Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 188 of 345
Found at i:53344900 original size:26 final size:27
Alignment explanation
Indices: 53344850--53344911 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
53344840 GGCTAAAATG
* *
53344850 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAATCGACGGCATTTCA
* *
53344877 GTAATTTTAC-AATCGACGGTATTTCG
1 GTAATTTTACAAATCGACGGCATTTCA
53344903 GTAATTTTA
1 GTAATTTTA
53344912 TAAACTGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTTTACAAATCGACGGCATTTCA
Found at i:53344960 original size:26 final size:26
Alignment explanation
Indices: 53344871--53344962 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
53344861 AATCGAGGGC
**
53344871 ATTTCAGTAATTTTACAA-TCGACGGT
1 ATTTCAGTAATTTTACAACT-GGGGGT
* *
53344897 ATTTCGGTAATTTTATAAACTGGGGGT
1 ATTTCAGTAATTTTA-CAACTGGGGGT
*
53344924 ACTTTGA-TAATTTTACAACTGGGGGT
1 A-TTTCAGTAATTTTACAACTGGGGGT
*
53344950 ATTTTAGTAATTT
1 ATTTCAGTAATTT
53344963 GGTAAACTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
25 4 0.07
26 31 0.57
27 15 0.28
28 4 0.07
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (26 bp):
ATTTCAGTAATTTTACAACTGGGGGT
Found at i:53346931 original size:6 final size:6
Alignment explanation
Indices: 53346920--53347051 Score: 128
Period size: 6 Copynumber: 21.8 Consensus size: 6
53346910 AACCAAAATG
* *
53346920 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
53346968 AGTAA-C AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
53347017 AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
53347052 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
5 7 0.07
6 89 0.86
7 6 0.06
8 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:53346935 original size:30 final size:29
Alignment explanation
Indices: 53346899--53347051 Score: 161
Period size: 30 Copynumber: 5.3 Consensus size: 29
53346889 AAGAAACATT
* * *
53346899 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
53346929 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
* *
53346959 ATCAGTATTAGTAACAGAATTAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* *
53346989 ATTAG----GTGACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
53347014 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
53347044 ATCAGAAT
1 ATCAGAAT
53347052 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
25 22 0.21
30 78 0.76
31 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:53347206 original size:27 final size:26
Alignment explanation
Indices: 53347169--53347234 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
53347159 AGCATGGCTG
*
53347169 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
53347195 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
53347222 CCAGAATCAGATA
1 CCAGAA-CAGATA
53347235 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:53347239 original size:27 final size:27
Alignment explanation
Indices: 53347169--53347242 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
53347159 AGCATGGCTG
* *
53347169 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
53347195 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
53347222 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
53347243 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:53347249 original size:27 final size:27
Alignment explanation
Indices: 53347193--53347250 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
53347183 GTGACAGAGT
* * *
53347193 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
53347220 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
53347247 CACC
1 CACC
53347251 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:53347455 original size:22 final size:22
Alignment explanation
Indices: 53347407--53347465 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53347397 GTAAATACGT
*
53347407 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
53347429 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
53347451 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
53347466 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:53347632 original size:27 final size:26
Alignment explanation
Indices: 53347553--53347634 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
53347543 TCGATTGGTC
* *
53347553 AACAGATATTGTGGCAAAGTCACCAA
1 AACAGATATTGTGGCAAAGCCACCAG
*
53347579 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
53347606 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
53347633 AA
1 AA
53347635 GGGCAAAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:53347701 original size:27 final size:27
Alignment explanation
Indices: 53347671--53347839 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
53347661 AGGGCAAAAT
* * *
