 GTAGCAGTAA
*
27685256 CAGTCTGGGCCTGAGCCCATTACAGTATCAGTGG
1 CAGTCTAGGCCTGAGCCCATTACAGTA-CAGTGG
* *
27685290 CAGTCTAGGCCTTAGCCCATTTCAGTACAGT
1 CAGTCTAGGCCTGAGCCCATTACAGTACAGT
27685321 ATGCAAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (33 bp):
CAGTCTAGGCCTGAGCCCATTACAGTACAGTGG
Found at i:27686040 original size:16 final size:16
Alignment explanation
Indices: 27686001--27686043 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
27685991 TCGTCAACCC
27686001 ACTTTTCTAGCTTTTCA
1 ACTTTTC-AGCTTTTCA
* *
27686018 ACCTTTCAGCTTTTCG
1 ACTTTTCAGCTTTTCA
*
27686034 GCTTTTCAGC
1 ACTTTTCAGC
27686044 CTTCGCAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.14, C:0.28, G:0.12, T:0.47
Consensus pattern (16 bp):
ACTTTTCAGCTTTTCA
Found at i:27688284 original size:18 final size:18
Alignment explanation
Indices: 27688261--27688323 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
27688251 GAACACATAA
27688261 AGTAAGCTTTAAAAGCTT
1 AGTAAGCTTTAAAAGCTT
* *
27688279 AGTAAGCAATATACAAA--TAA
1 AGTAAGC--TTTA-AAAGCT-T
27688299 AGTAAGCTTTAAAAGCTT
1 AGTAAGCTTTAAAAGCTT
27688317 AGTAAGC
1 AGTAAGC
27688324 CATATACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
17 3 0.09
18 17 0.49
19 2 0.06
20 10 0.29
21 3 0.09
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AGTAAGCTTTAAAAGCTT
Found at i:27688308 original size:38 final size:38
Alignment explanation
Indices: 27688257--27688339 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
27688247 GAAAGAACAC
27688257 ATAAAGTAAGCTTTAAAAGCTTAGTAAGCAATATACAA
1 ATAAAGTAAGCTTTAAAAGCTTAGTAAGCAATATACAA
*
27688295 ATAAAGTAAGCTTTAAAAGCTTAGTAAGCCATATACAA
1 ATAAAGTAAGCTTTAAAAGCTTAGTAAGCAATATACAA
27688333 ATAAAGT
1 ATAAAGT
27688340 CATCATATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (38 bp):
ATAAAGTAAGCTTTAAAAGCTTAGTAAGCAATATACAA
Found at i:27689299 original size:28 final size:29
Alignment explanation
Indices: 27689246--27689300 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
27689236 ATTTATTTTA
*
27689246 CAATTTAACCCCTCAATTTACATTTTTCT
1 CAATTTAACCCCTCAATTGACATTTTTCT
* *
27689275 CAATTTAATCCCT-AATTGACCTTTTT
1 CAATTTAACCCCTCAATTGACATTTTT
27689301 GTGAAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.45
Consensus pattern (29 bp):
CAATTTAACCCCTCAATTGACATTTTTCT
Found at i:27698018 original size:17 final size:19
Alignment explanation
Indices: 27697976--27698019 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27697966 ATGAAATTTT
*
27697976 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
27697995 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
27698013 AA-TATTA
1 AATTATTA
27698020 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:27698781 original size:51 final size:51
Alignment explanation
Indices: 27698717--27698832 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
27698707 ATGGAAACAT
** * * *
27698717 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
* * * ** *
27698768 GATATTATTTTATAAGATTACATATCTTATCTAAGATATGTAATCTTAGAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
27698819 GATATGATATTATA
1 GATATGATATTATA
27698833 TTTGGTAGTA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
Found at i:27701585 original size:51 final size:51
Alignment explanation
Indices: 27701521--27701636 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
27701511 ATGGAAACAT
** * * *
27701521 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
* * * ** *
27701572 GATATTATTTTATAAGATTACATATCTTATCTAAGATATGTAATCTTAGAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
27701623 GATATGATATTATA
1 GATATGATATTATA
27701637 TTTGGTAGTA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
Found at i:27703340 original size:28 final size:28
Alignment explanation
Indices: 27703308--27703376 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
27703298 GCGTAGATCA
27703308 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27703336 CGAAATTACCCATAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27703364 CGATA-TACCCCTA
1 CGAAATTACCCCTA
27703377 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:27705131 original size:42 final size:43
Alignment explanation
Indices: 27705037--27705143 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 43
27705027 CAATGCCAAC
* *
27705037 GTCCTAGAC-GTGGTCTTACATC-TAATCAAATATTGATGCCATT
1 GTCCTAGACAG-GGTCTTACA-CGAAATCAAATATAGATGCCATT
*
27705080 GTCCCAGACAGGGTCTTACACGAAATCAAATA-AGATGCCGA-T
1 GTCCTAGACAGGGTCTTACACGAAATCAAATATAGATGCC-ATT
**
27705122 GTCCTAGACATAGTCTTACACG
1 GTCCTAGACAGGGTCTTACACG
27705144 TAGATCTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 27 0.49
43 27 0.49
44 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCTAGACAGGGTCTTACACGAAATCAAATATAGATGCCATT
Found at i:27711556 original size:42 final size:42
Alignment explanation
Indices: 27711452--27711619 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 42
27711442 CAGAAAGTAC
* * * * *
27711452 ATACAATGCCAACATCCCAGACATGGTCATACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
* *
27711494 ACATCGATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAA
*
27711537 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-A
*
27711581 AGT-CGATGCCAACGTCCCAGACATAGTCTTACACGAAAT
1 A-TACGATGCCAACGTCCCAGACATGGTCTTACACGAAAT
27711620 TACATATTGG
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
42 32 0.30
43 43 0.40
44 32 0.30
45 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.21
