Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 82 of 135
Found at i:27610012 original size:11 final size:10
Alignment explanation
Indices: 27609993--27610081 Score: 98
Period size: 9 Copynumber: 9.2 Consensus size: 10
27609983 TGTAAAATTT
*
27609993 TATAAAAATAA
1 TATAGAAAT-A
*
27610004 TAAAGAAAT-
1 TATAGAAATA
27610013 TATA-AAATA
1 TATAGAAATA
27610022 TATAGAAATA
1 TATAGAAATA
*
27610032 TA-AAAAATA
1 TATAGAAATA
27610041 TATAGAAATTA
1 TATAGAAA-TA
27610052 TATAGAAAT-
1 TATAGAAATA
27610061 TATA-AAATA
1 TATAGAAATA
27610070 TATAGAAATA
1 TATAGAAATA
27610080 TA
1 TA
27610082 AAAAATTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
8 8 0.12
9 23 0.34
10 19 0.28
11 17 0.25
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (10 bp):
TATAGAAATA
Found at i:27610025 original size:29 final size:30
Alignment explanation
Indices: 27609965--27610094 Score: 114
Period size: 29 Copynumber: 4.5 Consensus size: 30
27609955 TTAAATTTTA
* *
27609965 ATAAAAA-AATATAAAAATTGTA-AAATTTT
1 ATAAAAATAATA-AAAAATTATAGAAATTAT
27609994 ATAAAAATAATAAAGAAATTATA-AAA-TAT
1 ATAAAAATAATAAA-AAATTATAGAAATTAT
*
27610023 ATAGAAAT-ATAAAAAATATATAGAAATTAT
1 ATAAAAATAATAAAAAAT-TATAGAAATTAT
* * *
27610053 ATAGAAATTATAAAATA-TATAGAAA-TAT
1 ATAAAAATAATAAAAAATTATAGAAATTAT
*
27610081 A-AAAAATTATAAAA
1 ATAAAAATAATAAAA
27610095 TTTTATAAAG
Statistics
Matches: 90, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
27 16 0.18
28 13 0.14
29 29 0.32
30 25 0.28
31 7 0.08
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (30 bp):
ATAAAAATAATAAAAAATTATAGAAATTAT
Found at i:27610060 original size:48 final size:46
Alignment explanation
Indices: 27609992--27610101 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 46
27609982 TTGTAAAATT
* *
27609992 TTATAAAAATAATAAAGAAATTATAAAATATATAGAAATATAAAAAA
1 TTAT-AAAATTATATAGAAATTATAAAATATATAGAAATATAAAAAA
27610039 TATATAGAAATTATATAGAAATTATAAAATATATAGAAATATAAAAAA
1 T-TATA-AAATTATATAGAAATTATAAAATATATAGAAATATAAAAAA
*
27610087 TTATAAAATTTTATA
1 TTATAAAATTATATA
27610102 AAGTCGTAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
46 9 0.16
47 6 0.10
48 43 0.74
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (46 bp):
TTATAAAATTATATAGAAATTATAAAATATATAGAAATATAAAAAA
Found at i:27610116 original size:48 final size:46
Alignment explanation
Indices: 27609992--27610144 Score: 150
Period size: 48 Copynumber: 3.2 Consensus size: 46
27609982 TTGTAAAATT
* * *
27609992 TTATAAAAATAATAAAGAAATTATAAAATATATAGAAATATAAAAAA
1 TTAT-AAAATTATATAGAAATTAGAAAATATATAGAAATATAAAAAA
*
27610039 TATATAGAAATTATATAGAAATTATAAAATATATAGAAATATAAAAAA
1 T-TATA-AAATTATATAGAAATTAGAAAATATATAGAAATATAAAAAA
* * *
27610087 TTATAAAATTTTATA-AAGTCGTAAGAAAAT-TATACAAAATATAAAGAAA
1 TTATAAAATTATATAGAAAT--T-AGAAAATATATA-GAAATATAAA-AAA
27610136 -TATAAAATT
1 TTATAAAATT
27610145 CTTAAAAAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
45 3 0.03
46 9 0.10
47 11 0.12
48 67 0.72
49 3 0.03
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (46 bp):
TTATAAAATTATATAGAAATTAGAAAATATATAGAAATATAAAAAA
Found at i:27610139 original size:19 final size:19
Alignment explanation
Indices: 27609998--27610095 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
27609988 AATTTTATAA
27609998 AAATAATAAAGAAAT-TATA
1 AAAT-ATAAAGAAATATATA
* *
27610017 AAATATATAGAAATATAAA
1 AAATATAAAGAAATATATA
*
27610036 AAATATATAGAAATTATATA
1 AAATATAAAGAAA-TATATA
*
27610056 GAAAT-TATA-AAATATATA
1 -AAATATAAAGAAATATATA
27610074 GAAATATAAA-AAAT-TATA
1 -AAATATAAAGAAATATATA
27610092 AAAT
1 AAAT
27610096 TTTATAAAGT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
17 4 0.06
18 24 0.34
19 30 0.42
20 9 0.13
21 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATATAAAGAAATATATA
Found at i:27610162 original size:9 final size:9
Alignment explanation
Indices: 27609968--27610168 Score: 83
Period size: 9 Copynumber: 21.1 Consensus size: 9
27609958 AATTTTAATA
*
27609968 AAAAAATAT
1 AAAAATTAT
*
27609977 AAAAATTGT
1 AAAAATTAT
*
27609986 AAAATTTTAT
1 AAAA-ATTAT
*
27609996 AAAAATAAT
1 AAAAATTAT
27610005 AAAGAAATTAT
1 -AA-AAATTAT
27610016 -AAAATATAT
1 AAAAAT-TAT
*
27610025 AGAAA-TAT
1 AAAAATTAT
27610033 AAAAAATATAT
1 -AAAAAT-TAT
*
27610044 AGAAATTAT
1 AAAAATTAT
27610053 ATAGAAATTAT
1 A-A-AAATTAT
27610064 -AAAATATAT
1 AAAAAT-TAT
*
27610073 AGAAA-TAT
1 AAAAATTAT
27610081 AAAAAATTAT
1 -AAAAATTAT
*
27610091 -AAAATTTT
1 AAAAATTAT
*
27610099 ATAAAGTCGTA-
1 A-AAAAT--TAT
27610110 AGAAAATTAT
1 A-AAAATTAT
27610120 ACAAAA-TAT
1 A-AAAATTAT
*
27610129 AAAGAAATAT
1 AAA-AATTAT
* *
27610139 AAAATTCTTAA
1 AAAA--ATTAT
27610150 AAAAATTAT
1 AAAAATTAT
27610159 AAAAATTAT
1 AAAAATTAT
27610168 A
1 A
27610169 GTACCAAAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 46
0.67 0.11 0.21
Matches are distributed among these distances:
8 23 0.16
9 56 0.39
10 38 0.26
11 27 0.19
12 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:27610165 original size:104 final size:104
Alignment explanation
Indices: 27609971--27610168 Score: 235
Period size: 106 Copynumber: 1.9 Consensus size: 104
27609961 TTTAATAAAA
* *
27609971 AAATATAAAAATTGTAAAATTTTATAAAAATAATAAAGAAATTATAAAATATATAGAAATATAAA
1 AAATATAAAAATTATAAAATTTTATAAAAATAATAAAGAAATTATAAAATATAAAGAAATATAAA
* *
27610036 AAATATATAGAAATTATATAGAAATTATAAAATATATAG
66 AAATATAAAAAAATTATATAGAAATTATAAAATATATAG
* **
27610075 AAATATAAAAAATTATAAAATTTTAT-AAAGTCGT-AAGAAAATTATACAAAATATAAAGAAATA
1 AAATAT-AAAAATTATAAAATTTTATAAAAATAATAAAG-AAATTAT--AAAATATAAAGAAATA
* *
27610138 T-AAAATTCTTAAAAAAATTATA-A-AAATTATA
62 TAAAAAAT-ATAAAAAAATTATATAGAAATTATA
27610169 GTACCAAAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
103 3 0.04
104 26 0.32
105 24 0.30
106 27 0.34
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (104 bp):
AAATATAAAAATTATAAAATTTTATAAAAATAATAAAGAAATTATAAAATATAAAGAAATATAAA
AAATATAAAAAAATTATATAGAAATTATAAAATATATAG
Found at i:27610168 original size:48 final size:45
Alignment explanation
Indices: 27610004--27610162 Score: 142
Period size: 48 Copynumber: 3.4 Consensus size: 45
27609994 ATAAAAATAA
* *
27610004 TAAAGAAATTATAAAATATATAGAAATATAAAAAATATATAGAAATTA
1 TAAAAAAATTATAAAATATATAGAAATAT-AAAAA-ATATA-AAATTT
* *
27610052 TATAGAAATTATAAAATATATAGAAATATAAAAAATTATAAAATTT
1 TAAAAAAATTATAAAATATATAGAAATATAAAAAA-TATAAAATTT
* * * *
27610098 T-ATAAAGTCGTAAGAAAAT-TATACAAAATATAAAGAAATATAAAATTCT
1 TAAAAAAAT--T-ATAAAATATATA-GAAATATAAA-AAATATAAAATT-T
27610147 TAAAAAAATTATAAAA
1 TAAAAAAATTATAAAA
27610163 ATTATAGTAC
Statistics
Matches: 92, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
45 3 0.03
46 7 0.08
47 19 0.21
48 53 0.58
49 5 0.05
50 5 0.05
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (45 bp):
TAAAAAAATTATAAAATATATAGAAATATAAAAAATATAAAATTT
Found at i:27610697 original size:93 final size:93
Alignment explanation
Indices: 27610518--27610744 Score: 304
Period size: 92 Copynumber: 2.5 Consensus size: 93
27610508 TTTTAATAAG
* *
27610518 AGCAAGGGCTTAATTGC-TTTTTTGAAAAATTTTGAGGATCTTTTTTATGCATTTTGAAAGGTCA
1 AGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGGTCA
*
27610582 AGTACCCAATTGAGTTGGAAAAAAAAAA
66 AGTACCCAATTGAGTTGAAAAAAAAAAA
* * * *
27610610 AGCACGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTTTTATTCA-TTTGAAAGTTCA
1 AGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGGTCA
* **
27610674 AGTGCTTAATTGAG-TGCAAAAAAAAAAA
66 AGTACCCAATTGAGTTG-AAAAAAAAAAA
*
27610702 AG-AAGGGCTTAATT-ATTTTTTTGAAAAAGTTTGAGGG-CTTTTT
1 AGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTT
27610745 ACACCCTTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
89 6 0.05
90 21 0.17
91 13 0.11
92 50 0.42
93 30 0.25
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (93 bp):
AGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGGTCA
AGTACCCAATTGAGTTGAAAAAAAAAAA
Found at i:27615919 original size:46 final size:45
Alignment explanation
Indices: 27615833--27615919 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
27615823 TATTGCAATT
* * *
27615833 AGAGTTTTAGATTTATTTAATTCTTTATTATATCAGGTTTTATTA
1 AGAGTTTTAGATTTAGTTAATTCCTTATTATATCAAGTTTTATTA
* * *
27615878 AGAGTTTTAGTTTTAGTTATTTTCCTTATTATATTAAGTTTT
1 AGAGTTTTAGATTTAGTTA-ATTCCTTATTATATCAAGTTTT
27615920 TATTTCTCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 17 0.49
46 18 0.51
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.57
Consensus pattern (45 bp):
AGAGTTTTAGATTTAGTTAATTCCTTATTATATCAAGTTTTATTA
Found at i:27615961 original size:13 final size:13
Alignment explanation
Indices: 27615945--27615970 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27615935 CTCTACGTTA
27615945 GAATTCTATTAGG
1 GAATTCTATTAGG
27615958 GAATTCTATTAGG
1 GAATTCTATTAGG
27615971 ACTCTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
GAATTCTATTAGG
Found at i:27623990 original size:18 final size:18
Alignment explanation
Indices: 27623950--27623992 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27623940 AATCAATGTG
27623950 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
27623968 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
27623986 TAATTAA
1 TAATTAA
27623993 AAACCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:27624383 original size:22 final size:23
Alignment explanation
Indices: 27624341--27624383 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27624331 ATCTGAATTT
*
27624341 TAAAATTTTAAAATTAGAAAGAC
1 TAAAATTTTAAAAATAGAAAGAC
*
27624364 TAAATTTTTAAAAATA-AAAG
1 TAAAATTTTAAAAATAGAAAG
27624384 TATATAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (23 bp):
TAAAATTTTAAAAATAGAAAGAC
Found at i:27667141 original size:12 final size:12
Alignment explanation
Indices: 27667124--27667149 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27667114 TGTTATTATG
27667124 ATGAATGCTATT
1 ATGAATGCTATT
27667136 ATGAATGCTATT
1 ATGAATGCTATT
27667148 AT
1 AT
27667150 TTATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:27667878 original size:15 final size:15
Alignment explanation
Indices: 27667855--27667898 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
27667845 TAGTTTTAGC
27667855 TTTAATTTAGATTAA
1 TTTAATTTAGATTAA
*
27667870 TTTAGTTTAGATTAA
1 TTTAATTTAGATTAA
*
27667885 --TACTTTAGATTAA
1 TTTAATTTAGATTAA
27667898 T
1 T
27667899 ATCATTCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 12 0.46
15 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (15 bp):
TTTAATTTAGATTAA
Found at i:27667893 original size:13 final size:13
Alignment explanation
Indices: 27667860--27667899 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
27667850 TTAGCTTTAA
*
27667860 TTTAGATTAATTTAG
1 TTTAGATTAA--TAC
27667875 TTTAGATTAATAC
1 TTTAGATTAATAC
27667888 TTTAGATTAATA
1 TTTAGATTAATA
27667900 TCATTCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 14 0.58
15 10 0.42
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:27670025 original size:20 final size:20
Alignment explanation
Indices: 27669943--27670027 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 20
27669933 AAATATGCAA
* *
27669943 ACAGAGACATCGAAGTGTGT
1 ACAGGGACATCGAAGTGTAT
** *
27669963 ACAGGGACATTAAAGGGTAT
1 ACAGGGACATCGAAGTGTAT
* * *
27669983 ACAGGGGCA-C-TAGATGTAA
1 ACAGGGACATCGAAG-TGTAT
27670002 ACAGGGACATCGAAGTGTAT
1 ACAGGGACATCGAAGTGTAT
27670022 ACAGGG
1 ACAGGG
27670028 CACCAGAGTG
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
18 2 0.04
19 11 0.22
20 34 0.69
21 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (20 bp):
ACAGGGACATCGAAGTGTAT
Found at i:27671228 original size:41 final size:41
Alignment explanation
Indices: 27671169--27671365 Score: 252
Period size: 41 Copynumber: 4.8 Consensus size: 41
27671159 AACCATATTA
27671169 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATC
1 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATC
* * *
27671210 TCATTCTCATTTTC-AGACATGAGTCTTCCTTATTCATAATC
