Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 91 of 433
Found at i:27406343 original size:59 final size:60
Alignment explanation
Indices: 27406274--27406454 Score: 303
Period size: 60 Copynumber: 3.0 Consensus size: 60
27406264 TTAACTCTAA
27406274 AAATTAAAAAATTTATTATTTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATTATTTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
* *
27406334 AAATTAAAAAATTTA-TAATTTTTTTAAATTCATTTTTAGCCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATTATTTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
* *
27406393 AAATTTAAAAATTT-TTAATTTTTTTTAAATTCATTTTTAACTCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATT-ATTTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
27406453 AA
1 AA
27406455 CTCATGTGAG
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
59 56 0.50
60 57 0.50
ACGTcount: A:0.39, C:0.14, G:0.01, T:0.46
Consensus pattern (60 bp):
AAATTAAAAAATTTATTATTTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
Found at i:27410928 original size:27 final size:27
Alignment explanation
Indices: 27410860--27410930 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
27410850 CGACTTGTAA
* *
27410860 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
27410887 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
27410914 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
27410931 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:27410937 original size:27 final size:27
Alignment explanation
Indices: 27410914--27411037 Score: 162
Period size: 27 Copynumber: 4.6 Consensus size: 27
27410904 CAATTTACAG
27410914 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
27410941 AATCACCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTATAA
* *
27410968 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
27410995 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
27411022 AATTACTAAAATACCC
1 AATTACCAAAATACCC
27411038 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.04
27 77 0.92
28 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:27410973 original size:54 final size:54
Alignment explanation
Indices: 27410914--27411037 Score: 196
Period size: 54 Copynumber: 2.3 Consensus size: 54
27410904 CAATTTACAG
* *
27410914 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCTC-TGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACC-CATGGTTTGAAA
* *
27410968 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGAAA
27411022 AATTACTAAAATACCC
1 AATTACTAAAATACCC
27411038 CTGTAGGGTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGAAA
Found at i:27411050 original size:27 final size:27
Alignment explanation
Indices: 27411020--27411081 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
27411010 CATGGTTTGA
27411020 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* *
27411047 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
27411074 AAAATTAC
1 AAAATTAC
27411082 CATTTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:27411050 original size:54 final size:53
Alignment explanation
Indices: 27410914--27411065 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 53
27410904 CAATTTACAG
* ** * *
27410914 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCTCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACC-CTGGTTTGAAA
* **
27410968 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCC-TGGTTTGAAA
* **
27411022 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCCT
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCCT
27411066 TGTAGGGTAA
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
53 5 0.06
54 80 0.93
55 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCTGGTTTGAAA
Found at i:27411066 original size:81 final size:81
Alignment explanation
Indices: 27410914--27411066 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
27410904 CAATTTACAG
* * **
27410914 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCTCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
27410979 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
27410995 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
27411058 AATACCCTT
64 AATACCCTT
27411067 GTAGGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:27415019 original size:27 final size:27
Alignment explanation
Indices: 27414951--27415021 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
27414941 CGACTTGTAA
* *
27414951 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
27414978 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
27415005 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
27415022 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:27415028 original size:27 final size:27
Alignment explanation
Indices: 27415005--27415128 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
27414995 CAATTTACAG
27415005 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
27415032 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
27415059 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
27415086 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
27415113 AATTACTAAAATACCC
1 AATTACCAAAATACCC
27415129 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:27415047 original size:54 final size:53
Alignment explanation
Indices: 27414989--27415128 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
27414979 ATTACCGTTT
27414989 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
27415043 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
27415097 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
27415129 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:27415140 original size:81 final size:81
Alignment explanation
Indices: 27415005--27415157 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
27414995 CAATTTACAG
* **
27415005 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
27415070 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
27415086 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
27415149 AATACCCTT
64 AATACCCTT
27415158 GTAGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:27415141 original size:27 final size:27
Alignment explanation
Indices: 27415111--27415172 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
27415101 CATGGTTTGA
27415111 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* *
27415138 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
27415165 AAAATTAC
1 AAAATTAC
27415173 CATTTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:27415141 original size:54 final size:54
Alignment explanation
Indices: 27415005--27415155 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
27414995 CAATTTACAG
* ** * * *
27415005 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
27415059 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
27415113 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
27415156 TTGTAGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:27418608 original size:35 final size:35
Alignment explanation
Indices: 27418524--27418608 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
27418514 CCAATTCCTG
* *
27418524 CAAAACACACCAAATGCTCATACGAGCCAGTCCAAC
1 CAAAACACACC-AATGCTCATAAGAGCCAGGCCAAC
** ** *
27418560 GGAAACATGCCAATGCTCATAAGAGCTAGGCCAAC
1 CAAAACACACCAATGCTCATAAGAGCCAGGCCAAC
27418595 CAAAACACACCAAT
1 CAAAACACACCAAT
27418609 CAGATAGTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.42, C:0.32, G:0.14, T:0.12
Consensus pattern (35 bp):
CAAAACACACCAATGCTCATAAGAGCCAGGCCAAC
Found at i:27421012 original size:18 final size:17
Alignment explanation
Indices: 27420974--27421015 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
27420964 GCAAATAGTA
*
27420974 AAAAAAAGCATAAACAG
1 AAAAAAAGCATAAAAAG
27420991 AAAAAAAGC-TGAAAAAG
1 AAAAAAAGCAT-AAAAAG
27421008 TAAAAAAA
1 -AAAAAAA
27421016 AAAGCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.74, C:0.07, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAAAAGCATAAAAAG
Found at i:27421015 original size:21 final size:20
Alignment explanation
Indices: 27420991--27421035 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
27420981 GCATAAACAG
*
27420991 AAAAAAAGCTGAAAAAGTAAA
1 AAAAAAAGCT-AAAAAATAAA
27421012 AAAAAAAGCTAAAAAATAAA
1 AAAAAAAGCTAAAAAATAAA
27421032 AAAA
1 AAAA
27421036 GGTTACAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (20 bp):
AAAAAAAGCTAAAAAATAAA
Found at i:27421221 original size:16 final size:17
Alignment explanation
Indices: 27421203--27421247 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
27421193 TTTCATAAAG
*
27421203 AAAGAAGGAGAATAAGA
1 AAAGAAGGAGAAGAAGA
27421220 AAAGAA-GAGAAGAAGA
1 AAAGAAGGAGAAGAAGA
27421236 AGAAGAAGGAGA
1 A-AAGAAGGAGA
27421248 TGGAGGCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
17 11 0.44