53347671 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53347698 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53347725 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53347752 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
53347779 AGTAATTCTACCCTATAGGGGTGTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53347806 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53347833 AGTAATT
1 GGTAATT
53347840 TCACAATTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53347838 original size:81 final size:81
Alignment explanation
Indices: 53347687--53347839 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 81
53347677 TTTACCCCAC
* *
53347687 AAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
*
53347752 GGTAATTCTATCCTAT
66 AGTAATTCTATCCTAT
* * * *
53347768 AAGGGTATTTCAGTAATTCTACCCTATAGGGGTGTTTCGGA-AATTCTACCCTACAGGGGTATTT
1 AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTT
53347832 CAGTAATT
65 CAGTAATT
53347840 TCACAATTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 62 0.97
82 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (81 bp):
AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
AGTAATTCTATCCTAT
Found at i:53347881 original size:27 final size:27
Alignment explanation
Indices: 53347849--53348178 Score: 351
Period size: 27 Copynumber: 12.2 Consensus size: 27
53347839 TTCACAATTA
53347849 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* ** * *
53347876 AGGGTAGAACAATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTATAAATC-G
* * * * *
53347903 AAGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTATAAATCG
* * *
53347930 AGGGTAAAACGATAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
53347957 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* *
53347984 AGGGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTATAAATC-G
*
53348011 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
53348038 AGGGTAAAACAGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTATAAATC-G
* * * *
53348065 AGGGTGAAACGATAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTATAAATCG
* * *
53348092 AGGATAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
53348119 AGGGTGAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* * *
53348146 AGGCTAAAATGGTAATTCTACAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
53348173 AGGGTA
1 AGGGTA
53348179 TTTCAGTAAT
Statistics
Matches: 249, Mismatches: 48, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
26 3 0.01
27 243 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTATAAATCG
Found at i:53348162 original size:81 final size:81
Alignment explanation
Indices: 53347848--53348222 Score: 371
Period size: 81 Copynumber: 4.6 Consensus size: 81
53347838 TTTCACAATT
* * * ** * * * *
53347848 AAGGGTAAAACGGTAATTCTATAAATCGAGGGTAGAACAATAATTTTGTAAA-CTGAAGGTAAAC
1 AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAA
*
53347912 CAGTAATTCTGTAAATC
65 CGGTAATTCTGTAAATC
* *
53347929 AAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
*
53347994 AGTAATTCTGTAAA-C
66 GGTAATTCTGTAAATC
* * ** * *
53348009 TGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTGAA
1 -AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAA
*
53348073 ACGATAATTCTGTAAATC
64 ACGGTAATTCTGTAAATC
* * * *
53348091 AAGGATAAAACGGTAATTTTACAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGCTAAAAT
1 AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
**
53348156 GGTAATTCTACAAATC
66 GGTAATTCTGTAAATC
* *** * * *** *
53348172 GAGGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCGGTAATTTTATAAA
1 AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA
53348223 CTGGGGGTAC
Statistics
Matches: 245, Mismatches: 44, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
80 25 0.10
81 217 0.89
82 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (81 bp):
AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
GGTAATTCTGTAAATC
Found at i:53348204 original size:26 final size:27
Alignment explanation
Indices: 53348157--53348218 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
53348147 GGCTAAAATG
* *
53348157 GTAATTCTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGACGGTATTTCA
*
53348184 GTAATTTTAC-AATCGACGGTATTTCG
1 GTAATTTTACAAATCGACGGTATTTCA
53348210 GTAATTTTA
1 GTAATTTTA
53348219 TAAACTGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGACGGTATTTCA
Found at i:53348257 original size:26 final size:25
Alignment explanation
Indices: 53348155--53348269 Score: 88
Period size: 26 Copynumber: 4.4 Consensus size: 25
53348145 GAGGCTAAAA
* * *
53348155 TGGTAATTCTACAAATCGAGGGTATT
1 TGGTAATTTTACAACT-GGGGGTATT
* **
53348181 TCAGTAATTTTACAA-TCGACGGTATT
1 T-GGTAATTTTACAACT-GGGGGTATT
*
53348207 TCGGTAATTTTATAAACTGGGGGTACTT