1 TCATTCTCA-TCTCGAGACATGAGTCTTCCTTAATCAAAATC
27671251 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATC
1 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATC
* * * **
27671292 TCATTCTCATTTCGAGACATGAGTATTCCATTTATACAATTTC
1 TCATTCTCATCTCGAGACATGAGTCTTCC-TTAAT-CAAAATC
* * * *
27671335 TCATGCTCAACCCGACACATGAGTCTTCCTT
1 TCATTCTCATCTCGAGACATGAGTCTTCCTT
27671366 TTTATACAAC
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.02
41 95 0.70
42 9 0.07
43 28 0.21
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (41 bp):
TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATC
Found at i:27671265 original size:82 final size:83
Alignment explanation
Indices: 27671169--27671365 Score: 283
Period size: 82 Copynumber: 2.4 Consensus size: 83
27671159 AACCATATTA
27671169 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTTC-AGACATGAG
1 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA-TTTCGAGACATGAG
* *
27671233 TCTTCC-TTATTC-ATAATC
65 TATTCCATTATACAAT-ATC
27671251 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGACATGAGT
1 TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGACATGAGT
*
27671316 ATTCCATTTATACAATTTC
66 ATTCCA-TTATACAATATC
* * * *
27671335 TCATGCTCAACCCGACACATGAGTCTTCCTT
1 TCATTCTCATCTCGAGACATGAGTCTTCCTT
27671366 TTTATACAAC
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
81 4 0.04
82 64 0.62
84 34 0.33
85 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (83 bp):
TCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGACATGAGT
ATTCCATTATACAATATC
Found at i:27672212 original size:22 final size:21
Alignment explanation
Indices: 27672165--27672212 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
27672155 GACTTTTATA
*
27672165 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* * *
27672186 TTTAACCTTAATTTATCCTATT
1 ATTAA-CTTAATTAATCATATT
27672208 ATTAA
1 ATTAA
27672213 TCAATATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:27679326 original size:15 final size:16
Alignment explanation
Indices: 27679291--27679327 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
27679281 TCACCGTGGT
27679291 TCCGTCACCGATCACC
1 TCCGTCACCGATCACC
*
27679307 T-CGTCTCCG-TCACC
1 TCCGTCACCGATCACC
27679321 TCCGTCA
1 TCCGTCA
27679328 TCACGCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
14 6 0.33
15 11 0.61
16 1 0.06
ACGTcount: A:0.14, C:0.49, G:0.14, T:0.24
Consensus pattern (16 bp):
TCCGTCACCGATCACC
Found at i:27680718 original size:39 final size:39
Alignment explanation
Indices: 27680595--27681239 Score: 284
Period size: 38 Copynumber: 16.8 Consensus size: 39
27680585 GTTTGGGTGT
* * * *
27680595 TTCAATCTGCCCCATGATC-GAGGTAAGAGATTGGTATGTC
1 TTCAATCTACCCTATGATCAG-GGTAAAAGATT-GCATGTC
* * * * * * **
27680635 TTCAATCTGCCTTCTGATTAAGGAAAAAGATTGGGTG-C
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
* * *
27680673 TTCAATCTACCCTATGATCGGGGTAAGAGATTGCATGTA
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
* * *
27680712 TTCAATCTACTCC-ATGAT-TGGAGTAAGAGATTGCTTGTC
1 TTCAATCTAC-CCTATGATCAGG-GTAAAAGATTGCATGTC
* * * *
27680751 TTCAATCTGCCCTTTGATTA-GG-----GATTGGAT-TC
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
* * *
27680783 TTCAATCTGCCCCATGATCAGGGTAAAAGATTGTC-CGTC
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTG-CATGTC
** * * * *
27680822 TTCAATCTGTCTTTTGATTAGGGTAAAAGATTGGATG-C
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
* * * * *
27680860 TTTAATCT-TCCTCATGATCAAGGTAAACGATTG-GTGTC
1 TTCAATCTACCCT-ATGATCAGGGTAAAAGATTGCATGTC
* * *
27680898 TTCAATCTGATCC-ATGAT-TGGAGTAAGAGATTGCATGTC
1 TTCAATCT-ACCCTATGATCAGG-GTAAAAGATTGCATGTC
* * *
27680937 TTCAATCTACCCTCTGCTTAGGGTAAAAGATTAG-ATG-C
1 TTCAATCTACCCTATGATCAGGGTAAAAGATT-GCATGTC
* **
27680975 TTCACTCTA-CCTCATGATC-GAGGTAAAAGATTTGTGTGTC
1 TTCAATCTACCCT-ATGATCAG-GGTAAAAGA-TTGCATGTC
* * * * * *
27681015 TTTAATCTACCTTCTGATTAAGGTAAAAGATTGGATG-C
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
* * * * * *
27681053 TTCAATTTGTCCC-ATGATCGGGGTAAGAGATTGCGTATC
1 TTCAATCT-ACCCTATGATCAGGGTAAAAGATTGCATGTC
* * * * *
27681092 TTCAATTTACCCTTTGATTAGGGTAAAAGATTGCGTATC
1 TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
* * * * * * *
27681131 TTCAATC-AGCCTTCTAATTAAGGTAAGAGATTGGAT-TC
1 TTCAATCTA-CCCTATGATCAGGGTAAAAGATTGCATGTC
* * *
27681169 TTCAATCTACCCCATGATC-GAGGTAAAAGATTGGAT-AC
1 TTCAATCTACCCTATGATCAG-GGTAAAAGATTGCATGTC
* *
27681207 TTCAATCTACTCTATGATC-GGAGTAAGAGATTG
1 TTCAATCTACCCTATGATCAGG-GTAAAAGATTG
27681240 GTGGGTAGCT
Statistics
Matches: 460, Mismatches: 107, Indels: 78
0.71 0.17 0.12
Matches are distributed among these distances:
32 19 0.04
33 8 0.02
37 11 0.02
38 193 0.42
39 174 0.38
40 53 0.12
41 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (39 bp):
TTCAATCTACCCTATGATCAGGGTAAAAGATTGCATGTC
Found at i:27680798 original size:71 final size:71
Alignment explanation
Indices: 27680712--27680844 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 71
27680702 ATTGCATGTA
* * * *
27680712 TTCAATCTACTCCATGAT-TGGAGTAAGAGATTG-CTTGTCTTCAATCTGCCCTTTGATTAGGGA
1 TTCAATCTACCCCATGATCAGG-GTAAAAGATTGTC-CGTCTTCAATCTGCCCTTTGATTAGGGA
27680775 TTGGATTC
64 TTGGATTC
* * *
27680783 TTCAATCTGCCCCATGATCAGGGTAAAAGATTGTCCGTCTTCAATCTGTCTTTTGATTAGGG
1 TTCAATCTACCCCATGATCAGGGTAAAAGATTGTCCGTCTTCAATCTGCCCTTTGATTAGGG
27680845 TAAAAGATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
71 50 0.94
72 3 0.06
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (71 bp):
TTCAATCTACCCCATGATCAGGGTAAAAGATTGTCCGTCTTCAATCTGCCCTTTGATTAGGGATT
GGATTC
Found at i:27680826 original size:110 final size:113
Alignment explanation
Indices: 27680595--27680829 Score: 257
Period size: 110 Copynumber: 2.1 Consensus size: 113
27680585 GTTTGGGTGT
* *
27680595 TTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCTTCTGATTAAGGAA
1 TTCAATCTACCCCATGATCGAGGTAAGAGATTGCTATGTCTTCAATCTGCCTTCTGATTAAGG--
* * * * *
27680660 AAAGATTGGGTGCTTCAATCTACCCTATGATCGGGGTAAGAGATTGCATGTA
64 --AGATTGGATGCTTCAATCTACCCCATGATCAGGGTAAAAGATTGCACGTA
* *
27680712 TTCAATCTACTCCATGATTG-GAGTAAGAGATTGCT-TGTCTTCAATCTGCCCTT-TGATT-AGG
1 TTCAATCTACCCCATGATCGAG-GTAAGAGATTGCTATGTCTTCAATCTG-CCTTCTGATTAAGG
* * *
27680773 -GATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGTC-CGTC
64 AGATTGGATGCTTCAATCTACCCCATGATCAGGGTAAAAGATTG-CACGTA
27680822 TTCAATCT
1 TTCAATCT
27680830 GTCTTTTGAT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
110 47 0.46
111 1 0.01
115 3 0.03
116 19 0.18
117 33 0.32
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (113 bp):
TTCAATCTACCCCATGATCGAGGTAAGAGATTGCTATGTCTTCAATCTGCCTTCTGATTAAGGAG
ATTGGATGCTTCAATCTACCCCATGATCAGGGTAAAAGATTGCACGTA
Found at i:27680929 original size:115 final size:115
Alignment explanation
Indices: 27680773--27681047 Score: 281
Period size: 115 Copynumber: 2.4 Consensus size: 115
27680763 TTTGATTAGG
* ** * *
27680773 GATTGGAT-TCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGTC-CGTCTTCAATCTGTCTTT
1 GATTGG-TGTCTTCAATCTGACCCATGATCAGGGTAAAAGATTG-CACGTCTTCAATCTACCCTC
* * * *
27680836 TGATTAGGGTAAAAGATTGGATGCTTTAATCTTCCTCATGATCAAGGTAAAC
64 TGATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCAAGGTAAAA
* * * *
27680888 GATTGGTGTCTTCAATCTGATCCATGAT-TGGAGTAAGAGATTGCATGTCTTCAATCTACCCTCT
1 GATTGGTGTCTTCAATCTGACCCATGATCAGG-GTAAAAGATTGCACGTCTTCAATCTACCCTCT
* * *
27680952 GCTTAGGGTAAAAGATTAGATGCTTCACTCTACCTCATGATCGAGGTAAAA
65 GATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCAAGGTAAAA
* * *
27681003 GATTTGTGTGTCTTTAATCT-ACCTTC-TGATTAAGGTAAAAGATTG
1 GA-TTG-GTGTCTTCAATCTGACC--CATGATCAGGGTAAAAGATTG
27681048 GATGCTTCAA
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
114 4 0.03
115 94 0.72
116 5 0.04
117 26 0.20
118 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (115 bp):
GATTGGTGTCTTCAATCTGACCCATGATCAGGGTAAAAGATTGCACGTCTTCAATCTACCCTCTG
ATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCAAGGTAAAA
Found at i:27680944 original size:77 final size:77
Alignment explanation
Indices: 27680590--27681239 Score: 275
Period size: 77 Copynumber: 8.5 Consensus size: 77
27680580 TAAGAGTTTG
** * * *
27680590 GGTGT-TTCAATCTGCCCCATGA-TCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCTTC-TGA
1 GGTGTCTTCAATCTGATCCATGATTGGA-GTAAGAGATT-GCATGTCTTCAATCTTCC-TCATGA
*
27680652 TTAAGGAAAAAGATT
63 TTAAGGTAAAAGATT
* * * * *
27680667 GG-GTGCTTCAATCT-ACCCTATGATCGGGGTAAGAGATTGCATGTATTCAATC-TACTCCATGA
1 GGTGT-CTTCAATCTGATCC-ATGATTGGAGTAAGAGATTGCATGTCTTCAATCTTCCT-CATGA
* *
27680729 TT-GGAGTAAGAGATT
63 TTAAG-GTAAAAGATT
* * * * * * * *
27680744 GCTTGTCTTCAATCTG--CCCT--TT-GA-TTAGGGATTGGAT-TCTTCAATCTGCCCCATGATC
1 G-GTGTCTTCAATCTGATCCATGATTGGAGTAAGAGATTGCATGTCTTCAATCTTCCTCATGATT
*
27680802 AGGGTAAAAGATT
65 AAGGTAAAAGATT
** * * *
27680815 -GTCCGTCTTCAATCTG-TCTTTTGATTAGG-GTAAAAGATTGGATG-CTTTAATCTTCCTCATG
1 GGT--GTCTTCAATCTGATC-CATGATT-GGAGTAAGAGATTGCATGTCTTCAATCTTCCTCATG
* *
27680876 ATCAAGGTAAACGATT
62 ATTAAGGTAAAAGATT
* *
27680892 GGTGTCTTCAATCTGATCCATGATTGGAGTAAGAGATTGCATGTCTTCAATCTACCCTC-TGCTT
1 GGTGTCTTCAATCTGATCCATGATTGGAGTAAGAGATTGCATGTCTTCAATCT-TCCTCATGATT
*
27680956 AGGGTAAAAGATT
65 AAGGTAAAAGATT
* * * * * ** * *
27680969 AGATG-CTTCACTCT-ACCTCATGA-TCGAGGTAAAAGATTTGTGTGTCTTTAATCTACCTTC-T
1 -GGTGTCTTCAATCTGATC-CATGATTGGA-GTAAGAGA-TTGCATGTCTTCAATCTTCC-TCAT
27681030 GATTAAGGTAAAAGATT
61 GATTAAGGTAAAAGATT
* * * * * *
27681047 GGATG-CTTCAATTTG-TCCCATGATCGGGGTAAGAGATTGCGTATCTTCAAT-TTACC-CTTTG
1 GG-TGTCTTCAATCTGAT-CCATGATTGGAGTAAGAGATTGCATGTCTTCAATCTT-CCTC-ATG
*
27681108 ATTAGGGTAAAAGATT
62 ATTAAGGTAAAAGATT
* * * * * * * * *
27681124 GCGTATCTTCAATCAGCCTTC-TAATT-AAGGTAAGAGATTGGAT-TCTTCAATCTACCCCATGA
1 G-GTGTCTTCAATCTG-ATCCATGATTGGA-GTAAGAGATTGCATGTCTTCAATCTTCCTCATGA
**
27681186 TCGAGGTAAAAGATT
63 TTAAGGTAAAAGATT
* * *
27681201 GGAT-ACTTCAATCT-ACTCTATGATCGGAGTAAGAGATTG
1 GG-TGTCTTCAATCTGA-TCCATGATTGGAGTAAGAGATTG
27681240 GTGGGTAGCT
Statistics
Matches: 431, Mismatches: 92, Indels: 101
0.69 0.15 0.16
Matches are distributed among these distances:
69 1 0.00
71 35 0.08
72 14 0.03
73 2 0.00
74 1 0.00
75 7 0.02
76 65 0.15
77 180 0.42
78 119 0.28
79 6 0.01
80 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (77 bp):
GGTGTCTTCAATCTGATCCATGATTGGAGTAAGAGATTGCATGTCTTCAATCTTCCTCATGATTA
AGGTAAAAGATT
Found at i:27681048 original size:155 final size:153
Alignment explanation
Indices: 27680843--27681239 Score: 423
Period size: 155 Copynumber: 2.6 Consensus size: 153
27680833 TTTTGATTAG
* *
27680843 GGTAAAAGATTGGATGCTTTAATCTTCCTCATGATCAAGGTAAACGATTGG-TGTCTTCAATCTG
1 GGTAAAAGATTGGATGCTTTAATCTACCTCATGATCAAGGTAAAAGATTGGATG-CTTCAATCTG
* * *
27680907 AT-CCATGATTGGAGTAAGAGATTGCATGTCTTCAATCTACCCTCTGCTTAGGGTAAAAGATTAG
65 -TCCCATGATCGGAGTAAGAGATTGCATATCTTCAATCTACCCTCTGATTAGGGTAAAAGATTAG
27680971 ATGCTTCACTCTACCTCATGATCGA
129 ATGCTTCACTCTACCTCATGATCGA
*
27680996 GGTAAAAGATTTGTG-TGTCTTTAATCTACCTTC-TGATTAAGGTAAAAGATTGGATGCTTCAAT
1 GGTAAAAGA-TTG-GATG-CTTTAATCTACC-TCATGATCAAGGTAAAAGATTGGATGCTTCAAT
* * * * *
27681059 TTGTCCCATGATCGGGGTAAGAGATTGCGTATCTTCAATTTACCCTTTGATTAGGGTAAAAGATT
62 CTGTCCCATGATCGGAGTAAGAGATTGCATATCTTCAATCTACCCTCTGATTAGGGTAAAAGATT
* * * **
27681124 GCGTAT-CTTCAATC-AGCCTTC-TAATTAA
127 -AG-ATGCTTCACTCTA-CC-TCATGATCGA
* * * * * * *
27681152 GGTAAGAGATTGGATTCTTCAATCTACCCCATGATCGAGGTAAAAGATTGGATACTTCAATCT-A
1 GGTAAAAGATTGGATGCTTTAATCTACCTCATGATCAAGGTAAAAGATTGGATGCTTCAATCTGT
*
27681216 CTCTATGATCGGAGTAAGAGATTG
66 C-CCATGATCGGAGTAAGAGATTG
27681240 GTGGGTAGCT
Statistics
Matches: 204, Mismatches: 27, Indels: 25
0.80 0.11 0.10
Matches are distributed among these distances:
153 11 0.05
154 66 0.32
155 97 0.48
156 26 0.13
157 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (153 bp):
GGTAAAAGATTGGATGCTTTAATCTACCTCATGATCAAGGTAAAAGATTGGATGCTTCAATCTGT
CCCATGATCGGAGTAAGAGATTGCATATCTTCAATCTACCCTCTGATTAGGGTAAAAGATTAGAT