18 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
AAAGAAGGAGAAGAAGA
Found at i:27421236 original size:22 final size:21
Alignment explanation
Indices: 27421199--27421242 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
27421189 TTGATTTCAT
* *
27421199 AAAGAAAGAAGGAGAATAAGA
1 AAAGAAAGAAGAAGAAGAAGA
27421220 AAAGAAGAGAAGAAGAAGAAGA
1 AAAGAA-AGAAGAAGAAGAAGA
27421242 A
1 A
27421243 GGAGATGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (21 bp):
AAAGAAAGAAGAAGAAGAAGA
Found at i:27422825 original size:29 final size:29
Alignment explanation
Indices: 27422765--27422882 Score: 107
Period size: 29 Copynumber: 4.1 Consensus size: 29
27422755 GTGAGCATAA
* * * *
27422765 ATAT-AAGGTGATTTAGGCCTAACGAGCT
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
27422793 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * *
27422822 ATATGAATATGAATTGGGCCTAATAGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *
27422851 ATATAAATGAGA-TTGGGCC-AAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
27422879 ATAT
1 ATAT
27422883 GCATGTATGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 2 0.03
28 20 0.27
29 53 0.71
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:27430547 original size:28 final size:29
Alignment explanation
Indices: 27430516--27430608 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
27430506 GTGAGCATGA
*
27430516 ATAT-AAGGTGATTTGAGCCTAACGGGTC
1 ATATAAAGGTGATTTGAGCCTAACGGGCC
* *
27430544 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGAGCCTAACGGGCC
* ** * * * *
27430573 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGAGCCTAACGGGCC
27430602 ATATAAA
1 ATATAAA
27430609 TGAGATTGGG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 4 0.07
29 51 0.93
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGAGCCTAACGGGCC
Found at i:27430589 original size:29 final size:29
Alignment explanation
Indices: 27430557--27430634 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 29
27430547 TAAAGGTGAT
27430557 TTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTAATGGGCCATATGAA-ATGAGA
*
27430586 TTGGGCCTGATGGGCCATAT-AAATGAGA
1 TTGGGCCTAATGGGCCATATGAAATGAGA
27430614 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
27430635 CATGTATGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
27 5 0.11
28 20 0.45
29 19 0.43
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAAATGAGA
Found at i:27430627 original size:28 final size:28
Alignment explanation
Indices: 27430543--27430633 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
27430533 CCTAACGGGT
* *
27430543 CATATAAAGGTGATTTGGGCCTAA-TGGGC
1 CATATAAATGAGA-TTGGGCC-AAGTGGGC
*
27430572 CATATGAATATGA-ATTGGGCC-TGATGGGC
1 CATAT-AA-ATGAGATTGGGCCAAG-TGGGC
27430601 CATATAAATGAGATTGGGCCAAGTGGGC
1 CATATAAATGAGATTGGGCCAAGTGGGC
27430629 CATAT
1 CATAT
27430634 GCATGTATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 4 0.08
28 20 0.38
29 23 0.44
30 3 0.06
31 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (28 bp):
CATATAAATGAGATTGGGCCAAGTGGGC
Found at i:27432339 original size:15 final size:15
Alignment explanation
Indices: 27432319--27432371 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
27432309 AAAAATAGTA
27432319 TAAAAAATAAAATAC
1 TAAAAAATAAAATAC
*** *
27432334 TAAAAAATATCTTAA
1 TAAAAAATAAAATAC
27432349 TAAAAAAATAAAATAC
1 T-AAAAAATAAAATAC
27432365 TAAAAAA
1 TAAAAAA
27432372 ATAACTTTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAAATAC
Found at i:27432368 original size:16 final size:16
Alignment explanation
Indices: 27432310--27432375 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
27432300 ACTTTTTACA
*
27432310 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
27432327 AAAATACT-AAAAAAT
1 AAAATACTAAAAAAAT
*** *
27432342 ATCTTAATAAAAAAAT
1 AAAATACTAAAAAAAT
27432358 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
27432374 AA
1 AA
27432376 CTTTTTTGGA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.28
16 21 0.54
17 7 0.18
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:27432589 original size:25 final size:26
Alignment explanation
Indices: 27432561--27432622 Score: 65
Period size: 30 Copynumber: 2.3 Consensus size: 26
27432551 ATTATGTACT
27432561 AAAATAATA-TAAAAAATAAAATAC-G
1 AAAATAATATTAAAAAATAAAAT-CTG
27432586 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA--TTAAAAAATAAAATCTG
27432616 AAAATAA
1 AAAATAA
27432623 AAAAATACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 6 0.19
27 3 0.10
28 1 0.03
29 1 0.03
30 20 0.65
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AAAATAATATTAAAAAATAAAATCTG
Found at i:27432591 original size:149 final size:150
Alignment explanation
Indices: 27432409--27433093 Score: 994
Period size: 149 Copynumber: 4.6 Consensus size: 150
27432399 GAGGGGTTTT
* *
27432409 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTTAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* * * *
27432473 AAAAAATATGAACAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAAT
66 AAAAAATACGAACAAAGTGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
27432537 AATACATTTGAAACATTATG
131 AATACATTTGAAACATTATG
27432557 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* * * *
27432622 AAAAAATACAAACAAAGTACCAAAATCAAGGTTATTTATTAAATTAATATAAAAAA-ACTTAAAT
66 AAAAAATACGAACAAAGTGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
27432686 AATACATTTGAAACATTATG
131 AATACATTTGAAACATTATG
* *
27432706 TACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCTGAAAAT-
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
*
27432770 AAAAAATACGAACAAAGTGTCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
66 AAAAAATACGAACAAAGTGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
* *
27432835 AATATATTTGAAACATTATT
131 AATACATTTGAAACATTATG
* * * * **
27432855 TACTAAAATAATATAAAAAATAGAGTACGAAAATAATATATTTTAAAAAATAAAATCCG----GG
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* * *
27432916 AAAAAATACTAACAAA-TGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAATACTAAAA
66 AAAAAATACGAACAAAGT-GCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAA
* *
27432980 TAATACATTTGAAATATTATA
130 TAATACATTTGAAACATTATG
* * * *
27433001 TACTTAAATAATAT-AAAAATAAAATACGAAAATAGTATGTTTTAAAAAGTAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAAT-
* *
27433065 AAAAAAATACCAACAAAGGGCCAAAATCA
65 AAAAAAATACGAACAAAGTGCCAAAATCA
27433094 CCCAACAAAA
Statistics
Matches: 490, Mismatches: 37, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
145 40 0.08
146 89 0.18
148 66 0.13
149 270 0.55
150 25 0.05
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.28
Consensus pattern (150 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
AAAAAATACGAACAAAGTGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
AATACATTTGAAACATTATG
Found at i:27432727 original size:12 final size:13
Alignment explanation
Indices: 27432710--27432745 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27432700 ATTATGTACT
27432710 AAAATAATATA-A
1 AAAATAATATACA
*
27432722 AAAATAAAATACA
1 AAAATAATATACA
27432735 AAAATAATATA
1 AAAATAATATA
27432746 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:27433944 original size:53 final size:53
Alignment explanation
Indices: 27433864--27433970 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
27433854 ATCGGTCGAG
27433864 CGTTGGCGCCCGGAGACCCACACTTTTCATTTGCCATGTGGGGAGTGCACTAT
1 CGTTGGCGCCCGGAGACCCACACTTTTCATTTGCCATGTGGGGAGTGCACTAT
*
27433917 CGTTGGCGCCCGGAGACCTACACTTTTCATTTGCCATGTGGGGAGTGCACTAT
1 CGTTGGCGCCCGGAGACCCACACTTTTCATTTGCCATGTGGGGAGTGCACTAT
27433970 C
1 C
27433971 ACTCTGGAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (53 bp):
CGTTGGCGCCCGGAGACCCACACTTTTCATTTGCCATGTGGGGAGTGCACTAT
Found at i:27441872 original size:35 final size:35
Alignment explanation
Indices: 27441833--27441903 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
27441823 AACATTTATC
27441833 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
1 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
27441868 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
1 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
27441903 T
1 T
27441904 CTTCCATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (35 bp):
TTTACATTTAACCACTTAAATTCAGTTATACGTTT
Found at i:27442893 original size:56 final size:58
Alignment explanation
Indices: 27442793--27442902 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
27442783 AAAAAAGACC
* *
27442793 TTTTATTTCTTCTCTTCTCTTCTCCCTCTCTTTTTTCTGTAA-TTTTTTTACTGAATT
1 TTTTATTTCTTCTCTTCTCTTCTCCCTCTCTTTCTTCTGAAATTTTTTTTACTGAATT
* *
27442850 TTTTCTTTCTT-TTTTCTCTTCTCCCTCTC-TTCTTCTGCAAATTTTTTTTACTG
1 TTTTATTTCTTCTCTTCTCTTCTCCCTCTCTTTCTTCTG-AAATTTTTTTTACTG
27442903 CTGTGTGCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 7 0.15