1 T-GGTAATTTTA-CAACTGGGGGTA-TT
53348235 TGGTAATTTTACAACTGGGGGTATTT
1 TGGTAATTTTACAACTGGGGGTA-TT
*
53348261 TAGTAATTT
1 TGGTAATTT
53348270 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
26 43 0.57
27 28 0.37
28 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (25 bp):
TGGTAATTTTACAACTGGGGGTATT
Found at i:53350229 original size:6 final size:6
Alignment explanation
Indices: 53350218--53350372 Score: 169
Period size: 6 Copynumber: 25.8 Consensus size: 6
53350208 AACCAAAATG
*
53350218 AGAATC AGAATC AGAATC AGTAA-C AGAATC AAAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC
* *
53350266 AGAATC AGAATC AGAATC A-AATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
53350314 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
53350362 AGAATC AGAAT
1 AGAATC AGAAT
53350373 GTGAATGCAA
Statistics
Matches: 127, Mismatches: 10, Indels: 24
0.79 0.06 0.15
Matches are distributed among these distances:
5 13 0.10
6 104 0.82
7 9 0.07
8 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:53350245 original size:24 final size:24
Alignment explanation
Indices: 53350218--53350372 Score: 188
Period size: 24 Copynumber: 6.2 Consensus size: 24
53350208 AACCAAAATG
53350218 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
53350242 AGAATCAAAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
53350266 AGAATCAGAATCAGAATCAAATTAGGTGAC
1 AGAATCAGAATCAGAATC-----A-GTAAC
53350296 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
**
53350320 AGAATCAGAATCAGAATCAGTATT
1 AGAATCAGAATCAGAATCAGTAAC
53350344 AGTAA-CAGAATCAGAATCAG-AATC
1 AG-AATCAGAATCAGAATCAGTAA-C
53350368 AGAAT
1 AGAAT
53350373 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
23 3 0.03
24 85 0.75
25 3 0.03
29 1 0.01
30 22 0.19
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:53350536 original size:27 final size:26
Alignment explanation
Indices: 53350492--53350561 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
53350482 ATGGCTGCCA
* * *
53350492 AACAGATATCGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
53350518 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
53350545 AATCAGATAATGTGGCA
1 AA-CAGATATTGTGGCA
53350562 AACCCACCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:53350568 original size:27 final size:27
Alignment explanation
Indices: 53350512--53350569 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
53350502 GTGACAGAGT
* * *
53350512 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
53350539 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
53350566 CACC
1 CACC
53350570 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:53350773 original size:22 final size:22
Alignment explanation
Indices: 53350725--53350783 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53350715 GTAAATACGT
*
53350725 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
53350747 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
53350769 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
53350784 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:53350917 original size:26 final size:26
Alignment explanation
Indices: 53350869--53350945 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
53350859 TCGATCGGTC
*
53350869 AACAGATATTGT-GCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
*
53350894 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAA
*
53350920 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGGCAGAGCCACCA
53350946 GAACGCTTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 12 0.26
26 19 0.40
27 16 0.34
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:53350941 original size:27 final size:26
Alignment explanation
Indices: 53350869--53350949 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
53350859 TCGATCGGTC
* *
53350869 AACAGATATTGT-GCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
53350894 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
53350920 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
53350947 AAC
1 AAC
53350950 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
25 12 0.24
26 19 0.37
27 20 0.39
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:53351184 original size:26 final size:27
Alignment explanation
Indices: 53351147--53351337 Score: 221
Period size: 26 Copynumber: 7.3 Consensus size: 27
53351137 GGGGCAAAAT
* *
53351147 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53351173 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53351199 -GTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53351225 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53351252 GGTAATTCTA-TCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53351278 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53351305 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53351331 AGTAATT