GCTTCACTCTACCTCATGATCGA
Found at i:27686161 original size:14 final size:14
Alignment explanation
Indices: 27686142--27686184 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
27686132 TAAATGCGCC
27686142 CTTCTTCTCTCTTA
1 CTTCTTCTCTCTTA
* *
27686156 CTTCTTCTCTAATTC
1 CTTCTTCTCT-CTTA
*
27686171 CTTCTTCTCCCTTA
1 CTTCTTCTCTCTTA
27686185 AATATGGCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.09, C:0.37, G:0.00, T:0.53
Consensus pattern (14 bp):
CTTCTTCTCTCTTA
Found at i:27686176 original size:15 final size:14
Alignment explanation
Indices: 27686141--27686179 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
27686131 TTAAATGCGC
*
27686141 CCTTCTTCTCTCTT
1 CCTTCTTCTCTATT
*
27686155 ACTTCTTCTCTAATT
1 CCTTCTTCTCT-ATT
27686170 CCTTCTTCTC
1 CCTTCTTCTC
27686180 CCTTAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (14 bp):
CCTTCTTCTCTATT
Found at i:27695832 original size:41 final size:41
Alignment explanation
Indices: 27695743--27695927 Score: 262
Period size: 41 Copynumber: 4.5 Consensus size: 41
27695733 CCTTATGCTC
* * * * *
27695743 TTTCGAGTCATAAGTCTTCCTTTAACCATATTCTCATTCTCA
1 TTTCGAGACATGAGTCTTCC-TTAATCAAAATCTCATTCTCA
* *
27695785 TCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTTTCA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
* *
27695826 TTTCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
* *
27695867 TCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTTA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
27695908 TTTCGAGACATGAGTCTTCC
1 TTTCGAGACATGAGTCTTCC
27695928 ATTTATACAA
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 110 0.87
42 17 0.13
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (41 bp):
TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
Found at i:27695872 original size:82 final size:83
Alignment explanation
Indices: 27695743--27695968 Score: 305
Period size: 82 Copynumber: 2.7 Consensus size: 83
27695733 CCTTATGCTC
* * *
27695743 TTTCGAGTCATAAGTCTTCCTTTAACCATATTCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
1 TTTCGAGACATGAGTCTTCCTTTAACCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
27695808 ATCAAAATCTCATT-TTCA
66 ATCAAAATCTCATTCTT-A
**
27695826 TTTCGAGACATGAGTCTTCC-TTATTCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
1 TTTCGAGACATGAGTCTTCCTTTAACCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
27695890 ATCAAAATCTCATTCTTA
66 ATCAAAATCTCATTCTTA
* * * * * *
27695908 TTTCGAGACATGAGTCTTCCATTTATACAAT-TTCTCATGCTCAACCCGAGGCATGAGTCTT
1 TTTCGAGACATGAGTCTTCC-TTTA-ACCATAATCTCATTCTCATCTCGAGACATGAGTCTT
27695969 TCTTTTTATA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
82 76 0.60
83 20 0.16
84 28 0.22
85 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (83 bp):
TTTCGAGACATGAGTCTTCCTTTAACCATAATCTCATTCTCATCTCGAGACATGAGTCTTCCTTA
ATCAAAATCTCATTCTTA
Found at i:27697117 original size:2 final size:2
Alignment explanation
Indices: 27697105--27697134 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
27697095 TTTCTTCTCA
27697105 AT AT CAT 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 AT AT A
27697135 CATAAATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27697694 original size:17 final size:18
Alignment explanation
Indices: 27697672--27697706 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27697662 CCTAGACCCG
27697672 AAATTTC-AAATTTATCA
1 AAATTTCTAAATTTATCA
*
27697689 AAATTTCTTAATTTATCA
1 AAATTTCTAAATTTATCA
27697707 TGTTAACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTCTAAATTTATCA
Found at i:27700975 original size:30 final size:30
Alignment explanation
Indices: 27700939--27701155 Score: 154
Period size: 30 Copynumber: 7.2 Consensus size: 30
27700929 AATAAAATCA
* * *
27700939 GGTCAAATTTGATTTTTTGGAAACTTCAAG
1 GGTCAAATTTAAATTTTTGGAAAATTCAAG
** * *
27700969 GGTCAAATAAAAATTTTTGGAAAATTTAGG
1 GGTCAAATTTAAATTTTTGGAAAATTCAAG
* * *
27700999 GGTCAAATTTAAATTTTTAGAAAGTTCGAG
1 GGTCAAATTTAAATTTTTGGAAAATTCAAG
* *
27701029 GGTTAAATTTGAAATTTTT-GAAAATTCGAG
1 GGTCAAATTT-AAATTTTTGGAAAATTCAAG
* * * *
27701059 AGTTAAATTCAAATTTTTGGAAAGTTC-AG
1 GGTCAAATTTAAATTTTTGGAAAATTCAAG
* **
27701088 AGGTCAAATTCAAATTTTT-GAAAAGTTTGAG
1 -GGTCAAATTTAAATTTTTGGAAAA-TTCAAG
* * * * *
27701119 GGTCCAATTCATATTTTT-GAAAAGTTTAGG
1 GGTCAAATTTAAATTTTTGGAAAA-TTCAAG
27701149 GGTCAAA
1 GGTCAAA
27701156 AAATAATTTT
Statistics
Matches: 154, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
29 14 0.09
30 130 0.84
31 10 0.06
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (30 bp):
GGTCAAATTTAAATTTTTGGAAAATTCAAG
Found at i:27701128 original size:60 final size:60
Alignment explanation
Indices: 27700952--27701155 Score: 211
Period size: 60 Copynumber: 3.4 Consensus size: 60
27700942 CAAATTTGAT
* * *
27700952 TTTTTGGAAACTTCA-AGGGTCAAATAAAAATTTTTGGAAAATTT-AGGGGTCAAATTTAAA
1 TTTTTGGAAAGTTCAGAGGGTCAAATTAAAATTTTT-GAAAATTTGA-GGGTCAAATTCAAA
* * * * * *
27701012 TTTTTAGAAAGTTC-GAGGGTTAAATTTGAAATTTTTGAAAATTCGAGAGTTAAATTCAAA
1 TTTTTGGAAAGTTCAGAGGGTCAAA-TTAAAATTTTTGAAAATTTGAGGGTCAAATTCAAA
* * *
27701072 TTTTTGGAAAGTTCAGA-GGTCAAATTCAAATTTTTGAAAAGTTTGAGGGTCCAATTCATA
1 TTTTTGGAAAGTTCAGAGGGTCAAATTAAAATTTTTGAAAA-TTTGAGGGTCAAATTCAAA
* *
27701132 TTTTTGAAAAGTTTAG-GGGTCAAA
1 TTTTTGGAAAGTTCAGAGGGTCAAA
27701156 AAATAATTTT
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
59 15 0.13
60 92 0.77
61 12 0.10
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (60 bp):
TTTTTGGAAAGTTCAGAGGGTCAAATTAAAATTTTTGAAAATTTGAGGGTCAAATTCAAA
Found at i:27701164 original size:60 final size:59
Alignment explanation
Indices: 27701041--27701226 Score: 164
Period size: 60 Copynumber: 3.1 Consensus size: 59
27701031 TTAAATTTGA
* * * * * *
27701041 AATTTTTGAAAA-TTCGAGAGTTAAATTCAAATTTTTGGAAAGTTCAGAGGTCAAATTCA-
1 AATTTTTGAAAAGTTTGAG-GGTAAATTCATATTTTTGGAAAGTTTAGGGGTCAAA-ACAT
* * *
27701100 AATTTTTGAAAAGTTTGAGGGTCCAATTCATATTTTTGAAAAGTTTAGGGGTCAAAAAAT
1 AATTTTTGAAAAGTTTGAGGGT-AAATTCATATTTTTGGAAAGTTTAGGGGTCAAAACAT
* * * * *
27701160 AATTTTTGGATAGTTTGGGGGTTAAA-ACATAATTTTTGGATAGTTT-GGTGGTCAAAACAT
1 AATTTTTGAAAAGTTTGAGGG-TAAATTCAT-ATTTTTGGAAAGTTTAGG-GGTCAAAACAT
27701220 AATTTTT
1 AATTTTT
27701227 AGATAGTTTG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
59 20 0.19
60 83 0.80
61 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (59 bp):
AATTTTTGAAAAGTTTGAGGGTAAATTCATATTTTTGGAAAGTTTAGGGGTCAAAACAT
Found at i:27701165 original size:30 final size:29
Alignment explanation
Indices: 27701100--27701226 Score: 130
Period size: 30 Copynumber: 4.2 Consensus size: 29
27701090 GTCAAATTCA
**
27701100 AATTTTTGAAAAGTTTGAGGGTCCAATTCAT
1 AATTTTTGAAAAGTTTG-GGGT-CAAAACAT
*
27701131 -ATTTTTGAAAAGTTTAGGGGTCAAAAAAT
1 AATTTTTGAAAAGTTT-GGGGTCAAAACAT
* * *
27701160 AATTTTTGGATAGTTTGGGGGTTAAAACAT
1 AATTTTTGAAAAGTTT-GGGGTCAAAACAT
* *
27701190 AATTTTTGGATAGTTTGGTGGTCAAAACAT
1 AATTTTTGAAAAGTTTGG-GGTCAAAACAT
27701220 AATTTTT
1 AATTTTT
27701227 AGATAGTTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
29 7 0.08
30 76 0.90
31 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (29 bp):
AATTTTTGAAAAGTTTGGGGTCAAAACAT
Found at i:27701232 original size:30 final size:29
Alignment explanation
Indices: 27701131--27701255 Score: 142
Period size: 30 Copynumber: 4.2 Consensus size: 29
27701121 TCCAATTCAT
* *
27701131 ATTTTTGAAAAGTTTAGGGGTCAAAAAATA
1 ATTTTTGGATAGTTT-GGGGTCAAAAAATA
* *
27701161 ATTTTTGGATAGTTTGGGGGTTAAAACATA
1 ATTTTTGGATAGTTT-GGGGTCAAAAAATA
*
27701191 ATTTTTGGATAGTTTGGTGGTCAAAACATA
1 ATTTTTGGATAGTTTGG-GGTCAAAAAATA
* * *
27701221 ATTTTTAGATAGTTTGCAGGTTAAAAAATA
1 ATTTTTGGATAGTTTG-GGGTCAAAAAATA
27701251 ATTTT
1 ATTTT
27701256 AAAATAAAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 2 0.02
30 81 0.98
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (29 bp):
ATTTTTGGATAGTTTGGGGTCAAAAAATA
Found at i:27701232 original size:60 final size:60
Alignment explanation
Indices: 27701131--27701255 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 60
27701121 TCCAATTCAT
* ** *
27701131 ATTTTTGAAAAGTTTAGGGGTCAAAAAATAATTTTTGGATAGTTTGGGGGTTAAAACATA
1 ATTTTTGAAAAGTTTAGGGGTCAAAAAATAATTTTTAGATAGTTTGCAGGTTAAAAAATA
* * *
27701191 ATTTTTGGATAGTTT-GGTGGTCAAAACATAATTTTTAGATAGTTTGCAGGTTAAAAAATA
1 ATTTTTGAAAAGTTTAGG-GGTCAAAAAATAATTTTTAGATAGTTTGCAGGTTAAAAAATA
27701251 ATTTT
1 ATTTT
27701256 AAAATAAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 2 0.04
60 55 0.96
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (60 bp):
ATTTTTGAAAAGTTTAGGGGTCAAAAAATAATTTTTAGATAGTTTGCAGGTTAAAAAATA
Found at i:27703144 original size:80 final size:79
Alignment explanation
Indices: 27703007--27703226 Score: 194
Period size: 80 Copynumber: 2.7 Consensus size: 79
27702997 GCTTCTGTAG
* *
27703007 CTTCAATTTGCCCCTCTATAGCTTTAGGGGTAAAAGATTGGATTGTTTCAATTTGCCCCATAGAC
1 CTTCAATTTG-CCCTC--TAG--TTA-GGGTAAAAGATTGGATGGTTTCAATCTGCCCCATAGAC
*
27703072 GAGGAAAGAGATCTG-ATGGT
60 GAGGAAAGAGATC-GAATGAT
* * * *
27703092 CTTCAATTTGCCCTCTAGTTAGGGTAAAAGATCT-GATGGTCTTCAATCTGCCCTATGGTCGGGG
1 CTTCAATTTGCCCTCTAGTTAGGGTAAAAGAT-TGGATGGT-TTCAATCTGCCCCATAGACGAGG
*
27703156 TAAGAGATCGAATGAT
64 AAAGAGATCGAATGAT
* * * * * * *
27703172 CTACAATCTGCCCTTTGGTTAAGGTAAAAGATTGGATTGCTTT-AATCTTCCCCAT
1 CTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGA-TGGTTTCAATCTGCCCCAT
27703227 GCTTTAGGGG
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
79 28 0.25
80 65 0.57
81 3 0.03
82 3 0.03
84 5 0.04
85 10 0.09
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (79 bp):
CTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTTTCAATCTGCCCCATAGACGAGGAA
AGAGATCGAATGAT
Found at i:27703157 original size:40 final size:40
Alignment explanation
Indices: 27703033--27703185 Score: 134
Period size: 40 Copynumber: 3.9 Consensus size: 40
27703023 TATAGCTTTA
* * * *
27703033 GGGGTAAAAGAT-TGGATTGT-TTCAATTTGCCCCATAGAC
1 GGGGTAAAAGATCT-GATGGTCTTCAATCTGCCCTATAGTC
* * * *
27703072 GAGG-AAAGAGATCTGATGGTCTTCAATTTGCCCTCTAGTT
1 GGGGTAAA-AGATCTGATGGTCTTCAATCTGCCCTATAGTC
* *
27703112 AGGGTAAAAGATCTGATGGTCTTCAATCTGCCCTATGGTC
1 GGGGTAAAAGATCTGATGGTCTTCAATCTGCCCTATAGTC
* * *
27703152 GGGGTAAGAGATC-GAATGATCTACAATCTGCCCT
1 GGGGTAAAAGATCTG-ATGGTCTTCAATCTGCCCT
27703186 TTGGTTAAGG
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 13 0.14
40 74 0.80
41 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
GGGGTAAAAGATCTGATGGTCTTCAATCTGCCCTATAGTC
Found at i:27703198 original size:40 final size:40
Alignment explanation
Indices: 27703080--27703203 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 40
27703070 ACGAGGAAAG
* * *
27703080 AGATCTGATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAA
1 AGATCTGATGGTCTTCAATCTGCCCTATGGTTAGGGTAAA
** *
27703120 AGATCTGATGGTCTTCAATCTGCCCTATGGTCGGGGTAAG
1 AGATCTGATGGTCTTCAATCTGCCCTATGGTTAGGGTAAA
* * * *
27703160 AGATC-GAATGATCTACAATCTGCCCTTTGGTTAAGGTAAA
1 AGATCTG-ATGGTCTTCAATCTGCCCTATGGTTAGGGTAAA
27703200 AGAT
1 AGAT
27703204 TGGATTGCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
AGATCTGATGGTCTTCAATCTGCCCTATGGTTAGGGTAAA
Found at i:27715060 original size:90 final size:92
Alignment explanation
Indices: 27714915--27715093 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 92
27714905 CAATTTTGAA
27714915 TTTTTGGAAACTTCAGGGGTCAAATCGAAATTTTTGGAAAATTCAAGGGTCAAATT-AGAATTTT
1 TTTTTGGAAACTTCAGGGGTCAAATCGAAATTTTTGGAAAATTCAAGGGTCAAATTCA-AATTTT
27714979 TGGAAAATTT-AGAAA-TCAAATTTAAT
65 TGGAAAATTTGAGAAATTCAAATTTAAT
* * * * * * *
27715005 TTTTTTGAAAGTTCGGGGGTTAAATTC-AAATTTTTGGAAAGTTTAGGGGTCAAATTCAAATTTT
1 TTTTTGGAAACTTCAGGGGTCAAA-TCGAAATTTTTGGAAAATTCAAGGGTCAAATTCAAATTTT
*
27715069 TGGAAAGTTTGAGAAATTCAAATTT
65 TGGAAAATTTGAGAAATTCAAATTT
27715094 TTTAAAATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
90 61 0.79
91 8 0.10
92 8 0.10