56 19 0.40
57 21 0.45
ACGTcount: A:0.09, C:0.25, G:0.04, T:0.63
Consensus pattern (58 bp):
TTTTATTTCTTCTCTTCTCTTCTCCCTCTCTTTCTTCTGAAATTTTTTTTACTGAATT
Found at i:27443332 original size:50 final size:44
Alignment explanation
Indices: 27443221--27443316 Score: 176
Period size: 44 Copynumber: 2.2 Consensus size: 44
27443211 AAACATACTA
27443221 ATGTTTAAAAAAAAAGTTAGAATATGCTTATACTTTCTATATAT
1 ATGTTTAAAAAAAAAGTTAGAATATGCTTATACTTTCTATATAT
*
27443265 ATGTTTAAAAAAAAAGTTAGAATATGTTTATACTTTCTATATAT
1 ATGTTTAAAAAAAAAGTTAGAATATGCTTATACTTTCTATATAT
27443309 AT-TTTAAA
1 ATGTTTAAA
27443317 TTTTAAAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 6 0.12
44 45 0.88
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (44 bp):
ATGTTTAAAAAAAAAGTTAGAATATGCTTATACTTTCTATATAT
Found at i:27443898 original size:19 final size:19
Alignment explanation
Indices: 27443866--27443907 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27443856 TTTGACTTGA
*
27443866 TTAATTTTATTTTATTATTT
1 TTAATTTTAATTTATT-TTT
27443886 TTAA-TTTAATTTATTTTT
1 TTAATTTTAATTTATTTTT
27443904 TTAA
1 TTAA
27443908 ATTGAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTAATTTTAATTTATTTTT
Found at i:27444195 original size:23 final size:25
Alignment explanation
Indices: 27444139--27444196 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 25
27444129 TTTTAGAATT
*
27444139 TTTGAAT-TTTTTTAAAAAAATGAT
1 TTTGAATATTTTTTAAAAAAATGAC
**
27444163 TTTTTA-ATTTTTT-AAAAAAT-AC
1 TTTGAATATTTTTTAAAAAAATGAC
27444185 TTTGAATATTTT
1 TTTGAATATTTT
27444197 GTAATTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
22 5 0.19
23 12 0.44
24 10 0.37
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (25 bp):
TTTGAATATTTTTTAAAAAAATGAC
Found at i:27445953 original size:12 final size:13
Alignment explanation
Indices: 27445912--27445953 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
27445902 ATCTTTTATA
27445912 TTTTATAATATTT
1 TTTTATAATATTT
*
27445925 TTTCTAT-ATATAT
1 TTT-TATAATATTT
27445938 TTTTATAAT-TTT
1 TTTTATAATATTT
27445950 TTTT
1 TTTT
27445954 CTTTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.36
13 13 0.52
14 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATAATATTT
Found at i:27451988 original size:13 final size:13
Alignment explanation
Indices: 27451970--27451995 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27451960 ATGATTATTG
27451970 AGATGGTTATGAA
1 AGATGGTTATGAA
27451983 AGATGGTTATGAA
1 AGATGGTTATGAA
27451996 TTGAATAATT
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:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
AGATGGTTATGAA
Found at i:27454981 original size:26 final size:28
Alignment explanation
Indices: 27454932--27454989 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
27454922 ATAATATGGC
27454932 AAATATATCTTCAAAAAAAATGATA-GA
1 AAATATATCTTCAAAAAAAATGATATGA
* *
27454959 AAATATAT-TTGAAAAAAATTGATATGA
1 AAATATATCTTCAAAAAAAATGATATGA
27454986 AAAT
1 AAAT
27454990 TAATTGAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (28 bp):
AAATATATCTTCAAAAAAAATGATATGA
Found at i:27454996 original size:26 final size:26
Alignment explanation
Indices: 27454944--27454996 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27454934 ATATATCTTC
*
27454944 AAAAAAAATGATAGAAAATATATTTG
1 AAAAAAAATGATAGAAAATATAATTG
*
27454970 AAAAAAATTGATATGAAAAT-TAATTG
1 AAAAAAAATGATA-GAAAATATAATTG
27454996 A
1 A
27454997 GTTTTTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (26 bp):
AAAAAAAATGATAGAAAATATAATTG
Found at i:27456269 original size:12 final size:13
Alignment explanation
Indices: 27456239--27456271 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27456229 AATATTTCCC
27456239 ACAAAAAAAAGTG
1 ACAAAAAAAAGTG
*
27456252 ATAAAAAAAAGT-
1 ACAAAAAAAAGTG
27456264 ACAAAAAA
1 ACAAAAAA
27456272 TAAAATACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (13 bp):
ACAAAAAAAAGTG
Found at i:27468418 original size:21 final size:20
Alignment explanation
Indices: 27468383--27468427 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
27468373 AAATCTTAGG
* *
27468383 ATAAAAATTATTAAAAAATC
1 ATAAAAATAACTAAAAAATC
*
27468403 TATAAAAATAACTAAAAGATC
1 -ATAAAAATAACTAAAAAATC
27468424 ATAA
1 ATAA
27468428 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAATAACTAAAAAATC
Found at i:27469173 original size:2 final size:2
Alignment explanation
Indices: 27469166--27469191 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27469156 TAAATAAAAC
27469166 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27469192 TATTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27469245 original size:18 final size:18
Alignment explanation
Indices: 27469222--27469259 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27469212 GAGTGTAGCC
27469222 AACACCGATCTACTTAAA
1 AACACCGATCTACTTAAA
27469240 AACACCGATCTACTTAAA
1 AACACCGATCTACTTAAA
27469258 AA
1 AA
27469260 AAGATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.21
Consensus pattern (18 bp):
AACACCGATCTACTTAAA
Found at i:27470738 original size:14 final size:14
Alignment explanation
Indices: 27470719--27470752 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
27470709 AGATACAAAT
27470719 AACAGAGTCAGATA
1 AACAGAGTCAGATA
27470733 AACAGAGTCAGATA
1 AACAGAGTCAGATA
*
27470747 ATCAGA
1 AACAGA
27470753 ATCCTACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.21, T:0.15
Consensus pattern (14 bp):
AACAGAGTCAGATA
Found at i:27473162 original size:20 final size:18
Alignment explanation
Indices: 27473126--27473176 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
27473116 AATGGCTATT
*
27473126 TTGTAAAGTTGTAAAATAA
1 TTGTAAA-TTGTGAAATAA
27473145 GTTGTAAATCTGTGAAATAA
1 -TTGTAAAT-TGTGAAATAA
27473165 TTG-AAATTGTGA
1 TTGTAAATTGTGA
27473177 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (18 bp):
TTGTAAATTGTGAAATAA
Found at i:27474091 original size:49 final size:49
Alignment explanation
Indices: 27473961--27474145 Score: 189
Period size: 49 Copynumber: 3.8 Consensus size: 49
27473951 CTTGACATGT
*
27473961 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATTGACATCGATATATGAGA
* * * *
27474010 G-CTAATGTAAGACCTGTCTGGGACATGACATTGGCCTCGATATATG-GAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATTGACATCGATATATGAG-A
* * * * *
27474059 GTCAGTGTAAGACCTGTCTGGGGCATGGCATTGAC-T-TAGATGTGTGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATTGACATCGATATATGAGA
* * * *
27474106 GCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATCG
1 GTCAGTGTAAGACC-TGTCTGGGACATGGCATTGACATCG
27474146 TACCCTATGT
Statistics
Matches: 111, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 19 0.17
48 21 0.19
49 70 0.63
50 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATTGACATCGATATATGAGA
Found at i:27476642 original size:24 final size:23
Alignment explanation
Indices: 27476611--27476656 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
27476601 TATTACTTTC
27476611 AAAACATACCAATTCAACCATTTA
1 AAAACATACCAA-TCAACCATTTA
*
27476635 AAAACATATCAATCAACCATTT
1 AAAACATACCAATCAACCATTT
27476657 CTTTCCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAACATACCAATCAACCATTTA
Found at i:27477583 original size:18 final size:18
Alignment explanation
Indices: 27477557--27477597 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27477547 GGTCATGGGG
*
27477557 CATTATCGAACAAAAACA
1 CATTTTCGAACAAAAACA
**
27477575 CATTTTCGAACAACCACA
1 CATTTTCGAACAAAAACA
27477593 CATTT
1 CATTT
27477598 ATACAAGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (18 bp):
CATTTTCGAACAAAAACA
Found at i:27479235 original size:56 final size:56
Alignment explanation
Indices: 27479175--27479311 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
27479165 TCCCAGATAG
* * * *
27479175 GGTCTTCCTCTTACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGTACACATATATCGAAGTCACATATAGATGCCAACGTATAAAACGT
* *
27479231 GGTCTTACTCGTACACATATATCAAAGTCACATATAGATGCCAATGTATAAAACGT
1 GGTCTTACTCGTACACATATATCGAAGTCACATATAGATGCCAACGTATAAAACGT
*
27479287 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGTACACATATATCGA
27479312 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGTACACATATATCGAAGTCACATATAGATGCCAACGTATAAAACGT
Found at i:27485150 original size:29 final size:29
Alignment explanation
Indices: 27485116--27485247 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
27485106 TACTCGATTT
** * *
27485116 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
27485145 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
27485174 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
27485203 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27485232 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27485248 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:27487921 original size:39 final size:40