1 GGTAATT
53351338 TCACAATCAA
Statistics
Matches: 142, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
25 14 0.10
26 76 0.54
27 52 0.37
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53351259 original size:79 final size:80
Alignment explanation
Indices: 53351149--53351337 Score: 251
Period size: 79 Copynumber: 2.4 Consensus size: 80
53351139 GGCAAAATGG
* * * * *
53351149 TAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTA-CAGGGTATTTC-GTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTATAAGGGTATTTCAGTAATTCTACCC
53351211 TACAAGGGTATTTCGA
65 TACAAGGGTATTTCGA
* *
53351227 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCTATAAGGGTATTTCAGTAATTCTACCCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTATAAGGGTATTTCAGTAATTCTACCCT
* *
53351292 ATAGGGGTATTTCGA
66 ACAAGGGTATTTCGA
*
53351307 -AATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
53351338 TCACAATCAA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 13 0.13
79 59 0.61
80 25 0.26
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTATAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGA
Found at i:53351331 original size:53 final size:53
Alignment explanation
Indices: 53351148--53351337 Score: 244
Period size: 53 Copynumber: 3.6 Consensus size: 53
53351138 GGGCAAAATG
* * *
53351148 GTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACA-GGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
53351199 GTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTA-TTTC
* * *
53351253 GTAATTCTA-TCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
53351305 GAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATT
53351338 TCACAATCAA
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
51 11 0.09
52 38 0.32
53 59 0.49
54 12 0.10
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:53351379 original size:27 final size:27
Alignment explanation
Indices: 53351342--53351673 Score: 411
Period size: 27 Copynumber: 12.3 Consensus size: 27
53351332 GTAATTTCAC
*
53351342 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
53351369 AACCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
53351396 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
53351423 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
53351450 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
53351477 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
53351504 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
53351531 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
53351558 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
53351585 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
53351612 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
53351639 AATCGA-GGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
53351665 AATCAAGGG
1 AATCGAGGG
53351674 CATTTCAGTA
Statistics
Matches: 267, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
26 26 0.10
27 238 0.89
28 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:53351379 original size:79 final size:79
Alignment explanation
Indices: 53351215--53351379 Score: 169
Period size: 79 Copynumber: 2.1 Consensus size: 79
53351205 CTACCCTACA
** * ***
53351215 AGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCTATAAGGGTATTTCAG
1 AGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTATCAATAAGGGTAAAACAG
*
53351280 TAATTCTACCCTATAG
66 TAATTCTA--CTAAAG
53351296 -GGGTATTTCGA-AATTCTACCCTACAGGGGTATTTCAGTAATT-TCA-CAATCAAGGGTAAAAC
1 AGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCT-ATCAAT-AAGGGTAAAAC
*
53351357 GGTAATTCTA-TAAACCG
64 AGTAATTCTACTAAA--G
53351374 AGGGTA
1 AGGGTA
53351380 AAACGATAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
76 3 0.04
78 5 0.07
79 52 0.73
80 11 0.15
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (79 bp):
AGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTATCAATAAGGGTAAAACAG
TAATTCTACTAAAG
Found at i:53351694 original size:25 final size:24
Alignment explanation
Indices: 53351664--53351713 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
53351654 GTAATTCTAC
*
53351664 AAATCAAGGGCATTTCAGTAATTTT
1 AAATCAACGGCA-TTCAGTAATTTT
* *
53351689 AAATCAACGGTATTCGGTAATTTT
1 AAATCAACGGCATTCAGTAATTTT
53351713 A
1 A
53351714 TAAACTGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (24 bp):
AAATCAACGGCATTCAGTAATTTT
Found at i:53351733 original size:26 final size:24
Alignment explanation
Indices: 53351697--53351760 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
53351687 TTAAATCAAC
*
53351697 GGTATTCGGTAATTTTATAAACTGG
1 GGTATTTGGTAATTTTA-AAACTGG
* *
53351722 GGTACTTTGGTAATTTTACAATTGG
1 GGTA-TTTGGTAATTTTAAAACTGG
*