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (92 bp):
TTTTTGGAAACTTCAGGGGTCAAATCGAAATTTTTGGAAAATTCAAGGGTCAAATTCAAATTTTT
GGAAAATTTGAGAAATTCAAATTTAAT
Found at i:27715078 original size:30 final size:30
Alignment explanation
Indices: 27714913--27715077 Score: 172
Period size: 30 Copynumber: 5.5 Consensus size: 30
27714903 GTCAATTTTG
*
27714913 AATTTTTGGAAACTTCAGGGGTCAAA-TCGA
1 AATTTTTGGAAAGTTCAGGGGTCAAATTC-A
* *
27714943 AATTTTTGGAAAATTCAAGGGTCAAATT-A
1 AATTTTTGGAAAGTTCAGGGGTCAAATTCA
* * *** *
27714972 GAATTTTTGGAAAATTTAGAAATCAAATTTA
1 -AATTTTTGGAAAGTTCAGGGGTCAAATTCA
* * * *
27715003 ATTTTTTTGAAAGTTCGGGGGTTAAATTCA
1 AATTTTTGGAAAGTTCAGGGGTCAAATTCA
*
27715033 AATTTTTGGAAAGTTTAGGGGTCAAATTCA
1 AATTTTTGGAAAGTTCAGGGGTCAAATTCA
27715063 AATTTTTGGAAAGTT
1 AATTTTTGGAAAGTT
27715078 TGAGAAATTC
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
29 1 0.01
30 107 0.97
31 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTTTGGAAAGTTCAGGGGTCAAATTCA
Found at i:27717534 original size:181 final size:181
Alignment explanation
Indices: 27717230--27717593 Score: 719
Period size: 181 Copynumber: 2.0 Consensus size: 181
27717220 GGAAGACACA
*
27717230 AACTTTTCTACCTTTTTACCACCAAACTCCATAAGCGACTTTGATGTAGTCATGGCTTTGGTAAG
1 AACTTTTCTACCTTTTTACCACCAAACTCCATAAACGACTTTGATGTAGTCATGGCTTTGGTAAG
27717295 TTGTTGGAACCCTCGACGCTGTAAATTTTTCTTTGCCCACGACTTCAACATATCCATATGAAAGA
66 TTGTTGGAACCCTCGACGCTGTAAATTTTTCTTTGCCCACGACTTCAACATATCCATATGAAAGA
27717360 GAAGAAGGTCTCTTTCTCACCCAAATCAGAAATTTAGAGCATAAGTTCACT
131 GAAGAAGGTCTCTTTCTCACCCAAATCAGAAATTTAGAGCATAAGTTCACT
27717411 AACTTTTCTACCTTTTTACCACCAAACTCCATAAACGACTTTGATGTAGTCATGGCTTTGGTAAG
1 AACTTTTCTACCTTTTTACCACCAAACTCCATAAACGACTTTGATGTAGTCATGGCTTTGGTAAG
27717476 TTGTTGGAACCCTCGACGCTGTAAATTTTTCTTTGCCCACGACTTCAACATATCCATATGAAAGA
66 TTGTTGGAACCCTCGACGCTGTAAATTTTTCTTTGCCCACGACTTCAACATATCCATATGAAAGA
27717541 GAAGAAGGTCTCTTTCTCACCCAAATCAGAAATTTAGAGCATAAGTTCACT
131 GAAGAAGGTCTCTTTCTCACCCAAATCAGAAATTTAGAGCATAAGTTCACT
27717592 AA
1 AA
27717594 ACTCCCGTAC
Statistics
Matches: 182, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 182 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (181 bp):
AACTTTTCTACCTTTTTACCACCAAACTCCATAAACGACTTTGATGTAGTCATGGCTTTGGTAAG
TTGTTGGAACCCTCGACGCTGTAAATTTTTCTTTGCCCACGACTTCAACATATCCATATGAAAGA
GAAGAAGGTCTCTTTCTCACCCAAATCAGAAATTTAGAGCATAAGTTCACT
Found at i:27726036 original size:17 final size:17
Alignment explanation
Indices: 27726014--27726067 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
27726004 ACCGTATCGT
27726014 CCAAGCGATACTGTCCG
1 CCAAGCGATACTGTCCG
*
27726031 CCAAGCGATACTATCCG
1 CCAAGCGATACTGTCCG
* * *
27726048 CCAGGAGATACTGTCTG
1 CCAAGCGATACTGTCCG
27726065 CCA
1 CCA
27726068 GAGATGTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (17 bp):
CCAAGCGATACTGTCCG
Found at i:27728558 original size:52 final size:50
Alignment explanation
Indices: 27728446--27728620 Score: 280
Period size: 51 Copynumber: 3.4 Consensus size: 50
27728436 GAATCTATAA
*
27728446 ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATACAAGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATA-AAGATTCATTT
*
27728497 ACTCACGATGACACTTAGTCATCGGACCGTTAATCCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAAT-CCATAAA-GATTCATTT
*
27728549 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAAGATTCATTC
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCAT-AAAGATTCATTT
27728600 ACTCACGATGACACTT-GTCAT
1 ACTCACGATGACACTTAGTCAT
27728621 TAGACCCTTT
Statistics
Matches: 118, Mismatches: 3, Indels: 7
0.92 0.02 0.05
Matches are distributed among these distances:
50 5 0.04
51 63 0.53
52 50 0.42
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (50 bp):
ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGATTCATTT
Found at i:27730889 original size:43 final size:43
Alignment explanation
Indices: 27730840--27731033 Score: 230
Period size: 43 Copynumber: 4.5 Consensus size: 43
27730830 GACTTGATGT
27730840 ATAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATAA
1 ATAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATAA
*
27730883 ATAAATGGAAGACTCATATCTCGAAATGAGCATGAGATTATAA
1 ATAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATAA
** * * **
27730926 ATAAATGGAAGACTCATGTCTCGGGATGAACATGATATTATGT
1 ATAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATAA
* ** ** *
27730969 ATAAATGGAAGACTCGTGAATCGGGATGAGCATGAGATTA-AGT
1 ATAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATA-A
* *
27731012 TTAAA-GGAAGACTTATGTCTCG
1 ATAAATGGAAGACTCATGTCTCG
27731034 GTAGAGCATA
Statistics
Matches: 131, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 13 0.10
43 118 0.90
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (43 bp):
ATAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATAA
Found at i:27730931 original size:22 final size:22
Alignment explanation
Indices: 27730863--27730932 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
27730853 TCATGTCTCG
27730863 AAATGAGCATGAGATTATAAAT
1 AAATGAGCATGAGATTATAAAT
* **
27730885 AAATG-G-A--AGACTCATATCT
1 AAATGAGCATGAGA-TTATAAAT
27730904 CGAAATGAGCATGAGATTATAAAT
1 --AAATGAGCATGAGATTATAAAT
27730928 AAATG
1 AAATG
27730933 GAAGACTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 3 0.09
19 5 0.14
20 1 0.03
21 6 0.17
22 11 0.31
23 1 0.03
24 5 0.14
25 3 0.09
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.26
Consensus pattern (22 bp):
AAATGAGCATGAGATTATAAAT
Found at i:27731060 original size:42 final size:42
Alignment explanation
Indices: 27731014--27731128 Score: 203
Period size: 42 Copynumber: 2.7 Consensus size: 42
27731004 GATTAAGTTT
27731014 AAAGGAAGACTTATGTCTCGGTAGAGCATATGATTTGTTTAA
1 AAAGGAAGACTTATGTCTCGGTAGAGCATATGATTTGTTTAA
27731056 AAAGGAAGACTTATGTCTCGGTAGAGCATATGATTTGTTTAA
1 AAAGGAAGACTTATGTCTCGGTAGAGCATATGATTTGTTTAA
* *
27731098 AAAGGAAGACTTATGACTCGGTTGGAGCATA
1 AAAGGAAGACTTATGTCTCGG-TAGAGCATA
27731129 AGGTTAATTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 62 0.89
43 8 0.11
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (42 bp):
AAAGGAAGACTTATGTCTCGGTAGAGCATATGATTTGTTTAA
Found at i:27734942 original size:101 final size:101
Alignment explanation
Indices: 27734744--27734973 Score: 228
Period size: 101 Copynumber: 2.3 Consensus size: 101
27734734 TCAATCCAAT
* * * * * * * * * *
27734744 CCACTGCAACTTCACGGATATAGGATTTGATGTTATAGATTCATCTTACTCCACTACAACTTCAG
1 CCACTACAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTTATCCTGCTCCACTACAACTTCAG
* * * *
27734809 TGAGATAAAGATTTACTTTCATGACTTTAATCTGAC
66 AGAGATAAAGATTCACCTTCATGACTTCAATCTGAC
* * * *
27734845 CCACTACAATTTTAGGGGTATAAGATTTGGTTTTGTAGCTTTATCCTGCTCCACTGCAACTTCAG
1 CCACTACAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTTATCCTGCTCCACTACAACTTCAG
* * * *
27734910 AGAGATAAGGATTCGCCTTCGT-AGCTTCAATCTGAT
66 AGAGATAAAGATTCACCTTCATGA-CTTCAATCTGAC
* *
27734946 CCACTGCAACTTCAGGGATATAGGATTT
1 CCACTACAACTTCAGGGATATAAGATTT
27734974 AGCTTCACTC
Statistics
Matches: 101, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
100 1 0.01
101 100 0.99
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (101 bp):
CCACTACAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTTATCCTGCTCCACTACAACTTCAG
AGAGATAAAGATTCACCTTCATGACTTCAATCTGAC
Found at i:27735215 original size:51 final size:51
Alignment explanation
Indices: 27735108--27735262 Score: 206
Period size: 50 Copynumber: 3.1 Consensus size: 51
27735098 AACTTCAGGA
* * * * *
27735108 GTATAAGATTCTCCCTTGCGGCTTCAATCTGCCA-TTCTATAGCTTTAGGT
1 GTATGAGATTCGCCATTGCGGCTTCAATCTACCACCTCTATAGCTTTAGGT
* *
27735158 GTATGAGATTCGCCATTGTGGCTTCAATCTACCACCTCTACAGCTTTAGGT
1 GTATGAGATTCGCCATTGCGGCTTCAATCTACCACCTCTATAGCTTTAGGT
* * *
27735209 GTATGAGATTCGCCATTGCGGCTTCAATCCATC-CCTCTATAGCTTTAGGG
1 GTATGAGATTCGCCATTGCGGCTTCAATCTACCACCTCTATAGCTTTAGGT
27735259 GTAT
1 GTAT
27735263 AGGATTTAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 48 0.52
51 44 0.48
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (51 bp):
GTATGAGATTCGCCATTGCGGCTTCAATCTACCACCTCTATAGCTTTAGGT
Found at i:27741481 original size:62 final size:61
Alignment explanation
Indices: 27741379--27741605 Score: 281
Period size: 62 Copynumber: 3.8 Consensus size: 61
27741369 ACATCTGATA
* * * * *
27741379 ACTCATGATGACACAGAGTCATTGGACCTTAAATCTGTAATAGGATTCATTTCCCATTTAAT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTT-CCATTTAAT
27741441 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCTCATTTAAT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTC-CATTTAAT
**
27741503 ACTCACGATGACACAAAGTCATCAAACCTTTAATCCGTAATAGGATTCA--T--A--T-AT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCCATTTAAT
* * * *
27741557 -CTCACGATGACATAGATTCATTGGACCTTTAATCCGTAATAGGATTCAT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
27741606 ATACTCACGA
Statistics
Matches: 150, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
53 42 0.28
54 2 0.01
55 1 0.01
57 1 0.01
60 1 0.01
61 1 0.01
62 102 0.68
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (61 bp):
ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCCATTTAAT
Found at i:27741635 original size:52 final size:52
Alignment explanation
Indices: 27741501--27741638 Score: 213
Period size: 53 Copynumber: 2.6 Consensus size: 52
27741491 TTCTCATTTA
* **
27741501 ATACTCACGATGACACAAAGTCATCAAACCTTTAATCCGTAATAGGATTCAT
1 ATACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * *
27741553 ATATCTCACGATGACATAGATTCATTGGACCTTTAATCCGTAATAGGATTCAT
1 ATA-CTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
27741606 ATACTCACGATGACACAGAGTCATCGGACCTTT
1 ATACTCACGATGACACAGAGTCATCGGACCTTT
27741639 TTGCATTTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
52 30 0.39
53 46 0.61
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (52 bp):
ATACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
Found at i:27752926 original size:21 final size:21
Alignment explanation
Indices: 27752902--27752953 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
27752892 TGAGACAATA
27752902 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* * *
27752923 CTACCAAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
*
27752944 CTATCGATAC
1 CTACCGATAC
27752954 TAAAAACTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:27753709 original size:52 final size:52
Alignment explanation
Indices: 27753621--27753968 Score: 500
Period size: 52 Copynumber: 6.7 Consensus size: 52
27753611 ATTCCATTTA
* * * ** * *
27753621 ATACTTACGATGACACATAGTCATCGAACCTCTTAATCTGTGAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGAACTTTTTAATCCATAAAGGATTCAT
* *
27753673 ATACTCACGATGACACATAGTCATCGGACTTTTTAATCCATAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGAACTTTTTAATCCATAAAGGATTCAT
* * *
27753725 ATACTTACGATGACACATAGTCATC-AGACCTTTTAATCCATAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGA-ACTTTTTAATCCATAAAGGATTCAT
*
27753777 ATACTCACGATGACACATAGTCATCGAACATTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACTTTTTAATCCATAAAGGATTCAT
* *
27753829 ATACTCACGATGACACATAGTCATCGAACATTTTAATCCATGAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACTTTTTAATCCATAAAGGATTCAT
*
27753881 ATACTCACGATAACACATAGTCATCGAACCTTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAA-CTTTTTAATCCATAAAGGATTCAT
* *
27753934 ATACTCACAATGACACATAGTCATCAGACCTTTTT
1 ATACTCACGATGACACATAGTCATC-GAACTTTTT
27753969 TATTTACAAC
Statistics
Matches: 268, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
52 214 0.80
53 52 0.19
54 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACTTTTTAATCCATAAAGGATTCAT
Found at i:27757168 original size:12 final size:13
Alignment explanation
Indices: 27757142--27757174 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27757132 TACAAAACAG
27757142 AAATGAAAATAAC
1 AAATGAAAATAAC
27757155 AAATGAAAAT-AC