Alignment explanation
Indices: 27487863--27488044 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
27487853 CGGATGATAA
* *
27487863 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * * *
27487903 CCGGGCTAA-ACCCGAAGGCAATTGTGCAAGTTA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* * *
27487942 CTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA--
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
*
27487981 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
27488021 CCGGG-TCAAGT-CCGAAGGCATTTG
1 CCGGGCT-AAGTCCCGAAGGCATTTG
27488045 AGCAAGTAGT
Statistics
Matches: 120, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
37 1 0.01
38 3 0.03
39 76 0.63
40 38 0.32
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:27487996 original size:79 final size:78
Alignment explanation
Indices: 27487859--27488042 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 78
27487849 TATTCGGATG
* *
27487859 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAA-TCCGGGCTAAACCCGAAGGCAA
*
27487924 TTGTGCAAGTTATT
65 TTGTGCAAGTTACT
* * * * *
27487938 ATATCTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACT-AATCCGGGCTAA-ACCCGAAGGCA
* *
27488002 TTTGTGCGAGTTACT
64 ATTGTGCAAGTTACT
27488017 ATAACCGGG-TCAAGT-CCGAAGGCATT
1 ATAACCGGGCT-AAGTCCCGAAGGCATT
27488043 TGAGCAAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 21 0.23
79 67 0.74
80 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATCCGGGCTAAACCCGAAGGCAAT
TGTGCAAGTTACT
Found at i:27496015 original size:39 final size:40
Alignment explanation
Indices: 27495958--27496138 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
27495948 CGGATGATAA
* *
27495958 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * * *
27495998 TCGGGCTAA-ACCCGAAGGCAATTGTGCGAGTTA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
27496037 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTATTGAA--
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
*
27496075 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
27496115 CCGGG-TCAAGT-CCGAAGGCATTTG
1 CCGGGCT-AAGTCCCGAAGGCATTTG
27496139 AGCAAGTAGT
Statistics
Matches: 119, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 14 0.12
39 85 0.71
40 18 0.15
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:27496090 original size:78 final size:77
Alignment explanation
Indices: 27495954--27496136 Score: 226
Period size: 78 Copynumber: 2.3 Consensus size: 77
27495944 TATTCGGATG
* * *
27495954 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAACCCGAAGGCAA
1 ATAACCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTGACTAA-TCCGGGCTAAACCCGAAGGCAA
*
27496019 TTGTGCGAGTTATT
64 TTGTGCGAGTTACT
* * * * *
27496033 ATATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCGAAGGCATTGGTGCGAGTGACT-AATCCGGGCTAA-ACCCGAAGGCAA
27496097 TTGTGCGAGTTACT
64 TTGTGCGAGTTACT
27496111 ATAACCGGG-TCAAGTCCGAAGGCATT
1 ATAACCGGGCT-AAGTCCGAAGGCATT
27496137 TGAGCAAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
77 9 0.10
78 66 0.73
79 16 0.18
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
ATAACCGGGCTAAGTCCGAAGGCATTGGTGCGAGTGACTAATCCGGGCTAAACCCGAAGGCAATT
GTGCGAGTTACT
Found at i:27496160 original size:78 final size:76
Alignment explanation
Indices: 27495954--27496171 Score: 217
Period size: 78 Copynumber: 2.8 Consensus size: 76
27495944 TATTCGGATG
* * * * *
27495954 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAACCCGAAGGCAA
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGC-AGT-AGTTATATCCGGCTAATCCCGAAGGCAA
*
27496019 TTGTGCGAGTTATT
63 TTGTGCGAGTTACT
* * *
27496033 ATATCCGGGCTAAGTCCGAAGGCATTGGTGC-G-AGTTATTGAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCAGTAGTTA-T-ATCC-GGCTAA-TCCCGAAGGCA
*
27496096 TTTGTGCGAGTTACT
62 ATTGTGCGAGTTACT
* *
27496111 ATAACCGGG-TCAAGTCCGAAGGCATTTGAGCAAGTAGTTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCGAAGGCATTTGTGC-AGTAGTTATATCCGGCT-AATCCCGAAGG
27496172 TACTTGGGTT
Statistics
Matches: 115, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
74 3 0.03
75 1 0.01
76 2 0.02
77 7 0.06
78 76 0.66
79 19 0.17
80 2 0.02
81 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (76 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCAGTAGTTATATCCGGCTAATCCCGAAGGCAATTG
TGCGAGTTACT
Found at i:27496168 original size:117 final size:117
Alignment explanation
Indices: 27495956--27496171 Score: 278
Period size: 117 Copynumber: 1.8 Consensus size: 117
27495946 TTCGGATGAT
* **
27495956 AACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAACCCGAAGGCAATT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAACCCGAAGGCAATT
* *
27496021 GTGCGAGTTATTATATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTATTG
66 GAGCAAGTTATTATATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTATTG
* ** *
27496073 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGG-TCAAGTCCGAAGGCAT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCT-AAACCCGAAGGCAA
*
27496136 TTGAGCAAG-TAGTTATATCC-GGCTAAATTCCGAAGG
64 TTGAGCAAGTTA-TTATATCCGGGCT-AAGTCCGAAGG
27496172 TACTTGGGTT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
116 9 0.11
117 76 0.89
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (117 bp):
AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAACCCGAAGGCAATT
GAGCAAGTTATTATATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTATTG
Found at i:27504379 original size:31 final size:31
Alignment explanation
Indices: 27504341--27504405 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
27504331 CTATTTTTAT
27504341 ACTTTTGAGATGTACTCTTATTTTATTATGA
1 ACTTTTGAGATGTACTCTTATTTTATTATGA
27504372 ACTTTTGAGATGTACTCTTATTTTATTATGA
1 ACTTTTGAGATGTACTCTTATTTTATTATGA
27504403 ACT
1 ACT
27504406 AAACCCCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (31 bp):
ACTTTTGAGATGTACTCTTATTTTATTATGA
Found at i:27508588 original size:54 final size:53
Alignment explanation
Indices: 27508503--27508615 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
27508493 GGATAAGTTC
*
27508503 TAGAATTACCGAAATACCCCTGTAGGATAGAATTA-CAGAAATAACCTTGTAGGG
1 TAGAAATACCGAAATACCCCTGTAGGATAGAATTATC-G-AATAACCTTGTAGGG
* * * *
27508557 TAGAAATACTGAAATACCCCTGTAGGGTAGAATTATCGAATACCCTTGTGGGG
1 TAGAAATACCGAAATACCCCTGTAGGATAGAATTATCGAATAACCTTGTAGGG
27508610 TA-AAAT
1 TAGAAAT
27508616 TACCATTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
52 4 0.08
53 15 0.28
54 33 0.62
55 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (53 bp):
TAGAAATACCGAAATACCCCTGTAGGATAGAATTATCGAATAACCTTGTAGGG
Found at i:27508610 original size:26 final size:27
Alignment explanation
Indices: 27508503--27508618 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
27508493 GGATAAGTTC
* *
27508503 TAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACAGAAATACCCCTGTAGGG
* *
27508530 TAGAATTACAGAAATAACCTTGTAGGG
1 TAGAATTACAGAAATACCCCTGTAGGG
* *
27508557 TAGAAATACTGAAATACCCCTGTAGGG
1 TAGAATTACAGAAATACCCCTGTAGGG
* *
27508584 TAGAATTATC-G-AATACCCTTGTGGGG
1 TAGAATTA-CAGAAATACCCCTGTAGGG
*
27508610 TAAAATTAC
1 TAGAATTAC
27508619 CATTTTGCCC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 20 0.26
27 54 0.71
28 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
TAGAATTACAGAAATACCCCTGTAGGG
Found at i:27509305 original size:27 final size:26
Alignment explanation
Indices: 27509261--27509312 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27509251 CTCGCTGCAA
*
27509261 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
27509288 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
27509313 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:27509394 original size:27 final size:26
Alignment explanation
Indices: 27509353--27509412 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
27509343 ACATATATAT
* * *
27509353 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGACACA
* *
27509379 ATATCTGAATCTGGTGACTTCGACACA
1 ATATCTG-ATCTGGTGACCTAGACACA
27509406 ATATCTG
1 ATATCTG
27509413 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGACACA
Found at i:27521857 original size:40 final size:40
Alignment explanation
Indices: 27521775--27521941 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
27521765 AAATTGAATG
* * ** ***
27521775 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* *
27521814 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* * * **
27521854 ATATCTGGGCTAAGACACGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGGTT
* *
27521894 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-AGTGGTT
27521934 ATATCCGG
1 ATATCCGG
27521942 TTATATTCCG
Statistics
Matches: 100, Mismatches: 24, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
39 16 0.16
40 81 0.81
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
Found at i:27523584 original size:40 final size:40