53351747 GGTATTTAGTAATT
1 GGTATTTGGTAATT
53351761 GGTAAACTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.26
25 13 0.38
26 12 0.35
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (24 bp):
GGTATTTGGTAATTTTAAAACTGG
Found at i:53353700 original size:6 final size:6
Alignment explanation
Indices: 53353685--53353840 Score: 160
Period size: 6 Copynumber: 25.8 Consensus size: 6
53353675 AACCAAAATG
* *
53353685 AGAATC AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
53353733 AGTAA-C AGAATC AGAATT AG-GTGAC AGAATC AGAACC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* *
53353782 AGAATC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
53353830 AGAATC AGAAT
1 AGAATC AGAAT
53353841 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 22
0.78 0.09 0.14
Matches are distributed among these distances:
5 9 0.07
6 106 0.85
7 9 0.07
8 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:53353995 original size:27 final size:26
Alignment explanation
Indices: 53353958--53354023 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
53353948 AGCATGGCTG
*
53353958 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
53353984 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
53354011 CCAGAATCAGATA
1 CCAGAA-CAGATA
53354024 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:53354028 original size:27 final size:27
Alignment explanation
Indices: 53353958--53354031 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
53353948 AGCATGGCTG
* *
53353958 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
53353984 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
53354011 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
53354032 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:53354038 original size:27 final size:27
Alignment explanation
Indices: 53353982--53354039 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
53353972 GTGACAGAGT
* * *
53353982 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
53354009 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
53354036 CACC
1 CACC
53354040 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:53354237 original size:22 final size:22
Alignment explanation
Indices: 53354189--53354247 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53354179 CAGGTAAATT
*
53354189 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
53354211 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
53354233 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
53354248 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:53354410 original size:27 final size:25
Alignment explanation
Indices: 53354334--53354413 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 25
53354324 TGATCAGTCG
* *
53354334 ACAGATATTGTGCAGAGTCACCAAA
1 ACAGATATTGTGCAGAGCCACCAGA
53354359 TACAGATATTGTGCAGAGCCACCAGA
1 -ACAGATATTGTGCAGAGCCACCAGA
*
53354385 ACAGATATTTGTGGCATAGCCACCAGA
1 ACAGATA-TTGT-GCAGAGCCACCAGA
53354412 AC
1 AC
53354414 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
25 7 0.14
26 27 0.55
27 15 0.31
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (25 bp):
ACAGATATTGTGCAGAGCCACCAGA
Found at i:53354700 original size:26 final size:27
Alignment explanation
Indices: 53354614--53354796 Score: 171
Period size: 27 Copynumber: 6.9 Consensus size: 27
53354604 GGCAAAATGG
* * * *
53354614 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
53354641 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
*
53354667 GTATTTCTACCCTACAAGGGT-TTTCGA
1 -TAATTCTACCCTACAAGGGTATTTCGA
* *
53354694 TAATTCTA-CCTAC-AGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
53354719 TAATTCTATCCTATAA-GGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
53354744 GTAATTCTACCCTATAGGGGTATTTCGA
1 -TAATTCTACCCTACAAGGGTATTTCGA
* * *
53354772 AAATTCTACCCTATAGGGGTATTTC
1 TAATTCTACCCTACAAGGGTATTTC
53354797 AGTAATTTCA
Statistics
Matches: 132, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.04
25 17 0.13
26 36 0.27
27 73 0.55
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:53354838 original size:27 final size:27
Alignment explanation
Indices: 53354808--53355135 Score: 314
Period size: 27 Copynumber: 12.3 Consensus size: 27
53354798 GTAATTTCAC
*
53354808 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
53354835 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
53354862 AA-CTGAGGGT--AACTAGTAATT-TGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTATA
* * *
53354887 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
53354914 AATCGAGGGTAAAACGGCAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
53354941 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
53354968 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