1 AAATGAAAATAAC
*
27757167 AAAGGAAA
1 AAATGAAA
27757175 TTAAAACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (13 bp):
AAATGAAAATAAC
Found at i:27758877 original size:25 final size:25
Alignment explanation
Indices: 27758832--27758880 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
27758822 ACGTCTTTGG
** *
27758832 TAAAAAAAATTTGACCTTTAAAAAT
1 TAAAAAAAATTAAACCCTTAAAAAT
27758857 TAAAAAAAATTAAACCCTTAAAAA
1 TAAAAAAAATTAAACCCTTAAAAA
27758881 CTGAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (25 bp):
TAAAAAAAATTAAACCCTTAAAAAT
Found at i:27758887 original size:25 final size:25
Alignment explanation
Indices: 27758832--27758888 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
27758822 ACGTCTTTGG
** * *
27758832 TAAAAAAAATTTGACCTTTAAAAAT
1 TAAAAAAAATTAAACCCTTAAAAAC
27758857 TAAAAAAAATTAAACCCTTAAAAAC
1 TAAAAAAAATTAAACCCTTAAAAAC
*
27758882 TGAAAAA
1 TAAAAAA
27758889 TAATATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.25
Consensus pattern (25 bp):
TAAAAAAAATTAAACCCTTAAAAAC
Found at i:27759797 original size:38 final size:37
Alignment explanation
Indices: 27759721--27759798 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
27759711 AAATATTTAT
* * **
27759721 AAATATAAAAAAATAATTAATTTTTATAAATTACAAA
1 AAATAAAAAAAAATAATTAAATTTTATAAAAGACAAA
*
27759758 AAATAAAAAGAAAATAATATAAATTTTA-AAAAGATAAA
1 AAATAAAAA-AAAATAAT-TAAATTTTATAAAAGACAAA
27759796 AAA
1 AAA
27759799 ATTCAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 8 0.24
38 18 0.53
39 8 0.24
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (37 bp):
AAATAAAAAAAAATAATTAAATTTTATAAAAGACAAA
Found at i:27759904 original size:12 final size:12
Alignment explanation
Indices: 27759887--27759911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27759877 CTTTTAAAAA
27759887 ATAAAAATAGTT
1 ATAAAAATAGTT
27759899 ATAAAAATAGTT
1 ATAAAAATAGTT
27759911 A
1 A
27759912 AATTTATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAAAAATAGTT
Found at i:27762707 original size:23 final size:23
Alignment explanation
Indices: 27762676--27762769 Score: 100
Period size: 23 Copynumber: 4.0 Consensus size: 23
27762666 TATTGACTCA
*
27762676 TTTATATGTTCATGAGCATGTTCG
1 TTTA-ATGTTCATGAACATGTTCG
*
27762700 TTTAATGTTTATGAACATGTTCG
1 TTTAATGTTCATGAACATGTTCG
* * *
27762723 ATTAATGCTCGTGAACATGTTCG
1 TTTAATGTTCATGAACATGTTCG
* *
27762746 ATTAA-GTTAAATGAACATGTTCG
1 TTTAATGTT-CATGAACATGTTCG
27762769 T
1 T
27762770 GAACATTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
22 2 0.03
23 53 0.90
24 4 0.07
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (23 bp):
TTTAATGTTCATGAACATGTTCG
Found at i:27764226 original size:15 final size:17
Alignment explanation
Indices: 27764206--27764243 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
27764196 AACCTATTAA
27764206 AAATTATAAAAAT-AT-
1 AAATTATAAAAATGATG
*
27764221 AAATTATTAAAATGATG
1 AAATTATAAAAATGATG
27764238 AAATTA
1 AAATTA
27764244 CATTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AAATTATAAAAATGATG
Found at i:27767003 original size:84 final size:84
Alignment explanation
Indices: 27766859--27767026 Score: 257
Period size: 84 Copynumber: 2.0 Consensus size: 84
27766849 ATAAGGATAT
* * * *
27766859 GACGAGATCATCATTCATTCGGATAATCTTGAGAGTTTTATATTCAATTGCGAGAATAAGATTGA
1 GACGAGATCATCATTCATTCGGATAACCTCGAGAGTGTTATATTCAATTGCAAGAATAAGATTGA
27766924 AGG-TCTAAAAAGCACTCTA
66 AGGTTC-AAAAAGCACTCTA
* * *
27766943 GACGAGATCATCATTTATTCGGATAACCTCGAGAGTGTTATATTCATTTGCAAGAGTAAGATTGA
1 GACGAGATCATCATTCATTCGGATAACCTCGAGAGTGTTATATTCAATTGCAAGAATAAGATTGA
27767008 AGGTTCAAAAAGCACTCTA
66 AGGTTCAAAAAGCACTCTA
27767027 ATAAAGAGGA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 74 0.97
85 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (84 bp):
GACGAGATCATCATTCATTCGGATAACCTCGAGAGTGTTATATTCAATTGCAAGAATAAGATTGA
AGGTTCAAAAAGCACTCTA
Found at i:27767373 original size:18 final size:18
Alignment explanation
Indices: 27767346--27767386 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
27767336 ATTCAAATAG
*
27767346 TATAAAAAATTTATAGAAT
1 TATAAAAATTTTATA-AAT
27767365 TATAAAAATTTTATAAAT
1 TATAAAAATTTTATAAAT
27767383 TATA
1 TATA
27767387 TATAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TATAAAAATTTTATAAAT
Found at i:27768092 original size:12 final size:11
Alignment explanation
Indices: 27768056--27768112 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
27768046 AAATTTTATA
*
27768056 TTTTCTATAAC
1 TTTTCTATAAT
*
27768067 TTTTCTATATT
1 TTTTCTATAAT
27768078 TTTTCCTATAAT
1 TTTT-CTATAAT
*
27768090 TTTT-AATAAT
1 TTTTCTATAAT
*
27768100 TTTTCTATCAT
1 TTTTCTATAAT
27768111 TT
1 TT
27768113 CTAAAAAGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 9 0.24
11 19 0.50
12 10 0.26
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTCTATAAT
Found at i:27770013 original size:14 final size:14
Alignment explanation
Indices: 27769972--27770022 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
27769962 AGTTTTTATC
*
27769972 TTCAATTTTTTTTT
1 TTCAATTTTTCTTT
*
27769986 TTC--TTTTCTGTTT
1 TTCAATTTT-TCTTT
*
27769999 TTCACTTTTTCTTT
1 TTCAATTTTTCTTT
27770013 TTCAATTTTT
1 TTCAATTTTT
27770023 TTTCACTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 4 0.13
13 7 0.23
14 16 0.52
15 4 0.13
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (14 bp):
TTCAATTTTTCTTT
Found at i:27770189 original size:30 final size:30
Alignment explanation
Indices: 27770125--27770199 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
27770115 TATTTGATAT
* * *
27770125 TTTTATAATTTTTAAAAAATTAAATTAAAT
1 TTTTATTATTTTTAAAAAATTAAAGTAAAC
*
27770155 TTTTATTATTTTTAAAAAGA-TAAAGTATAC
1 TTTTATTATTTTTAAAAA-ATTAAAGTAAAC
27770185 TTTTATT-TTTATTAA
1 TTTTATTATTT-TTAA
27770200 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 35 0.90
31 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTTATTATTTTTAAAAAATTAAAGTAAAC
Found at i:27770229 original size:17 final size:17
Alignment explanation
Indices: 27770198--27770231 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27770188 TATTTTTATT
**
27770198 AATTTAAAATTTTAAAA
1 AATTTAAAAGATTAAAA
27770215 AATTTAAAAGATTAAAA
1 AATTTAAAAGATTAAAA
27770232 TAAATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAAGATTAAAA
Found at i:27770673 original size:9 final size:9
Alignment explanation
Indices: 27770661--27770727 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
27770651 ACTAATTTTT
27770661 AAATTTTAA
1 AAATTTTAA
27770670 AAATTTTAA
1 AAATTTTAA
*
27770679 AAATTTAAA
1 AAATTTTAA
* *
27770688 AAATATAAA
1 AAATTTTAA
*
27770697 AAATATTAAA
1 AAAT-TTTAA
*
27770707 AATATTTTTA
1 AA-ATTTTAA
27770717 AAA-TTTAA
1 AAATTTTAA
27770725 AAA
1 AAA
27770728 CCATTAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
8 7 0.14
9 30 0.60
10 11 0.22
11 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATTTTAA
Found at i:27770682 original size:18 final size:18
Alignment explanation
Indices: 27770661--27770727 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
27770651 ACTAATTTTT
*
27770661 AAATTTTAAAAATTTTAA
1 AAATTTAAAAAATTTTAA
* *
27770679 AAATTTAAAAAATATAAA
1 AAATTTAAAAAATTTTAA
*
27770697 AAATATTAAAAATATTTTTA
1 AAAT-TTAAAAA-ATTTTAA
27770717 AAATTTAAAAA
1 AAATTTAAAAA
27770728 CCATTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 19 0.46
19 14 0.34
20 8 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAAAAAATTTTAA
Found at i:27770746 original size:10 final size:10
Alignment explanation
Indices: 27770661--27770766 Score: 59
Period size: 9 Copynumber: 11.4 Consensus size: 10
27770651 ACTAATTTTT
27770661 AAATT-TTAA
1 AAATTATTAA
27770670 AAATT-TTAA
1 AAATTATTAA
27770679 AAA-T-TTAA
1 AAATTATTAA
*
27770687 AAAATA-TAA
1 AAATTATTAA
*
27770696 AAAATATTAA
1 AAATTATTAA
* *
27770706 AAATATTTTTA
1 AAAT-TATTAA
27770717 AAA-T-TTAA
1 AAATTATTAA
**
27770725 AAACCATT-A
1 AAATTATTAA
*
27770734 AAATTATTCA
1 AAATTATTAA
*
27770744 AAAGTA-TAA
1 AAATTATTAA
*
27770753 AAATTATAAA
1 AAATTATTAA
27770763 AAAT
1 AAAT
27770767 ATTTTTTAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
8 14 0.18
9 37 0.47
10 20 0.26
11 7 0.09
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:27770764 original size:18 final size:17
Alignment explanation
Indices: 27770661--27770764 Score: 50
Period size: 17 Copynumber: 5.7 Consensus size: 17
27770651 ACTAATTTTT
* *
27770661 AAATTTTAAAAATTTTAA
1 AAATTATAAAAA-TATAA
27770679 AAATT-TAAAAAATATAA
1 AAATTAT-AAAAATATAA
* *
27770696 AAAATATTAAAAATATTTTTA
1 AAATTA-TAAAAATA---TAA
* *
27770717 AAATT-TAAAAACCATTA
1 AAATTATAAAAA-TATAA
*
27770734 AAATTATTCAAAAGTATAA
1 AAATTA-T-AAAAATATAA
27770753 AAATTATAAAAA
1 AAATTATAAAAA
27770765 ATATTTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
17 21 0.31
18 18 0.27
19 17 0.25
20 5 0.07
21 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.35
Consensus pattern (17 bp):
AAATTATAAAAATATAA
Found at i:27770765 original size:19 final size:18
Alignment explanation
Indices: 27770661--27770768 Score: 67
Period size: 19 Copynumber: 5.9 Consensus size: 18
27770651 ACTAATTTTT
* * *
27770661 AAATTTTAAAAATTTTAA
1 AAATTATAAAAAATATAA
27770679 AAATT-TAAAAAATATAA
1 AAATTATAAAAAATATAA
* * *
27770696 AAAATATTAAAAATATTTTTA
1 AAATTA-TAAAAA-A-TATAA
** *
27770717 AAATT-TAAAAACCATTA
1 AAATTATAAAAAATATAA
* *
27770734 AAATTATTCAAAAGTATAA
1 AAATTA-TAAAAAATATAA
27770753 AAATTATAAAAAATAT
1 AAATTATAAAAAATAT
27770769 TTTTTAAAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
17 22 0.32
18 13 0.19
19 26 0.38
20 1 0.01
21 7 0.10
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
AAATTATAAAAAATATAA
Found at i:27777153 original size:30 final size:29
Alignment explanation
Indices: 27777073--27777185 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 29
27777063 TAATAGTCCG
* *
27777073 TGTGGCAGGTCGTGTGGGTAACACGGTCA
1 TGTGGCAGGTCGTGTGGGTCACACGGCCA
* * * * *
27777102 TGTGGTAAGCCATGTGGGTCACATGGCCA
1 TGTGGCAGGTCGTGTGGGTCACACGGCCA
* *
27777131 AGTGGCAGGTCGTGTGGGGTCACACGACCA
1 TGTGGCAGGTCGTGT-GGGTCACACGGCCA
* * *
27777161 TGTGGTAGGTCGTATAGGTCACACG
1 TGTGGCAGGTCGTGTGGGTCACACG
27777186 ACTGTGTGAC
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
29 41 0.63
30 24 0.37
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.23
Consensus pattern (29 bp):
TGTGGCAGGTCGTGTGGGTCACACGGCCA
Found at i:27782830 original size:51 final size:52
Alignment explanation
Indices: 27782715--27782842 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 52
27782705 AAAAAGGTCT
* * *
27782715 GATGATTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGCCA
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGCCA
*
27782767 GATGACTATGTGTCATTGTGAGTATATGAATCC-TTACAGATTA-AGAGGTCCA
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATA-AGG-CCA
27782819 -ATGACTATGTGTCATCGTGAGTAT
1 GATGACTATGTGTCATCGTGAGTAT
27782843 TAAATTGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
50 1 0.01
51 35 0.51
52 33 0.48
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGCCA
Found at i:27796291 original size:52 final size:52
Alignment explanation
Indices: 27796213--27796326 Score: 210
Period size: 52 Copynumber: 2.2 Consensus size: 52
27796203 TGCAAAAAGG
27796213 TCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGA
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGA
*
27796265 TCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGA
*
27796317 TCTGATGACT
1 TCCGATGACT
27796327 GTGAATCCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGA
Found at i:27799197 original size:28 final size:28
Alignment explanation
Indices: 27799156--27799238 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 28
27799146 CTATGTGAAT
* *
27799156 TTAGCACTTTGTGTGCTCTCTATTCTGA
1 TTAGTACTTTGTGTGCTCTCTGTTCTGA
* *
27799184 TTTGTACTTTGTGTGCTCTCTGTTTTGA
1 TTAGTACTTTGTGTGCTCTCTGTTCTGA
*