Alignment explanation
Indices: 27523539--27523713 Score: 287
Period size: 40 Copynumber: 4.4 Consensus size: 40
27523529 TATGTGCACA
*
27523539 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
27523579 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* *
27523619 GCATTTGTGCGGGTTATTATAACGGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* * *
27523659 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
27523699 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
27523714 GTTACATCCG
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
Found at i:27523737 original size:80 final size:80
Alignment explanation
Indices: 27523539--27523737 Score: 236
Period size: 80 Copynumber: 2.5 Consensus size: 80
27523529 TATGTGCACA
* * ** * *
27523539 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGAGTTATTATAACCG
27523604 GGCTAAGTCCCGAAG
66 GGCTAAGTCCCGAAG
* * * * * * *
27523619 GCATTTGTGCGGGTTATTATAACGGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATTACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGAGTTATTATAACCG
*
27523684 GGTTAAGTCCCGAAG
66 GGCTAAGTCCCGAAG
* * * *
27523699 GCATTCGTGCTGGTTGTTACATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAA
27523738 AGTATTTATG
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 103 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGAGTTATTATAACCG
GGCTAAGTCCCGAAG
Found at i:27531923 original size:40 final size:40
Alignment explanation
Indices: 27531878--27532012 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
27531868 TATGTGCACA
* *
27531878 GCATTCGTGCTGGTTATTATAACCGAGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
27531918 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
27531958 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
27531998 TCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
27532013 GTTACATCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:27544727 original size:29 final size:29
Alignment explanation
Indices: 27544694--27544853 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
27544684 GTGACGAGAT
27544694 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
27544723 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
27544752 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
27544781 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
27544810 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
27544839 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
27544854 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:27552766 original size:29 final size:29
Alignment explanation
Indices: 27552733--27552892 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
27552723 GTGACGAGAT
27552733 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
27552762 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
27552791 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
27552820 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
27552849 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
27552878 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
27552893 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:27554737 original size:40 final size:40
Alignment explanation
Indices: 27554692--27554871 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
27554682 TTCGAATGAT
*
27554692 ATCCGGGTTAATTTCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTTCCGAAGGCAATTGTGCGAGTTACTAA
* *
27554732 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTTCCGAAGGCAATTGTGCGAGTTACTAA
*** * * *
27554772 ATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTTCCGAAGGCAATTGTGCGAGTTACTA-A
* * * * *
27554813 A-CCGGGCT-ATGTCCTGAAGACAATTGAGCGAG-TAGCTAT
1 ATCCGGGTTAATTTCC-GAAGGCAATTGTGCGAGTTA-CTAA
*
27554852 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGTTAATTTCCGAAGG
27554872 TACGTGATTC
Statistics
Matches: 114, Mismatches: 21, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 14 0.12
40 98 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAATTTCCGAAGGCAATTGTGCGAGTTACTAA
Found at i:27554837 original size:80 final size:80
Alignment explanation
Indices: 27554692--27554845 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 80
27554682 TTCGAATGAT
*** * * * *
27554692 ATCCGGGTTAATTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCAAT
1 ATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAAT
*
27554757 TGTGCGAGTTACCAA
66 TGAGCGAGTTACCAA
*
27554772 ATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCTGAAGACA
1 ATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGACA
27554835 ATTGAGCGAGT
64 ATTGAGCGAGT
27554846 AGCTATATCC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.03
80 59 0.94
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAAT
TGAGCGAGTTACCAA
Found at i:27554856 original size:80 final size:80
Alignment explanation
Indices: 27554690--27554861 Score: 190
Period size: 80 Copynumber: 2.2 Consensus size: 80
27554680 TATTCGAATG
*** * * * *
27554690 ATATCCGGGTTAATTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCA
1 ATATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACA
*
27554755 ATTGTGCGAGTTACC
66 ATTGAGCGAGTTACC
* *
27554770 AAATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCTGAAGA
1 ATATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGA
*
27554833 CAATTGAGCGAG-TAGCT
64 CAATTGAGCGAGTTA-CC
27554850 ATATCC-GGTTAA
1 ATATCCGGGTTAA
27554862 ATTCCGAAGG
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
79 10 0.13
80 65 0.84
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGTTAAGGCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACA
ATTGAGCGAGTTACC
Found at i:27556323 original size:40 final size:40
Alignment explanation
Indices: 27556260--27556337 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
27556250 AATACCTAAT
* ** *
27556260 GGGAATGAAACCTAAGATGGATCTTGTTATTATTATCTAG
1 GGGAATGAAACCTAAAACAGATCTTGTTATAATTATCTAG
27556300 GGGAATGAAACCTAAAACAGATCTTGTTATAATTATCT
1 GGGAATGAAACCTAAAACAGATCTTGTTATAATTATCT
27556338 GAATTGTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (40 bp):
GGGAATGAAACCTAAAACAGATCTTGTTATAATTATCTAG
Found at i:27563244 original size:16 final size:16
Alignment explanation
Indices: 27563200--27563244 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
27563190 CGGCAAATCT
*
27563200 CGAAAAGTCGAAATGC
1 CGAAAAGCCGAAATGC
*
27563216 CGAAAAGCTGAAATGC
1 CGAAAAGCCGAAATGC
*
27563232 CGAATAGCCGAAA
1 CGAAAAGCCGAAA
27563245 GTTTGGCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (16 bp):
CGAAAAGCCGAAATGC
Found at i:27563363 original size:9 final size:9
Alignment explanation
Indices: 27563346--27563376 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27563336 GTTGTGAATT
27563346 GGCCAAATG
1 GGCCAAATG
*
27563355 GGCCGAATG
1 GGCCAAATG
27563364 GGCCAAATG
1 GGCCAAATG
27563373 GGCC
1 GGCC
27563377 CGATAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.39, T:0.10
Consensus pattern (9 bp):
GGCCAAATG
Found at i:27563367 original size:18 final size:18
Alignment explanation
Indices: 27563341--27563376 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27563331 CTTAGGTTGT
*
27563341 GAATTGGCCAAATGGGCC
1 GAATGGGCCAAATGGGCC
27563359 GAATGGGCCAAATGGGCC
1 GAATGGGCCAAATGGGCC
27563377 CGATAGGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.36, T:0.14
Consensus pattern (18 bp):
GAATGGGCCAAATGGGCC
Found at i:27563498 original size:28 final size:29
Alignment explanation
Indices: 27563458--27563541 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 29
27563448 CATGACTGTA
27563458 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
*
27563486 AATGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
* *
27563515 AAAGAGA-TTGGGCCTAGTGGGCCATAT
1 AATGTGATTTGGGCCTAGTGGGCCATAT
27563542 ATATATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 37 0.73
29 14 0.27
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAGTGGGCCATATG
Found at i:27578810 original size:33 final size:34
Alignment explanation
Indices: 27578768--27578836 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
27578758 GCTTGCATCT
*
27578768 CTAATACTG-TACTGT-ATTAGGCTAAGGCCCACA
1 CTAATACTGTTACCGTCA-TAGGCTAAGGCCCACA
* *
27578801 CTAATACTGTTACCGTCATGGGCTGAGGCCCACA
1 CTAATACTGTTACCGTCATAGGCTAAGGCCCACA
27578835 CT
1 CT
27578837 GATATTGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.29
34 21 0.68
35 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (34 bp):
CTAATACTGTTACCGTCATAGGCTAAGGCCCACA
Found at i:27584565 original size:44 final size:42
Alignment explanation
Indices: 27584515--27584671 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
27584505 TTCGGGCCTC
*
27584515 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGAGCTTCG
1 GGCCTAGCAAGCTTTAATGCCGGTGAAT-A-A-TATCGAGCTTCG