**
53354995 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
53355022 AA-CTGAGGGTAAAA-GGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
53355047 TATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
53355074 AATAGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
53355101 AATCGAGGCT-AAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
53355127 AATCGAGGG
1 AATCGAGGG
53355136 CATTTCAGTA
Statistics
Matches: 249, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
25 28 0.11
26 51 0.20
27 169 0.68
28 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:53355026 original size:160 final size:159
Alignment explanation
Indices: 53354813--53355123 Score: 455
Period size: 160 Copynumber: 1.9 Consensus size: 159
53354803 TTCACAATCA
* * * * *
53354813 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAACTA-
1 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAAGATAATTCTATAAACTGAGGGTAA-AAG
* *
53354877 GTAATTTGTAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGCAATTCTGTAA
65 GTAATTTGTAAATCAAGGGTAAAACGGTAATTTTACAAATAGAGGGTAAAACGGCAATTCTATAA
*
53354942 ATCGAGGGTAAAATAGTAATTCTGTAAACTG
130 ATCGAGGCT-AAATAGTAATTCTGTAAACTG
*
53354973 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTATAAACTGAGGGTAAAAG
1 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA-AGATAATTCTATAAACTGAGGGTAAAAG
* * * *
53355037 GTAATTTGTATATCGAGGGTAAAACGGTAATTTTACAAATAGAGGGTGAAACGGTAATTCTATAA
65 GTAATTTGTAAATCAAGGGTAAAACGGTAATTTTACAAATAGAGGGTAAAACGGCAATTCTATAA
*
53355102 ATCGAGGCTAAATGGTAATTCT
130 ATCGAGGCTAAATAGTAATTCT
53355124 ACAAATCGAG
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
159 13 0.10
160 121 0.90
161 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (159 bp):
AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAAGATAATTCTATAAACTGAGGGTAAAAGG
TAATTTGTAAATCAAGGGTAAAACGGTAATTTTACAAATAGAGGGTAAAACGGCAATTCTATAAA
TCGAGGCTAAATAGTAATTCTGTAAACTG
Found at i:53355096 original size:79 final size:78
Alignment explanation
Indices: 53354808--53355121 Score: 337
Period size: 79 Copynumber: 4.0 Consensus size: 78
53354798 GTAATTTCAC
* * * * *
53354808 AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGT
*
53354872 AACTA-GTAATTTGT
65 AA-AAGGTAATTTGT
* * * *
53354886 AAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGCAATTCTGTAAATCGAGGGT
1 -AATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
*
53354951 AAAATAGTAATTCTGT
65 AAAA-GGTAATT-TGT
* * ** **
53354967 AAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAA-CTGAGGG
1 AATC-GAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGG
53355031 TAAAAGGTAATTTGT
64 TAAAAGGTAATTTGT
* * * *
53355046 ATATCGAGGGTAAAACGGTAATTTTACAAATAGAGGGTGAAACGGTAATTCTATAAATCGAGGCT
1 A-ATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
*
53355111 AAATGGTAATT
65 AAAAGGTAATT
53355122 CTACAAATCG
Statistics
Matches: 199, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 122 0.61
80 20 0.10
81 56 0.28
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (78 bp):
AATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAAGGTAATTTGT
Found at i:53355147 original size:106 final size:104
Alignment explanation
Indices: 53354824--53355188 Score: 328
Period size: 106 Copynumber: 3.5 Consensus size: 104
53354814 GGGTAAAACG
* * * *
53354824 GTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGT-AACTAGTAATT-TGTA
1 GTAATT-TGTAAATCGAGGGTAAAACGGTAATTTTATAAA-TGAGGGTAAAC-GGTAATTCTGTA
* * * * *
53354887 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
63 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG-ATAACA
* ** * * *
53354930 GCAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTA
1 GTAATT-TGTAAATCGAGGGTAAAACGGTAATTTTATAAA-TGAGGGT-AAACGGTAATTCTGTA
* * *
53354995 AATCGAGGGTAAAATAGTAATTCTATAAA-CTGAGGG-TAAAA
63 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGGATAACA
* * *
53355036 GGTAATTTGTATATCGAGGGTAAAACGGTAATTTTACAAATAGAGGGTGAAACGGTAATTCTATA
1 -GTAATTTGTAAATCGAGGGTAAAACGGTAATTTTATAAAT-GAGGGT-AAACGGTAATTCTGTA
* **
53355101 AATCGAGGCT-AAATGGTAATTCTACAAATCGAGGGCATTTCA
63 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG-ATAACA
* ***
53355143 GTAATTTGTAAATCGACGGTATTTCGGTAATTTTATAAATG-GGGTA
1 GTAATTTGTAAATCGAGGGTAAAACGGTAATTTTATAAATGAGGGTA
53355189 CTTTGGTAAT
Statistics
Matches: 212, Mismatches: 38, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
103 1 0.00
104 4 0.02
105 23 0.11
106 135 0.64
107 13 0.06
108 36 0.17
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (104 bp):
GTAATTTGTAAATCGAGGGTAAAACGGTAATTTTATAAATGAGGGTAAACGGTAATTCTGTAAAT
CGAGGGTAAAATGGTAATTCTACAAATCGAGGGATAACA
Found at i:53355155 original size:26 final size:26
Alignment explanation
Indices: 53355126--53355175 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