27799212 TTAGTACTTTGTTTGCTCTCTGTTCTG
1 TTAGTACTTTGTGTGCTCTCTGTTCTG
27799239 TAATAGCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.10, C:0.18, G:0.19, T:0.53
Consensus pattern (28 bp):
TTAGTACTTTGTGTGCTCTCTGTTCTGA
Found at i:27800911 original size:14 final size:14
Alignment explanation
Indices: 27800874--27800915 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27800864 CTATATTTTA
27800874 AATATTTAAATA-T
1 AATATTTAAATATT
27800887 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
27800901 TATATTTAAATATT
1 AATATTTAAATATT
27800915 A
1 A
27800916 GCACAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:27802724 original size:72 final size:72
Alignment explanation
Indices: 27802627--27802876 Score: 419
Period size: 72 Copynumber: 3.5 Consensus size: 72
27802617 TTTTACATCT
* * * * * *
27802627 AAAATCAAATATAAACAACTATTGATAAAACTAAATTACACGTAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATTAATTCA
27802692 ATATCCA
66 ATATCCA
*
27802699 AAAACCATACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATTAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATTAATTCA
*
27802764 ATATCCG
66 ATATCCA
27802771 AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATTAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATTAATTCA
27802836 ATATCCA
66 ATATCCA
*
27802843 ATAACCAAACATAAACAACTATTGATAAAACTAG
1 AAAACCAAACATAAACAACTATTGATAAAACTAG
27802877 TTTAGCATTG
Statistics
Matches: 167, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 167 1.00
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATTAATTCA
ATATCCA
Found at i:27803335 original size:18 final size:18
Alignment explanation
Indices: 27803306--27803375 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
27803296 TGTTTCCATC
27803306 AATGTTAACATCATTTGA
1 AATGTTAACATCATTTGA
*
27803324 AAT-TTGAACATCATTTGG
1 AATGTT-AACATCATTTGA
* *
27803342 AGTGTTAACATCATTTAA
1 AATGTTAACATCATTTGA
27803360 AATGTTAACATCATTT
1 AATGTTAACATCATTT
27803376 CCTGCATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
17 2 0.04
18 41 0.91
19 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
AATGTTAACATCATTTGA
Found at i:27815262 original size:28 final size:28
Alignment explanation
Indices: 27815230--27815308 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
27815220 GTGTATTTAC
* *
27815230 CACTTTGTGTGCACTCTATTCTGATTAG
1 CACTTTGTGTGCTCTCTGTTCTGATTAG
* * *
27815258 TACTTTGTGTGGTCTCTGTTTTGATTAG
1 CACTTTGTGTGCTCTCTGTTCTGATTAG
27815286 CACTTTGTGTGCTCTCTGTTCTG
1 CACTTTGTGTGCTCTCTGTTCTG
27815309 TAATAACACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (28 bp):
CACTTTGTGTGCTCTCTGTTCTGATTAG
Found at i:27817477 original size:39 final size:39
Alignment explanation
Indices: 27817415--27817587 Score: 188
Period size: 39 Copynumber: 4.4 Consensus size: 39
27817405 CTGAACTAGT
* *
27817415 AGTGACATTGTAACCACTACAATACATTATTGAATCGAC
1 AGTGACATTGTAAACACTACAATACATTACTGAATCGAC
* *
27817454 AGTGACATTGTAAACACTGCAATACATTACTGAATCGAT
1 AGTGACATTGTAAACACTACAATACATTACTGAATCGAC
** * *
27817493 AGTGACACCGTAAACACTGCAATACATTACTGAA-CTGGC
1 AGTGACATTGTAAACACTACAATACATTACTGAATC-GAC
* * * *
27817532 AATGACACTT-TAAACACTACAATACACTACTGAGTTGAC
1 AGTGACA-TTGTAAACACTACAATACATTACTGAATCGAC
* *
27817571 GGTGACACTGTAAACAC
1 AGTGACATTGTAAACAC
27817588 CATGAAGCTA
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 109 0.98
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (39 bp):
AGTGACATTGTAAACACTACAATACATTACTGAATCGAC
Found at i:27825276 original size:60 final size:60
Alignment explanation
Indices: 27825183--27825299 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 60
27825173 ATGCCATGGT
* * * * *
27825183 CGTGTGCTAGGCCGTGTGATCGTACTGTTTTGAGGAA-TCAGAAACAGTGAGTTACACGGG
1 CGTGTGCTAGACCGTGTGAGCATACTGTTTTGA-GAAGTCAAAAACAATGAGTTACACGGG
*
27825243 CGTGTGCTAGACCGTGTGAGCATA-TTTGTTTGAGAAGTCAAAAACAATGAGTTACAC
1 CGTGTGCTAGACCGTGTGAGCATACTGT-TTTGAGAAGTCAAAAACAATGAGTTACAC
27825300 AGGCTGGACA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 5 0.10
60 44 0.90
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (60 bp):
CGTGTGCTAGACCGTGTGAGCATACTGTTTTGAGAAGTCAAAAACAATGAGTTACACGGG
Found at i:27825591 original size:39 final size:39
Alignment explanation
Indices: 27825494--27825682 Score: 229
Period size: 39 Copynumber: 4.8 Consensus size: 39
27825484 GGGATCTCGA
* * *
27825494 ATTACTGAA-CTAGCAGTGACATTGTAACCACTGCAATAC
1 ATTACTGAATCGA-CAGTGACACTGTAAACACTGCAATAC
27825533 AATTACTGAATCGACAGTGACACTGTAAACACTGCAATAC
1 -ATTACTGAATCGACAGTGACACTGTAAACACTGCAATAC
* *
27825573 ATTACTGAATCGATAGTGACACTGTAAACACTGTAATAC
1 ATTACTGAATCGACAGTGACACTGTAAACACTGCAATAC
*
27825612 ATTACTGAA-CTAGCAGTGACACTGTAAACACTGCAATAC
1 ATTACTGAATCGA-CAGTGACACTGTAAACACTGCAATAC
* * * * *
27825651 AATACTGAGTTTGACGGTGACATTGTAAACAC
1 ATTACTGA-ATCGACAGTGACACTGTAAACAC
27825683 CCGAAGCTAG
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.02
39 77 0.59
40 49 0.37
41 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (39 bp):
ATTACTGAATCGACAGTGACACTGTAAACACTGCAATAC
Found at i:27830662 original size:23 final size:23
Alignment explanation
Indices: 27830636--27830681 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
27830626 GTAACAGAAT
*
27830636 AGAACACCATCC-AAGCGTATAAA
1 AGAACACCA-CCGAAGCGGATAAA
27830659 AGAACACCACCGAAGCGGATAAA
1 AGAACACCACCGAAGCGGATAAA
27830682 CAGAGAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (23 bp):
AGAACACCACCGAAGCGGATAAA
Found at i:27830763 original size:25 final size:25
Alignment explanation
Indices: 27830677--27830756 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
27830667 ACCGAAGCGG
*
27830677 ATAAACAGAGAGCACTAACGTGCTA
1 ATAATCAGAGAGCACTAACGTGCTA
* *
27830702 ATAATCAGAGAGCATTGACGTGCTA
1 ATAATCAGAGAGCACTAACGTGCTA
*
27830727 ATAATCAGAGAGCACTAATGTGCTA
1 ATAATCAGAGAGCACTAACGTGCTA
27830752 ATAAT
1 ATAAT
27830757 ATGAGAGTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (25 bp):
ATAATCAGAGAGCACTAACGTGCTA
Found at i:27837971 original size:29 final size:29
Alignment explanation
Indices: 27837912--27837972 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
27837902 AGCGGACCGC
* *
27837912 GTGGGTCACACGACCATGTGGTAGGTCAT
1 GTGGGTCACACAACCATGTGGTAGCTCAT
* *
27837941 GTGGGTCACACAATCGTGTGGTAGACT-AT
1 GTGGGTCACACAACCATGTGGTAG-CTCAT
27837970 GTG
1 GTG
27837973 ATAGACTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.26
Consensus pattern (29 bp):
GTGGGTCACACAACCATGTGGTAGCTCAT
Found at i:27838997 original size:47 final size:47
Alignment explanation
Indices: 27838938--27839083 Score: 193
Period size: 47 Copynumber: 3.1 Consensus size: 47
27838928 TGCTTTGGTG
* * * *
27838938 GCATTTTGATTGGCCTTTTTGGCATACTTCTAATTAGCTTTTGTGGC
1 GCATTTTGATTGGCCTTTGTGGCGTACTTCTAATTAGCCTTTGTGAC
* **
27838985 GCATTTTAATTGGCCTTTGTGGCGTACTTCTGTTTAGCCTTTGTGAC
1 GCATTTTGATTGGCCTTTGTGGCGTACTTCTAATTAGCCTTTGTGAC
* ** *
27839032 GCATTTTGATTGGCCTTTGTGGCGTACTCCTGCTTAGCCTTTGTGAT
1 GCATTTTGATTGGCCTTTGTGGCGTACTTCTAATTAGCCTTTGTGAC
27839079 GCATT
1 GCATT
27839084 CTGTTTAGTC
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (47 bp):
GCATTTTGATTGGCCTTTGTGGCGTACTTCTAATTAGCCTTTGTGAC
Found at i:27839002 original size:24 final size:23
Alignment explanation
Indices: 27838938--27839055 Score: 101
Period size: 23 Copynumber: 5.0 Consensus size: 23
27838928 TGCTTTGGTG
*
27838938 GCATTTTGATTGGCCTTTTTGGC
1 GCATTTTGATTGGCCTTTGTGGC
** * * * *
27838961 ATACTTCTAATTAGCTTTTGTGGC
1 GCA-TTTTGATTGGCCTTTGTGGC
*
27838985 GCATTTTAATTGGCCTTTGTGGC
1 GCATTTTGATTGGCCTTTGTGGC
* * * * *
27839008 GTACTTCTGTTTAGCCTTTGTGAC
1 GCA-TTTTGATTGGCCTTTGTGGC
27839032 GCATTTTGATTGGCCTTTGTGGC
1 GCATTTTGATTGGCCTTTGTGGC
27839055 G
1 G
27839056 TACTCCTGCT
Statistics
Matches: 70, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
23 37 0.53
24 33 0.47
ACGTcount: A:0.13, C:0.18, G:0.25, T:0.45
Consensus pattern (23 bp):
GCATTTTGATTGGCCTTTGTGGC
Found at i:27839076 original size:24 final size:24
Alignment explanation
Indices: 27838944--27839076 Score: 108
Period size: 24 Copynumber: 5.6 Consensus size: 24
27838934 GGTGGCATTT
* * *
27838944 TGATTGGCCTTTTTGGCATACTTC
1 TGATTAGCCTTTGTGGCGTACTTC
* * * *
27838968 TAATTAGCTTTTGTGGCGCA-TTT
1 TGATTAGCCTTTGTGGCGTACTTC
* *
27838991 TAATTGGCCTTTGTGGCGTACTTC
1 TGATTAGCCTTTGTGGCGTACTTC
* * * *
27839015 TGTTTAGCCTTTGTGACGCA-TTT
1 TGATTAGCCTTTGTGGCGTACTTC
* *
27839038 TGATTGGCCTTTGTGGCGTACTCC
1 TGATTAGCCTTTGTGGCGTACTTC
*
27839062 TGCTTAGCCTTTGTG
1 TGATTAGCCTTTGTG
27839077 ATGCATTCTG
Statistics
Matches: 82, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
23 37 0.45
24 45 0.55
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.44
Consensus pattern (24 bp):
TGATTAGCCTTTGTGGCGTACTTC
Found at i:27839096 original size:23 final size:24
Alignment explanation
Indices: 27839065--27839122 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
27839055 GTACTCCTGC
* *
27839065 TTAGCCTTTGTGA-TGCATTCTGT
1 TTAGTCTTTGTGAGTGCATTCTAT
27839088 TTAGTCTTTGT-AGTGCATTCTAT
1 TTAGTCTTTGTGAGTGCATTCTAT
27839111 TT-GTTCTTTGTG
1 TTAG-TCTTTGTG
27839123 GCATAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.53
Consensus pattern (24 bp):
TTAGTCTTTGTGAGTGCATTCTAT
Found at i:27839624 original size:122 final size:122
Alignment explanation
Indices: 27839407--27839648 Score: 385
Period size: 122 Copynumber: 2.0 Consensus size: 122
27839397 TGTTTATGAC
* *
27839407 TAGTCTAAGTGCTTGTTAGACTGTGTTTGTTTACGATATGTAAGGGTGAAATCTGAGCCATCTGG
1 TAGTCTAAGTGCTCGCTAGACTGTGTTTGTTTACGATATGTAAGGGTGAAATCTGAGCCATCTGG
* * * *
27839472 AATTCTGTAAGAAGATTTAGAACGATGTATCAATAGTATGAGTTTGATGCGGGATAA
66 AATTCTGTAAGAAGATTTAGAACAATGTATCAATAATACGAGTTTAATGCGGGATAA
* *
27839529 TAGTCTAAGTGCTCGCTAGACTGTGTTTGTTTATGATATGTAAGGGTGAAATCTGAGTCATCTGG
1 TAGTCTAAGTGCTCGCTAGACTGTGTTTGTTTACGATATGTAAGGGTGAAATCTGAGCCATCTGG
* * *
27839594 AATTTTGTAAGAAGATTTAGAGCAATGTATCAGTAATACGAGTTTAATGCGGGAT
66 AATTCTGTAAGAAGATTTAGAACAATGTATCAATAATACGAGTTTAATGCGGGAT
27839649 TGATTCAAGA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 109 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (122 bp):
TAGTCTAAGTGCTCGCTAGACTGTGTTTGTTTACGATATGTAAGGGTGAAATCTGAGCCATCTGG
AATTCTGTAAGAAGATTTAGAACAATGTATCAATAATACGAGTTTAATGCGGGATAA
Found at i:27854800 original size:30 final size:30
Alignment explanation
Indices: 27854764--27854846 Score: 166
Period size: 30 Copynumber: 2.8 Consensus size: 30
27854754 AAACCTAATA
27854764 TAAAACTCTTAATAAAAACCTGAGTAAAAC
1 TAAAACTCTTAATAAAAACCTGAGTAAAAC
27854794 TAAAACTCTTAATAAAAACCTGAGTAAAAC
1 TAAAACTCTTAATAAAAACCTGAGTAAAAC
27854824 TAAAACTCTTAATAAAAACCTGA
1 TAAAACTCTTAATAAAAACCTGA
27854847 TATAATAAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.53, C:0.17, G:0.06, T:0.24
Consensus pattern (30 bp):
TAAAACTCTTAATAAAAACCTGAGTAAAAC
Found at i:27859065 original size:28 final size:29
Alignment explanation
Indices: 27859032--27859095 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
27859022 TTTTTTTATC
* *
27859032 TAAATTTGAT-TTTTTTTAATTTGATACT
1 TAAATTTGATATTTTTTTAAGTGGATACT
*
27859060 TAAATTTGATATTTTTTTAAGTGGGTACT
1 TAAATTTGATATTTTTTTAAGTGGATACT
27859089 TAAATTT
1 TAAATTT
27859096 TTTTTGGTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (29 bp):
TAAATTTGATATTTTTTTAAGTGGATACT
Found at i:27859377 original size:59 final size:60
Alignment explanation
Indices: 27859314--27859486 Score: 212
Period size: 61 Copynumber: 2.9 Consensus size: 60
27859304 AATTGATTCT
* * *
27859314 AAAAAAA-TCTTAGGTATCAAATTAGGGGAAAA-TGCCAAGTTCAAGTACCAGATT-GCGTC-
1 AAAAAAAGT-TTAGGTATCAAATTA-GGAAAAAGTGTCAAGTTCAAGTACCAAATTAG-GTCA
* *
27859373 AAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTAAAGTTC-AGATACCAAATTAGGTCA
1 AAAAAAAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAAG-TACCAAATTAGGTCA
*
27859433 AAAAAGAAGTTTAAGTATCAAATTAGGAAAAAGTGTCAAGTTCAAGTACCAAAT