* *
27584559 GGCCTAGC-AGGTTATAATGCCGGTGAGATAATATCGGGCTTCG
1 GGCCTAGCAAGCTT-TAATGCCGGTGA-ATAATATCGAGCTTCG
* * * * *
27584602 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAAGCTTTAATGCCGGTG-AATAATATCGAGCTTCG
* * **
27584645 AGCCTAGC-AGGTGAAATGCCGGTGAAT
1 GGCCTAGCAAGCTTTAATGCCGGTGAAT
27584672 GAGTTCAGAC
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 3 0.03
42 12 0.13
43 55 0.58
44 15 0.16
45 8 0.08
46 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (42 bp):
GGCCTAGCAAGCTTTAATGCCGGTGAATAATATCGAGCTTCG
Found at i:27584600 original size:43 final size:43
Alignment explanation
Indices: 27584542--27584670 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 43
27584532 GCTGGTGAAT
* *
27584542 AATATTATCGAGCTTCGGGCCTAGCAGGTTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTGA
* *
27584585 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTGA
* ** *
27584628 AATGATATCGGGCTTCAAGCCTAGCAGGTGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTGA
27584670 A
1 A
27584671 TGAGTTCAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
42 12 0.16
43 64 0.84
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTGA
Found at i:27584750 original size:40 final size:40
Alignment explanation
Indices: 27584604--27584749 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 40
27584594 GGGCTTCGGG
* *
27584604 CCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGATT-AAA
* *
27584647 CCTAGCAGG-TGAAATGCCGGTGAATGAGTTC-AGACTTAAA
1 CCTAGCAGGCT-AAATGCCGGTGAATGAATTCGGGA-TTAAA
* **
27584687 GCTAGCAGGCTACGTGCCGGTG-ATGAATTCGGGATTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGATT-AAA
27584727 CCTAGCAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
27584750 TTTGATAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
39 9 0.11
40 44 0.52
41 9 0.11
42 12 0.14
43 10 0.12
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGATTAAA
Found at i:27587628 original size:13 final size:12
Alignment explanation
Indices: 27587601--27587638 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
27587591 TGAAATTGAT
27587601 AATTAAAAATAA
1 AATTAAAAATAA
*
27587613 AATTATAAAATCA
1 AATTA-AAAATAA
27587626 AA-TAAAAATAA
1 AATTAAAAATAA
27587637 AA
1 AA
27587639 AGTAGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 8 0.35
12 7 0.30
13 8 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTAAAAATAA
Found at i:27589480 original size:29 final size:29
Alignment explanation
Indices: 27589448--27589520 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
27589438 CTTCGAGCTC
*
27589448 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
27589477 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
27589506 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
27589521 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:27597360 original size:29 final size:29
Alignment explanation
Indices: 27597270--27597429 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
27597260 ACTCGATTTC
* * **
27597270 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
27597299 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
27597327 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
27597357 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
27597386 GCACACTTAGTGCCATATATTTCCAGTAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27597415 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27597430 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:27602050 original size:39 final size:39
Alignment explanation
Indices: 27601996--27602158 Score: 247
Period size: 39 Copynumber: 4.2 Consensus size: 39
27601986 TGTGTATGAA
*
27601996 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
27602035 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
27602074 GGTGCAAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
27602113 TGTGCGAGTTGTGATATCCGGG-TCAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCT-AAG-CCCGAAGGCAAT
27602153 TGTGCG
1 TGTGCG
27602159 GGTTACCATA
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 94 0.84
40 17 0.15
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:27608564 original size:18 final size:18
Alignment explanation
Indices: 27608543--27608577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27608533 ACCCCCTCCA
27608543 ATTTCCTCTTCTTTCTTG
1 ATTTCCTCTTCTTTCTTG
* *
27608561 ATTTTCTTTTCTTTCTT
1 ATTTCCTCTTCTTTCTT
27608578 AGCCATTCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.23, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTCCTCTTCTTTCTTG
Found at i:27611141 original size:18 final size:18
Alignment explanation
Indices: 27611089--27611134 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
27611079 ATATATGAAA
*
27611089 TATTAATTTAAATGTAAG
1 TATTAATTTAAATATAAG
27611107 TATTAATTTAAATATAAG
1 TATTAATTTAAATATAAG
27611125 TATTTAATTT
1 TA-TTAATTT
27611135 GATATAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATTAATTTAAATATAAG
Found at i:27612830 original size:19 final size:19
Alignment explanation
Indices: 27612807--27612853 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
27612797 ATTTAATCTA
*
27612807 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
27612825 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
27612845 ATTTTTATT
1 ATTTTTATT
27612854 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:27612855 original size:31 final size:30
Alignment explanation
Indices: 27612774--27612864 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 30
27612764 AAAGGACTTG
*
27612774 CTATA-TTTTATTTATATCTTTATATTTAAT
1 CTATATTTTTATTTTTAT-TTTATATTTAAT
*
27612804 CTA-ATTTTTATTATTTATTTTAGT-TTTGATT
1 CTATATTTTTATT-TTTATTTTA-TATTT-AAT
27612835 CTATATTTTTATTTTTATTTTAATATTTAA
1 CTATATTTTTATTTTTATTTT-ATATTTAA
27612865 GATAGCTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
29 1 0.02
30 17 0.33
31 20 0.39
32 13 0.25
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (30 bp):
CTATATTTTTATTTTTATTTTATATTTAAT
Found at i:27613110 original size:18 final size:17
Alignment explanation
Indices: 27613080--27613113 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27613070 TCATAGAAAT
27613080 AAATATTTATTTAATTA
1 AAATATTTATTTAATTA
*
27613097 AAATAATTTTTTTAATT
1 AAAT-ATTTATTTAATT
27613114 TTAGCAGCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTATTTAATTA
Found at i:27613181 original size:43 final size:43
Alignment explanation
Indices: 27613113--27613293 Score: 218
Period size: 43 Copynumber: 4.2 Consensus size: 43
27613103 TTTTTTTAAT
* * * * *
27613113 TTTAGCAGCGTTTATGGAAAAAGCGCCGCTAAAGGACATGTTC
1 TTTAGCGGCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
27613156 TTTGGGGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
*
27613199 TTTAGCGGCCTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
** ** *
27613242 TTTAGTAGCCTTTGTGGGAAAAGCGTTGTTAAAGGTCATGTTC
1 TTTAGCGGCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
*
27613285 TATAGCGGC
1 TTTAGCGGC
27613294 GTTTTTTCAC
Statistics
Matches: 118, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 118 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:27616960 original size:2 final size:2
Alignment explanation
Indices: 27616953--27616978 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27616943 TGAGACTAGT
27616953 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
27616979 CATGTCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27625198 original size:29 final size:30
Alignment explanation
Indices: 27625163--27625237 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
27625153 ATAATCGATC
**
27625163 TCGCACACTTAGTGCCATGTGATTT-AAG-T
1 TCGCACACTTAGTGCCAT-ACATTTCAAGCT
27625192 TCGCACACTTAGTGCCATACATTTCAAGCT
1 TCGCACACTTAGTGCCATACATTTCAAGCT
27625222 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
27625238 ATTCTCGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
TCGCACACTTAGTGCCATACATTTCAAGCT
Found at i:27625271 original size:15 final size:15
Alignment explanation
Indices: 27625251--27625295 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
27625241 CTCGTCACCA
*
27625251 CGCACACTTATTGCC
1 CGCACACTTAGTGCC
27625266 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
27625281 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
27625296 GAAACCGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (15 bp):
CGCACACTTAGTGCC
Found at i:27633290 original size:29 final size:30
Alignment explanation
Indices: 27633255--27633329 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
27633245 ATAATCGATC
**
27633255 TCGCACACTTAGTGCCATGTGATTT-AAG-T
1 TCGCACACTTAGTGCCAT-ACATTTCAAGCT
27633284 TCGCACACTTAGTGCCATACATTTCAAGCT
1 TCGCACACTTAGTGCCATACATTTCAAGCT
27633314 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