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:27711601 original size:86 final size:85
Alignment explanation
Indices: 27711452--27711619 Score: 223
Period size: 86 Copynumber: 2.0 Consensus size: 85
27711442 CAGAAAGTAC
*
27711452 ATACAATGCCAACATCCCAGACATGGTCATACATGTAATCAAACATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACATCCCAGACATGGTCATACACGTAATCAAACATCGATGCCACTGTCCCAGAC
*
27711517 AGGGTCTTACACGAAATCAA
66 AGAGTCTTACACGAAATCAA
* ** * *
27711537 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACATCCCAGACATGGTCATACACGT-AATCA-AACATCGATGCC-ACTGTCCCA
*
27711600 GACATAGTCTTACACGAAAT
63 GACAGAGTCTTACACGAAAT
27711620 TACATATTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 31 0.43
86 37 0.51
87 4 0.06
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.21
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACATGGTCATACACGTAATCAAACATCGATGCCACTGTCCCAGAC
AGAGTCTTACACGAAATCAA
Found at i:27720648 original size:40 final size:40
Alignment explanation
Indices: 27720589--27720730 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
27720579 AAATTGAATG
* * *
27720589 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
27720629 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
27720669 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
27720709 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
27720731 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:27720731 original size:40 final size:39
Alignment explanation
Indices: 27720628--27720756 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
27720618 TGCTGGAAAT
* * *
27720628 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
27720668 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
27720708 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
27720748 TATATCCGG
1 TATATCCGG
27720757 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:27728674 original size:40 final size:40
Alignment explanation
Indices: 27728615--27728756 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
27728605 AAATTGAATG
* * *
27728615 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
27728655 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
27728695 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
27728735 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
27728757 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:27728757 original size:40 final size:39
Alignment explanation
Indices: 27728654--27728782 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
27728644 TGCTGGAAAT
* * *
27728654 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
27728694 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
27728734 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
27728774 TATATCCGG
1 TATATCCGG
27728783 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:27748420 original size:29 final size:28
Alignment explanation
Indices: 27748382--27748484 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
27748372 GTGACGAGAT
* *
27748382 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
27748411 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
27748440 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
27748469 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27748485 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:27751484 original size:29 final size:29
Alignment explanation
Indices: 27751291--27751483 Score: 314
Period size: 29 Copynumber: 6.7 Consensus size: 29
27751281 GCTTGGAAGG
27751291 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
27751320 TATGGCACAAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
27751349 TATGGCACTAAGTGTGAGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
27751378 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
27751407 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
27751436 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
27751465 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
27751484 GATCATTTAT
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 152 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:27762458 original size:29 final size:29
Alignment explanation
Indices: 27762299--27762457 Score: 264
Period size: 29 Copynumber: 5.5 Consensus size: 29
27762289 GGACGTTACA
27762299 CACTAAGTGTGCGAACTTAAATTATATGG
1 CACTAAGTGTGCGAACTTAAATTATATGG
27762328 CACTAAGTGTGCGAACTTAAATTATATGG
1 CACTAAGTGTGCGAACTTAAATTATATGG
27762357 CACTAAGTGTGCGAACTTAAATTATATGG
1 CACTAAGTGTGCGAACTTAAATTATATGG
*
27762386 CACTAAGTGTGCAAACTTAAATTATATGG
1 CACTAAGTGTGCGAACTTAAATTATATGG
* * ***
27762415 CACTATGTGTGCGAGCTTAAATCGCATGG
1 CACTAAGTGTGCGAACTTAAATTATATGG
27762444 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
27762458 GATCGTTTAT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 122 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (29 bp):
CACTAAGTGTGCGAACTTAAATTATATGG
Found at i:27771045 original size:21 final size:21
Alignment explanation
Indices: 27771007--27771046 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27770997 TATTTATGCA
*
27771007 TTGATTGTTTAAACTTTAAGG
1 TTGATTGTTTAAAATTTAAGG
27771028 TTGATT-TTTAAGAATTTAA
1 TTGATTGTTTAA-AATTTAA
27771047 AGTTTTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (21 bp):
TTGATTGTTTAAAATTTAAGG
Found at i:27779345 original size:42 final size:42
Alignment explanation