1 AAAAA-AAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAAGTACCAAAT
27859487 GTTATATTAA
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
58 7 0.07
59 41 0.41
60 7 0.07
61 42 0.42
62 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAAGTACCAAATTAGGTCA
Found at i:27859412 original size:31 final size:31
Alignment explanation
Indices: 27859377--27859474 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
27859367 TGCGTCAAAA
*
27859377 AAAGTTTAGGTATCAAATTAAGAAAAAGTGT
1 AAAGTTTAGGTATCAAATTAGGAAAAAGTGT
* * * *
27859408 AAAGTTCAGATACCAAATTAGGTCAAAAA-AG-
1 AAAGTTTAGGTATCAAATTAGG--AAAAAGTGT
*
27859439 -AAGTTTAAGTATCAAATTAGGAAAAAGTGT
1 AAAGTTTAGGTATCAAATTAGGAAAAAGTGT
*
27859469 CAAGTT
1 AAAGTT
27859475 CAAGTACCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 5 0.10
29 1 0.02
30 17 0.33
31 23 0.44
32 1 0.02
33 5 0.10
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (31 bp):
AAAGTTTAGGTATCAAATTAGGAAAAAGTGT
Found at i:27859480 original size:31 final size:30
Alignment explanation
Indices: 27859390--27859486 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
27859380 GTTTAGGTAT
*
27859390 CAAATTAAGAAAAAGTGTAAAGTTC-AGATAC
1 CAAATTAGGAAAAAGTGT-AAGTTCAAG-TAC
* * *
27859421 CAAATTAGGTCAAAAA-AG-AAGTTTAAGTAT
1 CAAATTAGG--AAAAAGTGTAAGTTCAAGTAC
27859451 CAAATTAGGAAAAAGTGTCAAGTTCAAGTAC
1 CAAATTAGGAAAAAGTGT-AAGTTCAAGTAC
27859482 CAAAT
1 CAAAT
27859487 GTTATATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
28 5 0.09
29 1 0.02
30 16 0.30
31 25 0.47
32 1 0.02
33 5 0.09
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.24
Consensus pattern (30 bp):
CAAATTAGGAAAAAGTGTAAGTTCAAGTAC
Found at i:27862244 original size:68 final size:68
Alignment explanation
Indices: 27862128--27862440 Score: 326
Period size: 68 Copynumber: 4.6 Consensus size: 68
27862118 CGATATGTGA
* * *
27862128 ACTCCATATGTTGCCATAGCTGAGCTATGATCTTACATATTATGAACTCATGTTTAATGTCCTAG
1 ACTCCATATGTTGCCATAGTTGAGCTATGATCTTACACATTATAAACTCATGTTTAATGTCCTAG
27862193 TGG
66 TGG
* ** * * *
27862196 ACTCTATATGTTTTCATAGTTGAGCTGTGATTTTACACATTATAAACTCATGTTTAATGTTCTAG
1 ACTCCATATGTTGCCATAGTTGAGCTATGATCTTACACATTATAAACTCATGTTTAATGTCCTAG
*
27862261 CGG
66 TGG
* * * * * *
27862264 ACTCCATATGTTGCCATAATTGAGCTATGGTCTTACACGTTATGAA-TCCATGTTTAATGTCATG
1 ACTCCATATGTTGCCATAGTTGAGCTATGATCTTACACATTATAAACT-CATGTTTAATGTCCTA
*
27862328 GTAG
65 GTGG
** * * * * *
27862332 ACTCCATATGTTATCATA-TCCGAGCTATGGTCTCACACATTATAAACCCATGTTTAATGTCCTG
1 ACTCCATATGTTGCCATAGT-TGAGCTATGATCTTACACATTATAAACTCATGTTTAATGTCCTA
**
27862396 GAAG
65 GTGG
* *
27862400 ACTCCAT-TAGATGCCATAGTTGAGCTATGGTCTTACACATT
1 ACTCCATAT-GTTGCCATAGTTGAGCTATGATCTTACACATT
27862441 TACCCCACTA
Statistics
Matches: 202, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
67 3 0.01
68 198 0.98
69 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (68 bp):
ACTCCATATGTTGCCATAGTTGAGCTATGATCTTACACATTATAAACTCATGTTTAATGTCCTAG
TGG
Found at i:27862372 original size:136 final size:136
Alignment explanation
Indices: 27862128--27862440 Score: 389
Period size: 136 Copynumber: 2.3 Consensus size: 136
27862118 CGATATGTGA
* * * *
27862128 ACTCCATATGTTGCCATAGCTGAGCTATGATCTTACATATTATGAACTCATGTTTAATGTCCTAG
1 ACTCCATATGTTGCCATAGTTGAGCTATGGTCTTACACATTATGAACTCATGTTTAATGTCATAG
* * * * * * * * *
27862193 TGGACTCTATATGTTTTCATAGTTGAGCTGTGATTTTACACATTATAAACTCATGTTTAATGTTC
66 TAGACTCCATATGTTATCATAGTCGAGCTATGATCTCACACATTATAAACCCATGTTTAATGTCC
**
27862258 TAGCGG
131 TAGAAG
* * *
27862264 ACTCCATATGTTGCCATAATTGAGCTATGGTCTTACACGTTATGAA-TCCATGTTTAATGTCATG
1 ACTCCATATGTTGCCATAGTTGAGCTATGGTCTTACACATTATGAACT-CATGTTTAATGTCATA
*
27862328 GTAGACTCCATATGTTATCATA-TCCGAGCTATGGTCTCACACATTATAAACCCATGTTTAATGT
65 GTAGACTCCATATGTTATCATAGT-CGAGCTATGATCTCACACATTATAAACCCATGTTTAATGT
*
27862392 CCTGGAAG
129 CCTAGAAG
*
27862400 ACTCCAT-TAGATGCCATAGTTGAGCTATGGTCTTACACATT
1 ACTCCATAT-GTTGCCATAGTTGAGCTATGGTCTTACACATT
27862441 TACCCCACTA
Statistics
Matches: 151, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
135 3 0.02
136 148 0.98
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (136 bp):
ACTCCATATGTTGCCATAGTTGAGCTATGGTCTTACACATTATGAACTCATGTTTAATGTCATAG
TAGACTCCATATGTTATCATAGTCGAGCTATGATCTCACACATTATAAACCCATGTTTAATGTCC
TAGAAG
Found at i:27866178 original size:19 final size:19
Alignment explanation
Indices: 27866156--27866200 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27866146 TTATATTAGG
27866156 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
27866175 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
27866194 ATTTAAT
1 ATTTAAT
27866201 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:27868626 original size:21 final size:21
Alignment explanation
Indices: 27868601--27868650 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
27868591 GAATTTTAGC
*
27868601 AGCAATCTATAGATTTCCAAA
1 AGCAAACTATAGATTTCCAAA
* * *
27868622 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTCCAAA
*
27868643 AGAAAACT
1 AGCAAACT
27868651 GAGGCATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (21 bp):
AGCAAACTATAGATTTCCAAA
Found at i:27868651 original size:21 final size:21
Alignment explanation
Indices: 27868612--27868651 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27868602 GCAATCTATA
*
27868612 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
27868633 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
27868652 AGGCATCTAT
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:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:27872373 original size:26 final size:25
Alignment explanation
Indices: 27872344--27872398 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
27872334 TTTTTTTATT
*
27872344 TTTTATTTTTTTATTT-TTCTATCTTA
1 TTTTATTTATTTATTTATT-TAT-TTA
27872370 TTTTATTTATTTATTTATTTATTTA
1 TTTTATTTATTTATTTATTTATTTA
27872395 TTTT
1 TTTT
27872399 TGTCCAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.26
26 18 0.67
27 2 0.07
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTATTTATTTATTTATTTATTTA
Found at i:27872380 original size:4 final size:4
Alignment explanation
Indices: 27872338--27872397 Score: 70
Period size: 4 Copynumber: 14.8 Consensus size: 4
27872328 CCAATTTTTT
*
27872338 TTTA TTT- TTTA TTTT TTTA TTT- TTCTA TCTTA TTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA -TTTA TTTA TTTA TTTA
27872387 TTTA TTTA TTT
1 TTTA TTTA TTT
27872398 TTGTCCAGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
3 5 0.10
4 36 0.73
5 6 0.12
6 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:27873200 original size:103 final size:102
Alignment explanation
Indices: 27873086--27873276 Score: 285
Period size: 103 Copynumber: 1.9 Consensus size: 102
27873076 ATGTGTTAGA
* * *
27873086 CTGAGTAACCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAATGCATTC-
1 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAATGCATTCT
27873150 TAAAAAAAAAGAGAAGAAAAAAATTGAGAGCATGTTGGG
66 TAAAAAAAAA-A-AAGAAAAAAATTGAGAGCATGTTGGG
* * *
27873189 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCATTTCGCGTCAAAAGGTCCAATGTATTCT
1 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAATGCATTCT
* *
27873254 TAAAGAAAAAAAAGTAAAAAATT
66 TAAAAAAAAAAAAGAAAAAAATT
27873277 CACAAAATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
102 11 0.14
103 59 0.75
104 9 0.11
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (102 bp):
CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAATGCATTCT
TAAAAAAAAAAAAGAAAAAAATTGAGAGCATGTTGGG
Found at i:27873863 original size:19 final size:19
Alignment explanation
Indices: 27873841--27873885 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27873831 TTATATTAGG
27873841 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
27873860 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
27873879 ATTTAAT
1 ATTTAAT
27873886 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:27880763 original size:146 final size:144
Alignment explanation
Indices: 27880499--27880823 Score: 411
Period size: 146 Copynumber: 2.2 Consensus size: 144
27880489 GATATGAAAA
* * * * *
27880499 TGAGCCCAACTCTAGTTGGATATACCAACAATGTTTTGCGCCAAGCGATAGTCGGATAACCGACG
1 TGAG-CCAGCTCTAGTTGGATAAACCAACAATATTTTGCACCAAGCGATAGTCGGATAACCGACA
* * * * **
27880564 GTATGTGTGCCCAGCACTAGTCAGATAAACTGATGAGGGTTGCGCCCAGCGCTA-TTCGAATAAA
65 GTATGTGTGCCCAACACTAGTCAAATAAACTGATGAAGGTTGCGCCCAACGCTAGTAAG-ATAAA
27880628 CCGACGATGTCAA-TAG
129 CCGACGATGT-AATTAG
* * **
27880644 TGAGCTCAGCTCTAGTTGGATAAAGCAACAATATTTTGCACCCAGCTCTAGTCGGATTAACCGAC
1 TGAGC-CAGCTCTAGTTGGATAAACCAACAATATTTTGCACCAAGCGATAGTCGGA-TAACCGAC
*
27880709 AGTATGTGTGCCTAACACTAGTCAAATAAACTGATGAAGGTTGCGCCCAACGCTAGTAAGATAAA
64 AGTATGTGTGCCCAACACTAGTCAAATAAACTGATGAAGGTTGCGCCCAACGCTAGTAAGATAAA
*
27880774 CTGACGATGTAATTAG
129 CCGACGATGTAATTAG
* *
27880790 TGAGCCTGACTCTAATTGGATAAACCAACAATAT
1 TGAGCCAG-CTCTAGTTGGATAAACCAACAATAT
27880824 ATAATTATTT
Statistics
Matches: 155, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
144 1 0.01
145 50 0.32
146 102 0.66
147 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (144 bp):
TGAGCCAGCTCTAGTTGGATAAACCAACAATATTTTGCACCAAGCGATAGTCGGATAACCGACAG
TATGTGTGCCCAACACTAGTCAAATAAACTGATGAAGGTTGCGCCCAACGCTAGTAAGATAAACC
GACGATGTAATTAG
Found at i:27886287 original size:8 final size:8
Alignment explanation
Indices: 27886276--27886305 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27886266 AAAGAGAATG
27886276 AGAGAGCA
1 AGAGAGCA
*
27886284 AGAGAACA
1 AGAGAGCA
27886292 AGAGAGCA
1 AGAGAGCA
27886300 AGAGAG
1 AGAGAG
27886306 AGAGCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.37, T:0.00
Consensus pattern (8 bp):
AGAGAGCA
Found at i:27915717 original size:51 final size:51
Alignment explanation
Indices: 27915643--27915875 Score: 342
Period size: 51 Copynumber: 4.6 Consensus size: 51
27915633 TTTCATTTAA
* * * * *
27915643 TACTCACGATGACATATTA-TCATCGGACTTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACA-CTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
27915694 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGAATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
27915745 TACTCACGATGACATTTAGGCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
27915796 TACTCATGATGACATTTAGTCATCGGATCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
27915847 TACTCACGATGACACTTAGTCACCGGACC
1 TACTCACGATGACACTTAGTCATCGGACC
27915876 CTTTCGTTTA
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 3 0.02
51 162 0.98
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:27918302 original size:49 final size:49
Alignment explanation
Indices: 27918150--27918322 Score: 161
Period size: 49 Copynumber: 3.5 Consensus size: 49
27918140 CATTGAATCC
* * * * * *
27918150 TATACTCTAAAGATGTGGAGGGAAAGGTTGAAACAGTAACGGCGAACCT
1 TATACCCTAAAGATGTAGAGGGAAAGGTTGAAGCCGCAACGGCAAACCT
* * * * ** *
27918199 TATACCCTAAAGATATAAAGGGAAAGATTGAAGCCACAACGATAAA-TT
1 TATACCCTAAAGATGTAGAGGGAAAGGTTGAAGCCGCAACGGCAAACCT
* *
27918247 TAATACCCTAGAGATGTAGAGGGAAAGGTTGAAGCCGCAATGGCAAACCT
1 T-ATACCCTAAAGATGTAGAGGGAAAGGTTGAAGCCGCAACGGCAAACCT
* *
27918297 TATACCTTAGAGATGT-GAAGGGAAAG
1 TATACCCTAAAGATGTAG-AGGGAAAG
27918323 AATGAAGTCG
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
48 3 0.03
49 93 0.95
50 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.20
Consensus pattern (49 bp):
TATACCCTAAAGATGTAGAGGGAAAGGTTGAAGCCGCAACGGCAAACCT
Found at i:27918329 original size:98 final size:98
Alignment explanation
Indices: 27918151--27918329 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 98
27918141 ATTGAATCCT
* * * *
27918151 ATACTCTAAAGATGTGGAGGGAAAGGTTGAAACAGTAACGGCGAACCTTATACCCTAAAGATATA
1 ATACCCTAAAGATGTAGAGGGAAAGGTTGAAACAGCAACGGCAAACCTTATACCCTAAAGATATA
*
27918216 AAGGGAAAGATTGAAGCCACAACGATAAATTTA
66 AAGGGAAAGAATGAAGCCACAACGATAAATTTA