27633330 ATTCTCGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
TCGCACACTTAGTGCCATACATTTCAAGCT
Found at i:27633363 original size:15 final size:15
Alignment explanation
Indices: 27633343--27633372 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27633333 CTCGTCACCA
*
27633343 CGCACACTTATTGCC
1 CGCACACTTAGTGCC
27633358 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
27633373 GAAACCGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.40, G:0.17, T:0.23
Consensus pattern (15 bp):
CGCACACTTAGTGCC
Found at i:27635232 original size:5 final size:6
Alignment explanation
Indices: 27635203--27635364 Score: 51
Period size: 6 Copynumber: 24.7 Consensus size: 6
27635193 GAAAAAAGAA
* ** *
27635203 AAAAAT AGAAAT AGCAAAAT AAAAAT AAAAAT AATAAAT GTATAT AAAAAAT
1 AAAAAT AAAAAT A--AAAAT AAAAAT AAAAAT AA-AAAT AAAAAT -AAAAAT
* * * *
27635255 AAAAAAT ATAAA- AAAATT AAAATT AAAAA- AATAAAT ATAAGAAT AATTAAT
1 -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT A-AA-AAT AA-AAAT
* * *
27635306 -TAATT AGTAAAAT AAAAAT AAATAAT ATAACAATT AAAAAT AAATAAA
1 AAAAAT A--AAAAT AAAAAT AAA-AAT A-AA-AA-T AAAAAT AAA-AAT
27635354 ATAAAAT AAAA
1 A-AAAAT AAAA
27635365 TTGGGGTGAT
Statistics
Matches: 117, Mismatches: 21, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
5 7 0.06
6 54 0.46
7 32 0.27
8 22 0.19
9 2 0.02
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:27635257 original size:32 final size:31
Alignment explanation
Indices: 27635218--27635332 Score: 92
Period size: 32 Copynumber: 3.6 Consensus size: 31
27635208 TAGAAATAGC
27635218 AAAATAAAAATAAAAATAATAAATGTATATAA
1 AAAATAAAAATAAAAATAATAAAT-TATATAA
* *
27635250 AAAATAAAAAATATAAAAAAATTAAAAT-TA-AA
1 AAAAT-AAAAATA-AAAATAA-TAAATTATATAA
* * * *
27635282 AAAATAAATATAAGAATAATTAATTA-ATTAGT
1 AAAATAAAAATAAAAATAATAAATTATA-TA-A
27635314 AAAATAAAAATAAATAATA
1 AAAATAAAAATAAA-AATA
27635333 TAACAATTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
29 5 0.08
30 5 0.08
31 7 0.11
32 24 0.37
33 13 0.20
34 7 0.11
35 4 0.06
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (31 bp):
AAAATAAAAATAAAAATAATAAATTATATAA
Found at i:27635300 original size:64 final size:68
Alignment explanation
Indices: 27635218--27635364 Score: 164
Period size: 68 Copynumber: 2.2 Consensus size: 68
27635208 TAGAAATAGC
27635218 AAAATAAAAATAAAAATAATAAATGT-A-TA-TAAAA-AATAAA-AAAT-ATAAAAAAATTAAAA
1 AAAAT-AAAATAAAAATAATAAAT-TAATTAGTAAAATAA-AAATAAATAATAAAAAAATTAAAA
*
27635277 TTAAA-
63 ATAAAT
* * * *
27635282 AAAATAAATATAAGAATAATTAATTAATTAGTAAAATAAAAATAAATAATATAACAATTAAAAAT
1 AAAATAAA-ATAAAAATAATAAATTAATTAGTAAAATAAAAATAAATAATAAAAAAATTAAAAAT
27635347 AAAT
65 AAAT
27635351 AAAATAAAATAAAA
1 AAAATAAAATAAAA
27635365 TTGGGGTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
63 4 0.06
64 19 0.28
65 2 0.03
66 8 0.12
67 6 0.09
68 22 0.32
69 8 0.12
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (68 bp):
AAAATAAAATAAAAATAATAAATTAATTAGTAAAATAAAAATAAATAATAAAAAAATTAAAAATA
AAT
Found at i:27635343 original size:22 final size:20
Alignment explanation
Indices: 27635219--27635364 Score: 82
Period size: 20 Copynumber: 6.9 Consensus size: 20
27635209 AGAAATAGCA
27635219 AAATAAAAATAAAAATAATAAAT
1 AAAT-AAAAT-AAAATAA-AAAT
** *
27635242 GTATATAA-AAAATAAAAAAT
1 AAATAAAATAAAAT-AAAAAT
* *
27635262 ATAAAAAAATTAAAATTAAAA-
1 A-AATAAAA-TAAAATAAAAAT
*
27635283 AAATAAATATAAGAATAATTAAT
1 AAATAAA-ATAA-AATAA-AAAT
* * *
27635306 TAAT-TAGTAAAATAAAAAT
1 AAATAAAATAAAATAAAAAT
*
27635325 AAATAATATAACAATTAAAAAT
1 AAATAAAATAA-AA-TAAAAAT
27635347 AAATAAAATAAAATAAAA
1 AAATAAAATAAAATAAAA
27635365 TTGGGGTGAT
Statistics
Matches: 92, Mismatches: 20, Indels: 25
0.67 0.15 0.18
Matches are distributed among these distances:
19 6 0.07
20 30 0.33
21 19 0.21
22 27 0.29
23 10 0.11
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAT
Found at i:27635361 original size:32 final size:30
Alignment explanation
Indices: 27635249--27635362 Score: 96
Period size: 30 Copynumber: 3.7 Consensus size: 30
27635239 AATGTATATA
*
27635249 AAAAATAAAAAATATAAAAAAATTAAAATT
1 AAAAATAAAAAATATAAAATAATTAAAATT
*
27635279 AAAAA-AATAAATATAAGAATAATTAATTAATT
1 AAAAATAAAAAATATAA-AATAATTAA--AATT
27635311 AGTAAAAT--AAAA-AT-AAATAATATAACAATT
1 A--AAAATAAAAAATATAAAATAAT-TAA-AATT
27635341 AAAAATAAATAAA-ATAAAATAA
1 AAAAATAAA-AAATATAAAATAA
27635363 AATTGGGGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
28 5 0.07
29 10 0.14
30 25 0.36
31 9 0.13
32 13 0.19
33 3 0.04
34 4 0.06
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (30 bp):
AAAAATAAAAAATATAAAATAATTAAAATT
Found at i:27635365 original size:15 final size:15
Alignment explanation
Indices: 27635250--27635365 Score: 53
Period size: 15 Copynumber: 7.3 Consensus size: 15
27635240 ATGTATATAA
*
27635250 AAAATAAAA-AATAT
1 AAAATAAAATAAAAT
*
27635264 AAAA-AAATTAAAAT
1 AAAATAAAATAAAAT
*
27635278 TAAA-AAAATAAATAT
1 AAAATAAAATAAA-AT
*
27635293 AAGAATAATTAATTAATTAGT
1 AA-AATAA--AA-TAA--AAT
27635314 AAAATAAAA-ATAAAT
1 AAAATAAAATA-AAAT
*
27635329 AATATAACAATTAAAA-
1 AAAATAA-AA-TAAAAT
27635345 ATAAATAAAATAAAAT
1 A-AAATAAAATAAAAT
27635361 AAAAT
1 AAAAT
27635366 TGGGGTGATT
Statistics
Matches: 78, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
13 3 0.04
14 18 0.23
15 20 0.26
16 9 0.12
17 11 0.14
18 3 0.04
19 2 0.03
20 8 0.10
21 3 0.04
22 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:27640512 original size:36 final size:35
Alignment explanation
Indices: 27640472--27640543 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
27640462 GGACATAATG
27640472 TTAAAATTTTCATTCATTGTAAAAAAAAAAAAACAC
1 TTAAAATTTTCATTCATTGT-AAAAAAAAAAAACAC
* *
27640508 TTAAAATTTTCATTTATTGTATAAAAAAAAAACAC
1 TTAAAATTTTCATTCATTGTAAAAAAAAAAAACAC
27640543 T
1 T
27640544 CATTTATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 15 0.44
36 19 0.56
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (35 bp):
TTAAAATTTTCATTCATTGTAAAAAAAAAAAACAC
Found at i:27643889 original size:28 final size:28
Alignment explanation
Indices: 27643840--27643895 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
27643830 CTATTGTAAC
*
27643840 TTAGAATTTAAAACTTTCCCCCCATTTT
1 TTAGAATTTAAAACTTTACCCCCATTTT
* * *
27643868 TTAGAATTTACAATTTTACCCCGATTTT
1 TTAGAATTTAAAACTTTACCCCCATTTT
27643896 CATATTTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (28 bp):
TTAGAATTTAAAACTTTACCCCCATTTT
Found at i:27643978 original size:28 final size:28
Alignment explanation
Indices: 27643858--27644045 Score: 116
Period size: 28 Copynumber: 6.8 Consensus size: 28
27643848 TAAAACTTTC
* * * *
27643858 CCCCCATTTTTTAGAATTTACAATTTTA
1 CCCCTATTTTTCAGATTTTACAATTTTG
* * **
27643886 CCCCGA-TTTTCATATTTTACCCTTTTG
1 CCCCTATTTTTCAGATTTTACAATTTTG
** *
27643913 CCATTATTTTTCAAATTTTACCAA-TTTG
1 CCCCTATTTTTCAGATTTTA-CAATTTTG
**
27643941 AACCTA-TTTTCTAGATTTTACAATTTT-
1 CCCCTATTTTTC-AGATTTTACAATTTTG
* * * *
27643968 CCCCTATTTTTAAGATTATATAGTTTTG
1 CCCCTATTTTTCAGATTTTACAATTTTG
* *
27643996 CCTCTATTTTTCAAATTTTACAAAATTTT-
1 CCCCTATTTTTCAGATTTTAC--AATTTTG
* *
27644025 CCCCTATTTTACAAATTTTAC
1 CCCCTATTTTTCAGATTTTAC
27644046 TGTTTTGACA
Statistics
Matches: 120, Mismatches: 32, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
27 42 0.35
28 53 0.44
29 20 0.17
30 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (28 bp):
CCCCTATTTTTCAGATTTTACAATTTTG
Found at i:27644324 original size:11 final size:11
Alignment explanation
Indices: 27644308--27644334 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27644298 CTATATTAAA
27644308 ATATTATAAGC
1 ATATTATAAGC
27644319 ATATTATAAGC
1 ATATTATAAGC
27644330 ATATT
1 ATATT
27644335 GAGATTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (11 bp):
ATATTATAAGC
Found at i:27647132 original size:42 final size:42
Alignment explanation
Indices: 27647085--27647199 Score: 99
Period size: 42 Copynumber: 2.7 Consensus size: 42
27647075 GAGATTCCGA
* *
27647085 ATAAGACCATATCTA-CGATATGGCATCGGTATG-TGATTTCAT
1 ATAAGACCATATC-AGCGACATGGCATCGATATGAT-ATTTCAT
** * *
27647127 ATAAGATTATATCAGGGACATGGCGTCGATATGATATTTCAT
1 ATAAGACCATATCAGCGACATGGCATCGATATGATATTTCAT
* * * * *
27647169 GTAAGACCATATCCGGGATATGGCATTGATA
1 ATAAGACCATATCAGCGACATGGCATCGATA
27647200 CGGTACTATG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
ATAAGACCATATCAGCGACATGGCATCGATATGATATTTCAT
Found at i:27649286 original size:28 final size:29
Alignment explanation
Indices: 27649249--27649372 Score: 153
Period size: 28 Copynumber: 4.3 Consensus size: 29
27649239 AGGTCTGCAT
* *
27649249 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
27649277 TCATTCATATGGCCAATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
27649306 ACATTCGTATGACCC-TTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
27649334 ACATTCGTATGGCCCATTATGCCCAAATT
1 ACATTCATATGGCCCATTAGGCCCAAATC
27649363 ACATTCATAT