Indices: 27779232--27779386 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
27779222 TACCACACCA
* ** *
27779232 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * * *
27779274 ATGCTAGTAGCCCA-ACTATGATTTTACACGAAATCTTATATCG
1 ATGCCA-TATCCCAGA-TATGGTCTTACACGAAATCTCATATCG
* *
27779317 ATGCCATATCCTAGATATGGTTTTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCG
* *
27779359 ATGTCATATCCCAGTTATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
27779387 ATAGTCTCAC
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 57 0.63
43 34 0.37
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:27782764 original size:29 final size:29
Alignment explanation
Indices: 27782730--27782805 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
27782720 TACTCGATTT
* * *
27782730 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
27782759 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
27782788 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
27782806 TATTTCCAGC
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:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:27782821 original size:29 final size:29
Alignment explanation
Indices: 27782789--27782944 Score: 266
Period size: 29 Copynumber: 5.5 Consensus size: 29
27782779 CTTCGAGCTC
27782789 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
27782818 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27782847 G--CACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27782874 GCACACTTAGTGCC--ATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27782901 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27782930 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27782945 ATCTCGTCAC
Statistics
Matches: 119, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
27 52 0.44
29 67 0.56
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:27782859 original size:56 final size:55
Alignment explanation
Indices: 27782791--27782944 Score: 265
Period size: 56 Copynumber: 2.8 Consensus size: 55
27782781 TCGAGCTCGC
*
27782791 ACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCATG
1 ACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATA--TTTCCAGCATG
27782848 -CACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATTTCCAGCATG
1 ACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATTTCCAGCATG
27782902 CACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 -ACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
27782945 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
54 11 0.12
56 83 0.88
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (55 bp):
ACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATTTCCAGCATG
Found at i:27790651 original size:29 final size:29
Alignment explanation
Indices: 27790617--27790777 Score: 85
Period size: 29 Copynumber: 5.6 Consensus size: 29
27790607 TACTCGATTT
* * *
27790617 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
27790646 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
27790675 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * * *
27790704 TGCACACTCAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
27790733 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
27790762 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27790778 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
29 114 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:27790709 original size:58 final size:59
Alignment explanation
Indices: 27790616--27790777 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
27790606 ATACTCGATT
** * ** * * *
27790616 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTCAGTGCCATACACTTCCAGCA
* *
27790674 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACACTTCCAGCA
*
27790733 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCA
27790778 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACACTTCCAGCA
Found at i:27793410 original size:13 final size:13
Alignment explanation
Indices: 27793392--27793416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27793382 CCTGACACAC
27793392 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
27793405 GCCCGTGTCCTT
1 GCCCGTGTCCTT
27793417 CACATGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:27794528 original size:49 final size:49
Alignment explanation
Indices: 27794455--27794630 Score: 186
Period size: 49 Copynumber: 3.6 Consensus size: 49
27794445 AAATGCCGAC
* *
27794455 GCCATGTCCTAGACATGGTCTTACACTAGCTTCCATATAGCGAGGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAGCTTCCATCTAGCGAGGTCGAT
* *
27794505 GCCATGTCCCAGATAGGTCTTACACTTA-C-TCTCATCTATC-AGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACAC-TAGCTTC-CATCTAGCGAG-GTCGAT
*
27794554 GCCATGTCCCAGACAGATCTTACACTAGCTT--ATCTACCGCGAGG-CTGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTTCCATCTA--GCGAGGTC-GAT
*
27794603 G-CATGTCCCAGACATGTCTTACACTAGC
1 GCCATGTCCCAGACAGGTCTTACACTAGC
27794631 ATACATATCA
Statistics
Matches: 108, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
47 5 0.05
48 32 0.30
49 53 0.49
50 18 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTTCCATCTAGCGAGGTCGAT
Found at i:27800847 original size:20 final size:21
Alignment explanation
Indices: 27800822--27800861 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27800812 CACTTGAAGC
27800822 AGGGC-ACATGCCAGTGTGGA
1 AGGGCAACATGCCAGTGTGGA
*
27800842 AGGGCAACATGCCCGTGTGG
1 AGGGCAACATGCCAGTGTGG