* * * * * * * *
27918249 ATACCCTAGAGATGTAGAGGGAAAGGTTGAAGCCGCAATGGCAAACCTTATACCTTAGAGATGTG
1 ATACCCTAAAGATGTAGAGGGAAAGGTTGAAACAGCAACGGCAAACCTTATACCCTAAAGATATA
27918314 AAGGGAAAGAATGAAG
66 AAGGGAAAGAATGAAG
27918330 TCGCAAAGGA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
98 68 1.00
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.20
Consensus pattern (98 bp):
ATACCCTAAAGATGTAGAGGGAAAGGTTGAAACAGCAACGGCAAACCTTATACCCTAAAGATATA
AAGGGAAAGAATGAAGCCACAACGATAAATTTA
Found at i:27918348 original size:49 final size:49
Alignment explanation
Indices: 27918194--27918352 Score: 135
Period size: 49 Copynumber: 3.2 Consensus size: 49
27918184 AGTAACGGCG
* * * * * * **
27918194 AACCTTATACCCTAAAGATATAAAGGGAAAGATTGAAGCCACAACGATA
1 AACCTTATACCCTAGAGATGTAGAGGGAAAGAATGAAGCCGCAAAGGCA
* ** *
27918243 AA-TTTAATACCCTAGAGATGTAGAGGGAAAGGTTGAAGCCGCAATGGCA
1 AACCTT-ATACCCTAGAGATGTAGAGGGAAAGAATGAAGCCGCAAAGGCA
* *
27918292 AACCTTATACCTTAGAGATGT-GAAGGGAAAGAATGAAGTCGCAAAGG-A
1 AACCTTATACCCTAGAGATGTAG-AGGGAAAGAATGAAGCCGCAAAGGCA
*
27918340 GAATCTTATACCC
1 -AACCTTATACCC
27918353 CGGAGATGAG
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
48 4 0.04
49 83 0.93
50 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (49 bp):
AACCTTATACCCTAGAGATGTAGAGGGAAAGAATGAAGCCGCAAAGGCA
Found at i:27918351 original size:98 final size:98
Alignment explanation
Indices: 27918143--27918352 Score: 228
Period size: 98 Copynumber: 2.1 Consensus size: 98
27918133 GAGGAAACAT
* * * * *
27918143 TGAATCCTATACTCTAAAGATGTGGAGGGAAAGGTTGAAACAGTAACGGCGAACCTTATACCCTA
1 TGAATCTTATACCCTAAAGATGTAGAGGGAAAGGTTGAAACAGCAACGGCAAACCTTATACCCTA
*
27918208 AAGATATAAAGGGAAAGATTGAAGCCACAACGA
66 AAGATATAAAGGGAAAGAATGAAGCCACAACGA
* * * * * *
27918241 TAAAT-TTAATACCCTAGAGATGTAGAGGGAAAGGTTGAAGCCGCAATGGCAAACCTTATACCTT
1 TGAATCTT-ATACCCTAAAGATGTAGAGGGAAAGGTTGAAACAGCAACGGCAAACCTTATACCCT
* * * *
27918305 AGAGATGTGAAGGGAAAGAATGAAGTCGCA-AAGGA
65 AAAGATATAAAGGGAAAGAATGAAG-C-CACAACGA
27918340 -GAATCTTATACCC
1 TGAATCTTATACCC
27918353 CGGAGATGAG
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
97 1 0.01
98 81 0.89
99 7 0.08
100 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (98 bp):
TGAATCTTATACCCTAAAGATGTAGAGGGAAAGGTTGAAACAGCAACGGCAAACCTTATACCCTA
AAGATATAAAGGGAAAGAATGAAGCCACAACGA
Found at i:27918928 original size:114 final size:114
Alignment explanation
Indices: 27918602--27919340 Score: 812
Period size: 114 Copynumber: 6.6 Consensus size: 114
27918592 ACAGTGGGTC
* * * * * *
27918602 GAATTAAAACAACGAAA--CGAGCTCAACATCCCTAAGGATACAATGGAGTGGAGTGAGGCTTCA
1 GAATCAAAACAAC-AAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCA
*
27918665 AATCCTATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
65 AATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
* *
27918715 GAATCAAAACAACGAAGCCGAGCTCAATGTCCTTGAGGATAC-----AGT-GAGTGAGACTTCAA
1 GAATCAAAACAACAAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAA
* * * * *
27918774 ATCCCATATTCCTTGTGAGGTACAGAGAAATGGGTCAAAACAGTATGCT
66 ATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
*
27918823 GAATCAAAACAACAAAGTCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAA
1 GAATCAAAACAACAAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAA
* * * * * *
27918888 ATCTCATCTTCCTAGTGAGGTACAGAGAAATGGGTCAAAACTGTATGTC
66 ATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
* * * * * *
27918937 GAATCAAAACAACGAAGCCAAGCTTAACGTCCTTGAGGATGCAGTGGAGTAGAGTAAGACTTCAA
1 GAATCAAAACAACAAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAA
* * *
27919002 ATCCCATCTTCCTGGTAAGGTATAGAGAAGTAGGTCAAAACAGTGTGTT
66 ATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
* * * * * *
27919051 AAATCAAAAAAACGAAGTCGAGCTCAACATTCTTGAGGATAC-----AGTGGAGTGAGACTTCAA
1 GAATCAAAACAACAAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAA
* * *
27919111 ATCCCATCTTCCTGGTGAA-GTACAAAGAAGTGGGTCAGAACAGTGTGTT
66 ATCCCATCTTCCTGGT-AAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
* * *
27919160 GAATCAAAACAACGAAA-CCAAGCACAACGTCCTTGAGGATACAGTGGAGTGGGGTGAGACTTCA
1 GAATCAAAACAAC-AAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCA
* * * *
27919224 AATCCCATCTTCTTGATAAGGTACAGAGAAGTGGGTCAAAACAATAGGTT
65 AATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
* * * * * * * *
27919274 -AGATTAAAGA-AACGAAA-CAGAGCTCAACGTCCCTAAGGTTACTGTGAAGTGGAGTGAGACAT
1 GA-ATCAAA-ACAAC-AAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTT
27919336 CAAAT
63 CAAAT
27919341 ATCGTCTTCC
Statistics
Matches: 529, Mismatches: 79, Indels: 35
0.82 0.12 0.05
Matches are distributed among these distances:
108 95 0.18
109 92 0.17
110 4 0.01
112 2 0.00
113 18 0.03
114 317 0.60
115 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (114 bp):
GAATCAAAACAACAAAGCCGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAA
ATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTT
Found at i:27919207 original size:223 final size:221
Alignment explanation
Indices: 27918619--27919266 Score: 820
Period size: 223 Copynumber: 2.9 Consensus size: 221
27918609 AACAACGAAA
* * * *
27918619 CGAGCTCAACATCCCTAAGGATACAATGGAGTGGAGTGAGGCTTCAAATCCTATCTTCCTGGT-A
1 CGAGCTCAACATCCTTGAGGATAC----GAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* *
27918683 AGGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCGAGCTCAATGTCCT
62 A-GTACAGAGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCAAGCTCAACGTCCT
* * * *
27918748 TGAGGATACAGT-GAGT-G-AGACTTCAAATCCCATATTCCTTGTGAGGTACAGAGAAATGGGTC
126 TGAGGATACAGTGGAGTGGTAGACTTCAAATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTC
* *
27918810 AAAACAGTATGCTGAATCAAAACAACAAAGT
191 AAAACAGTATGCTAAATCAAAAAAACAAAGT
* * *
27918841 CGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCTCATCTTCCTAGTGA
1 CGAGCTCAACATCCTTGAGGATAC----GAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* * * * *
27918906 GGTACAGAGAAATGGGTCAAAACTGTATGTCGAATCAAAACAACGAAGCCAAGCTTAACGTCCTT
62 AGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCAAGCTCAACGTCCTT
* * *
27918971 GAGGATGCAGTGGAGTAGAGTAAGACTTCAAATCCCATCTTCCTGGTAAGGTATAGAGAAGTAGG
127 GAGGATACAGTGGAGT-G-GT-AGACTTCAAATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGG
* * *
27919036 TCAAAACAGTGTGTTAAATCAAAAAAACGAAGT
189 TCAAAACAGTATGCTAAATCAAAAAAACAAAGT
*
27919069 CGAGCTCAACATTCTTGAGGATAC-AGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAAGTA
1 CGAGCTCAACATCCTTGAGGATACGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAAGTA
* * * * *
27919133 CAAAGAAGTGGGTCAGAACAGTGTGTTGAATCAAAACAACGAAACCAAGCACAACGTCCTTGAGG
66 CAGAGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCAAGCTCAACGTCCTTGAGG
* *
27919198 ATACAGTGGAGTGGGGTGAGACTTCAAATCCCATCTTCTTGATAAGGTACAGAGAAGTGGGTCAA
131 ATACAGTGGAGT--GGT-AGACTTCAAATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAA
27919263 AACA
193 AACA
27919267 ATAGGTTAGA
Statistics
Matches: 370, Mismatches: 48, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
222 123 0.33
223 158 0.43
224 1 0.00
226 1 0.00
228 87 0.24
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (221 bp):
CGAGCTCAACATCCTTGAGGATACGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAAGTA
CAGAGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCAAGCTCAACGTCCTTGAGG
ATACAGTGGAGTGGTAGACTTCAAATCCCATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAAC
AGTATGCTAAATCAAAAAAACAAAGT
Found at i:27919352 original size:337 final size:335
Alignment explanation
Indices: 27918602--27919340 Score: 968
Period size: 337 Copynumber: 2.2 Consensus size: 335
27918592 ACAGTGGGTC
* * *
27918602 GAATTAAAACAACGAAAC-GAGCTCAACATCCCTAAGGATACAATGGAGTGGAGTGAGGCTTCAA
1 GAATTAAAACAACGAAACAGAGCTCAACGTCCCTAAGGATACAGTGGAGTGGAGTGAGACTTCAA
* * *
27918666 ATCCTATCTTCCTGGTAAGGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAA
66 ATCC-ATCTTCCTGGTAAGGTACAGAGAAGTAGGTCAAAACAGTATGTTAAATCAAAAAAACGAA
** * *
27918731 GCCGAGCTCAATGTCCTTGAGGATACAGTGAGTGAGACTTCAAATCCCATATTCCTTGTGAGGTA
130 GCCGAGCTCAACATCCTTGAGGATACAGTGAGTGAGACTTCAAATCCCATATTCCTGGTGAAGTA
* * * *
27918796 CAGAGAAATGGGTCAAAACAGTATGCTGAATCAAAACAACAAAGTCGAGCTCAACGTCCTTGAGG
195 CAAAGAAATGGGTCAAAACAGTATGCTGAATCAAAACAACAAAGCCAAGCACAACGTCCTTGAGG
* *
27918861 ATACAGTGGAGTGGAGTGAGACTTCAAATCTCATCTTCCTAGTGAGGTACAGAGAAATGGGTCAA
260 ATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTAAGGTACAGAGAAATGGGTCAA
** * *
27918926 AACTGTATGTC
325 AACAATAGGTA
* * * * * * * *
27918937 GAATCAAAACAACGAAGCCA-AGCTTAACGTCCTTGAGGATGCAGTGGAGTAGAGTAAGACTTCA
1 GAATTAAAACAACGAA-ACAGAGCTCAACGTCCCTAAGGATACAGTGGAGTGGAGTGAGACTTCA
* *
27919001 AATCCCATCTTCCTGGTAAGGTATAGAGAAGTAGGTCAAAACAGTGTGTTAAATCAAAAAAACGA
65 AAT-CCATCTTCCTGGTAAGGTACAGAGAAGTAGGTCAAAACAGTATGTTAAATCAAAAAAACGA
* * *
27919066 AGTCGAGCTCAACATTCTTGAGGATACAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAAG
129 AGCCGAGCTCAACATCCTTGAGGATACAGT-GAGTGAGACTTCAAATCCCATATTCCTGGTGAAG
* * * *
27919131 TACAAAGAAGTGGGTCAGAACAGTGTGTTGAATCAAAACAACGAAA-CCAAGCACAACGTCCTTG
193 TACAAAGAAATGGGTCAAAACAGTATGCTGAATCAAAACAAC-AAAGCCAAGCACAACGTCCTTG
* * *
27919195 AGGATACAGTGGAGTGGGGTGAGACTTCAAATCCCATCTT-CTTGATAAGGTACAGAGAAGTGGG
257 AGGATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAG-TAAGGTACAGAGAAATGGG
27919259 TCAAAACAATAGGTTA
321 TCAAAACAATAGG-TA
* * * *
27919275 G-ATTAAAGA-AACGAAACAGAGCTCAACGTCCCTAAGGTTACTGTGAAGTGGAGTGAGACATCA
1 GAATTAAA-ACAACGAAACAGAGCTCAACGTCCCTAAGGATACAGTGGAGTGGAGTGAGACTTCA
27919338 AAT
65 AAT
27919341 ATCGTCTTCC
Statistics
Matches: 343, Mismatches: 52, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
335 15 0.04
336 124 0.36
337 198 0.58
338 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (335 bp):
GAATTAAAACAACGAAACAGAGCTCAACGTCCCTAAGGATACAGTGGAGTGGAGTGAGACTTCAA
ATCCATCTTCCTGGTAAGGTACAGAGAAGTAGGTCAAAACAGTATGTTAAATCAAAAAAACGAAG
CCGAGCTCAACATCCTTGAGGATACAGTGAGTGAGACTTCAAATCCCATATTCCTGGTGAAGTAC
AAAGAAATGGGTCAAAACAGTATGCTGAATCAAAACAACAAAGCCAAGCACAACGTCCTTGAGGA
TACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTAAGGTACAGAGAAATGGGTCAAA
ACAATAGGTA
Found at i:27920447 original size:16 final size:18
Alignment explanation
Indices: 27920421--27920463 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27920411 GATATGGGAC
*
27920421 GAAAATGAGAA-TGATGT
1 GAAAATGAGAATTGAAGT
27920438 GAAAAT-AGAATTGAAGT
1 GAAAATGAGAATTGAAGT
27920455 GAAATATGA
1 GAAA-ATGA
27920464 TTTTTACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 2 0.09
19 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (18 bp):
GAAAATGAGAATTGAAGT
Found at i:27922773 original size:24 final size:26
Alignment explanation
Indices: 27922712--27922773 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 26
27922702 TATTTAATTA
*
27922712 TTTGTTGTATATTATTTTGAATCATGC
1 TTTGTTATAT-TTATTTTGAATCATGC
*
27922739 TTAT-TTA-ATTTATTTT-ATTCATG-
1 TT-TGTTATATTTATTTTGAATCATGC
27922762 TTTGTTATATTT
1 TTTGTTATATTT
27922774 TACTATCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
22 1 0.03
23 5 0.17
24 10 0.33
25 7 0.23
26 2 0.07
27 4 0.13
28 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.63
Consensus pattern (26 bp):
TTTGTTATATTTATTTTGAATCATGC
Found at i:27927570 original size:35 final size:35
Alignment explanation
Indices: 27927531--27927634 Score: 208
Period size: 35 Copynumber: 3.0 Consensus size: 35
27927521 GGGTCTCTCG
27927531 ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTAA
1 ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTAA
27927566 ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTAA
1 ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTAA
27927601 ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTA
1 ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTA
27927635 TAAAAGGTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (35 bp):
ATGTTATTGGTTGAGGCTCAACGTTTTAAGACTAA
Done.