1 ACATTCATAT
27649373 ACATGCTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 47 0.57
29 35 0.43
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:27655997 original size:58 final size:58
Alignment explanation
Indices: 27655902--27656036 Score: 234
Period size: 58 Copynumber: 2.3 Consensus size: 58
27655892 AGCTTGTTTA
*
27655902 AAACGTATGATTTATGAAAACCTGTCATTTTAATATTAAGTTGCGGAAACATAGAAAAC
1 AAAC-TATGATTTATGAAAACCTGTCATGTTAATATTAAGTTGCGGAAACATAGAAAAC
*
27655961 AAACTATGATTTATGAAAACCTGTCATGTTAATATTAAGTTGCGGAAACGTAGAAAAC
1 AAACTATGATTTATGAAAACCTGTCATGTTAATATTAAGTTGCGGAAACATAGAAAAC
*
27656019 AAACTATGATTTAGGAAA
1 AAACTATGATTTATGAAA
27656037 CCTATGTTCA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 69 0.95
59 4 0.05
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (58 bp):
AAACTATGATTTATGAAAACCTGTCATGTTAATATTAAGTTGCGGAAACATAGAAAAC
Found at i:27657079 original size:29 final size:29
Alignment explanation
Indices: 27656995--27657118 Score: 81
Period size: 29 Copynumber: 4.3 Consensus size: 29
27656985 AAGTCTACAT
* * *
27656995 ACATGCATATGGCCCACT-AGCCC-AATC
1 ACATACATATGGCCCATTAAACCCAAATC
* * * *** *
27657022 TCATTCATATGGCCTATTAGGTCCGAATC
1 ACATACATATGGCCCATTAAACCCAAATC
* *
27657051 ACATACGTGTGGCCCATTAAACCCAAATC
1 ACATACATATGGCCCATTAAACCCAAATC
* ** *
27657080 ACATTCATATGGCCCATTAGGCCCAAACC
1 ACATACATATGGCCCATTAAACCCAAATC
*
27657109 ACATTCATAT
1 ACATACATAT
27657119 ACATGCTTTC
Statistics
Matches: 74, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
27 14 0.19
28 3 0.04
29 57 0.77
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATACATATGGCCCATTAAACCCAAATC
Found at i:27661007 original size:48 final size:48
Alignment explanation
Indices: 27660951--27661046 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
27660941 TATGGCGCTA
*
27660951 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATG
*
27660999 TGATCCCATGTAAGACCATGTCTGAGACATGGCTTTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATG
27661047 AGACTTCGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATG
Found at i:27661079 original size:48 final size:47
Alignment explanation
Indices: 27660952--27661081 Score: 165
Period size: 48 Copynumber: 2.7 Consensus size: 47
27660942 ATGGCGCTAT
*
27660952 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATCGATATGA
*
27661000 GATCCCATGTAAGACCATGTCTGAGACATGGCTTTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTG-GACATGGCATTGGCATCGATATGA
* *
27661048 GA-CTTCGTGTAAGACCATAGT-TGGACTATGGCAT
1 GATC-CCATGTAAGACCAT-GTCTGGAC-ATGGCAT
27661082 CAAGTAAACC
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
47 5 0.07
48 66 0.90
49 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (47 bp):
GATCCCATGTAAGACCATGTCTGGACATGGCATTGGCATCGATATGA
Found at i:27664655 original size:42 final size:42
Alignment explanation
Indices: 27664608--27664704 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
27664598 GAGATTCTGA
* * * *
27664608 ATAAGACCATATCTGGGATATGGCATCGGTATGT-GGTTTCAT
1 ATAAGACCATATCAGGGACATGGCATCGATAT-TAGATTTCAT
* *
27664650 ATAAGACCATGTCAGGGACATGGCATCGATATTATATTTCAT
1 ATAAGACCATATCAGGGACATGGCATCGATATTAGATTTCAT
*
27664692 GTAAGACCATATC
1 ATAAGACCATATC
27664705 CAAGATATGG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
ATAAGACCATATCAGGGACATGGCATCGATATTAGATTTCAT
Found at i:27669080 original size:2 final size:2
Alignment explanation
Indices: 27669073--27669114 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
27669063 TCAAGTAAAC
* *
27669073 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27669114 A
1 A
27669115 CTAAGAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27673892 original size:29 final size:29
Alignment explanation
Indices: 27673832--27673916 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
27673822 CATTCATGCA
* *
27673832 TATGGCCCACTAGGCCC-AATCTCATTCC
1 TATGGCCCATTAGGCCCAAATCACATTCC
* *
27673860 TATGGCCTATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCC
27673889 TATGGCCCATTAGGCCCAAATCACATTC
1 TATGGCCCATTAGGCCCAAATCACATTC
27673917 ATAGTCATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 15 0.29
29 36 0.71
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCC
Found at i:27679754 original size:13 final size:13
Alignment explanation
Indices: 27679736--27679760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27679726 GTTAATAGGG
27679736 TATTCAATTCATT
1 TATTCAATTCATT
27679749 TATTCAATTCAT
1 TATTCAATTCAT
27679761 AGTAATTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTCAATTCATT
Found at i:27680513 original size:29 final size:28
Alignment explanation
Indices: 27680455--27680518 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
27680445 GTTGTGTTTC
* * *
27680455 TTTTATTTTTATTTTGTTTGTTTTTATA
1 TTTTATTTTTATTTAGTTTATTTATATA
27680483 TTTTATTTTTAATTTAGTTTA-TTATATTA
1 TTTTATTTTT-ATTTAGTTTATTTATA-TA
*
27680512 TTATATT
1 TTTTATT
27680519 AACTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTTATTTTTATTTAGTTTATTTATATA
Found at i:27680520 original size:26 final size:27
Alignment explanation
Indices: 27680474--27680539 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
27680464 TATTTTGTTT
* *
27680474 GTTT-TTATATT-TTATTTTTAATTTA
1 GTTTATTATATTATTATTATTAACTTA
27680499 GTTTATTATATTATTA-TATTAACTTA
1 GTTTATTATATTATTATTATTAACTTA
*
27680525 -ATTATTATTATTATT
1 GTTTATTA-TATTATT
27680540 TCTTAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 10 0.29
26 22 0.63
27 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (27 bp):
GTTTATTATATTATTATTATTAACTTA
Found at i:27680697 original size:36 final size:32
Alignment explanation
Indices: 27680649--27680730 Score: 76
Period size: 36 Copynumber: 2.5 Consensus size: 32
27680639 TTTATTCATT
*
27680649 AATATAAT-AATATAAAATTAATTAAATAATAATA
1 AATATTATAAATATAAAATTAA-TAAA-AAT-ATA
* ** *
27680683 ATTATTATTAAATATTTATTTAATAAAAATATA
1 AATATTA-TAAATATAAAATTAATAAAAATATA
27680716 AATATTATAAATATA
1 AATATTATAAATATA
27680731 CACATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
32 7 0.18
33 9 0.23
34 8 0.21
35 5 0.13
36 10 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AATATTATAAATATAAAATTAATAAAAATATA
Found at i:27680834 original size:30 final size:31
Alignment explanation
Indices: 27680800--27680870 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 31
27680790 TATTTATCAT
27680800 ATAAAATA-TTTTACTAATTA-ATAATAAATA
1 ATAAAATATTTTTACTAATTATAT-ATAAATA
27680830 ATAAAATATCTTTTTACTAATTATATATAAATA
1 ATAAAATA--TTTTTACTAATTATATATAAATA
27680863 ATACAAAT
1 ATA-AAAT
27680871 GTACTCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
30 8 0.22
33 22 0.61
34 6 0.17
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (31 bp):
ATAAAATATTTTTACTAATTATATATAAATA
Found at i:27680968 original size:29 final size:29
Alignment explanation
Indices: 27680929--27680985 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
27680919 GTCTTTTCTT
* *
27680929 AATTTATTTTATAATATAATAATATAATC
1 AATTTAATTTATAATATAATAAAATAATC
27680958 AATTTAATTTATAATATAATAAAATAAT
1 AATTTAATTTATAATATAATAAAATAAT
27680986 AACAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTAATTTATAATATAATAAAATAATC
Found at i:27681006 original size:37 final size:37
Alignment explanation
Indices: 27680939--27681009 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
27680929 AATTTATTTT
* * *
27680939 ATAATATAATAATATAATCAATTTAATTTATAATATA
1 ATAAAATAATAAAATAATCAATATAATTTATAATATA
*
27680976 ATAAAATAATAACAATAAT-AATATATTTTATAAT
1 ATAAAATAATAA-AATAATCAATATAATTTATAAT
27681010 TAAACAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.83
38 5 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (37 bp):
ATAAAATAATAAAATAATCAATATAATTTATAATATA
Found at i:27683314 original size:29 final size:28
Alignment explanation
Indices: 27683248--27683369 Score: 145
Period size: 28 Copynumber: 4.3 Consensus size: 28
27683238 AAGTCTACAT
* *
27683248 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
27683276 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
*
27683305 ACATTCATATGGCCCATCAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* ** * *
27683333 ACTTTCATATGGCCTGTCAGGTCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
27683361 ACACTCATA
1 ACATTCATA
27683370 GCCATGCAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 56 0.68
29 26 0.32
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:27687034 original size:20 final size:20
Alignment explanation
Indices: 27687009--27687060 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
27686999 ATTATATATA
*
27687009 ATAATAAATAATAAGATAAC
1 ATAATAAATAATAAAATAAC
* *
27687029 ATAATATATAATAAAATAAG
1 ATAATAAATAATAAAATAAC
*
27687049 A-AATGAATAATA
1 ATAATAAATAATA
27687061 TATATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
ATAATAAATAATAAAATAAC
Done.