27800862 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCAGTGTGGA
Found at i:27803706 original size:27 final size:27
Alignment explanation
Indices: 27803648--27803737 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
27803638 AGGAAGCGTC
27803648 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
27803676 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
27803703 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
27803732 CTGGTG
1 CTGGTG
27803738 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:27803756 original size:55 final size:56
Alignment explanation
Indices: 27803648--27803762 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
27803638 AGGAAGCGTC
* *
27803648 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
27803703 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
27803759 CTGG
1 CTGG
27803763 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:27804839 original size:11 final size:10
Alignment explanation
Indices: 27804811--27804844 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
27804801 AGCCTGTAAG
27804811 TATTCTGAAT
1 TATTCTGAAT
*
27804821 TTTTCTGAAT
1 TATTCTGAAT
27804831 ATATTCTGAAT
1 -TATTCTGAAT
27804842 TAT
1 TAT
27804845 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:27811042 original size:16 final size:15
Alignment explanation
Indices: 27811016--27811048 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
27811006 GCTAGATCGG
27811016 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
27811031 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
27811047 CA
1 CA
27811049 GTATTTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.52, C:0.27, G:0.18, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:27811484 original size:27 final size:28
Alignment explanation
Indices: 27811437--27811514 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
27811427 GGTGGCTATG
* * *
27811437 CCACAAATTATCTGTTTTGGTGGCCCTA
1 CCACAAAATATCTGTTCTGGTGGCACTA
* *
27811465 CCAC-ATATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGGCACTA
27811492 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
27811515 ACTCTGTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 22 0.52
28 13 0.31
29 7 0.17
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTA
Found at i:27811525 original size:29 final size:28
Alignment explanation
Indices: 27811435--27811525 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
27811425 CTGGTGGCTA
* * * *
27811435 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* * *
27811463 TACCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
27811490 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
27811519 TGTCACA
1 TGCCACA
27811526 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:27811533 original size:55 final size:56
Alignment explanation
Indices: 27811425--27811539 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
27811415 AGGAAGCGTC
* * *
27811425 CTGGTGGCTATGCCACAAATTATCTGTTTTGGTGGCCCTACCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTGTAT
* ** *
27811480 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTACCACATATATCTGTAT
27811536 CTGG
1 CTGG
27811540 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTGTAT
Found at i:27812778 original size:49 final size:49
Alignment explanation
Indices: 27812699--27812824 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
27812689 AGATATCGAC
* *
27812699 GCCATGTCCCAGACATGGTCTTACACTGGCTTTGATATAGCGAG-GCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGC-AGTGCCGAT
* * * * *
27812749 GCCATGTCCTAGACAGGTCTTATACTGGCTCTCATTTATCAGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGCCGAT
*
27812798 GTCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
27812825 ACACACGACA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.03
49 49 0.75
50 14 0.22
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGCCGAT
Found at i:27812994 original size:48 final size:46
Alignment explanation
Indices: 27812844--27813012 Score: 169
Period size: 48 Copynumber: 3.6 Consensus size: 46
27812834 AAGCTGACAC
* * * * * * *
27812844 CATGTCCCAGACAGGTCTTACACAAGCTTGTCTACCGCGAGGCTGATA
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-TATCTCGAGGCCGATG
* * * * *
27812892 CATGTCCCAGAAATGTCTTACACTAGCTCTTGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTTATCTCGAGGCCGATG
*
27812938 CATGTCCCAGACATGTCTTACACTGGC-CTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT---TATCTCGAGGCCGATG
27812986 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
27813013 ACACATATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
45 2 0.02
46 33 0.33
47 2 0.02
48 62 0.63
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTTATCTCGAGGCCGATG
Found at i:27815762 original size:13 final size:13
Alignment explanation
Indices: 27815744--27815768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27815734 AAGTAATAGC
27815744 ACACGGGCGTGTT
1 ACACGGGCGTGTT
27815757 ACACGGGCGTGT
1 ACACGGGCGTGT
27815769 CCTTGCAGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:27827698 original size:21 final size:21
Alignment explanation
Indices: 27827672--27827713 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27827662 AAGTTGTAAA
27827672 AATGGTATAAAAGGGTGTTAT
1 AATGGTATAAAAGGGTGTTAT
27827693 AATGGTATAAAAGGGTGTTAT
1 AATGGTATAAAAGGGTGTTAT
27827714 GATGAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (21 bp):
AATGGTATAAAAGGGTGTTAT
Done.