53355116 GTAATTCTAC
*
53355126 AAATCGAGGGCATTTCAGTAATTTGT
1 AAATCGACGGCATTTCAGTAATTTGT
* *
53355152 AAATCGACGGTATTTCGGTAATTT
1 AAATCGACGGCATTTCAGTAATTT
53355176 TATAAATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (26 bp):
AAATCGACGGCATTTCAGTAATTTGT
Found at i:53355196 original size:25 final size:25
Alignment explanation
Indices: 53355160--53355224 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
53355150 GTAAATCGAC
*
53355160 GGTATTTCGGTAATTTTATAAAT-GG
1 GGTATTT-GGTAATTTTACAAATGGG
*
53355185 GGTACTTTGGTAATTTTACAACTGGG
1 GGTA-TTTGGTAATTTTACAAATGGG
*
53355211 GGTATTTAGTAATT
1 GGTATTTGGTAATT
53355225 GGTAAACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 26 0.74
26 9 0.26
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (25 bp):
GGTATTTGGTAATTTTACAAATGGG
Found at i:53357178 original size:6 final size:6
Alignment explanation
Indices: 53357167--53357310 Score: 136
Period size: 6 Copynumber: 23.8 Consensus size: 6
53357157 AACCAAAATG
* *
53357167 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
53357215 AGTAA-C AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
53357264 AGTAA-C AGAATC AGAATC AGAATT AGTATT AGTAA-C AGAATC AGAAT
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAAT
53357311 GTGAATGCAA
Statistics
Matches: 115, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.08
6 97 0.84
7 8 0.07
8 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:53357182 original size:30 final size:29
Alignment explanation
Indices: 53357146--53357310 Score: 150
Period size: 30 Copynumber: 5.9 Consensus size: 29
53357136 AAGAAACATT
* * *
53357146 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
53357176 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
53357206 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* *
53357236 ATTAG----GTGACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
53357261 ATC---A--GTAACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
* *
53357285 ATTAGTATTAGTAACAGAATCAGAAT
1 ATCAGAATT-GTAACAGAATCAGAAT
53357311 GTGAATGCAA
Statistics
Matches: 115, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
24 21 0.18
25 21 0.18
27 1 0.01
30 69 0.60
31 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:53357194 original size:24 final size:24
Alignment explanation
Indices: 53357167--53357310 Score: 164
Period size: 24 Copynumber: 5.7 Consensus size: 24
53357157 AACCAAAATG
53357167 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
53357191 AGAATCAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATC------AGTAAC
* *
53357221 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCA-GTAAC
53357246 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* **
53357270 AGAATCAGAATCAGAATTAGTATT
1 AGAATCAGAATCAGAATCAGTAAC
53357294 AGTAA-CAGAATCAGAAT
1 AG-AATCAGAATCAGAAT
53357311 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
24 58 0.55
25 24 0.23
30 23 0.22
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:53357268 original size:49 final size:49
Alignment explanation
Indices: 53357196--53357289 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
53357186 GTAACAGAAT
* *
53357196 CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGGTGA
53357245 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAG
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAG
53357290 TATTAGTAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (49 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGGTGA
Found at i:53357475 original size:27 final size:25
Alignment explanation
Indices: 53357428--53357500 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
53357418 AGCATGGCTG
* *
53357428 CCAGAACAGATATGTGACAGAGTCA
1 CCAGAACAGATATGTGGCAGAGCCA
53357453 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATA-TGTGGCAGAGCCA
53357480 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGAT-ATGTGGCA
53357501 AACCCACTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.12
26 8 0.19
27 28 0.67
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
CCAGAACAGATATGTGGCAGAGCCA
Found at i:53357507 original size:27 final size:27
Alignment explanation
Indices: 53357451--53357507 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
53357441 GTGACAGAGT
* * *
53357451 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
53357478 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
53357505 CAC
1 CAC
53357508 TAACAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:53357712 original size:22 final size:22
Alignment explanation
Indices: 53357664--53357722 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53357654 GTAAATACGT
*
53357664 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
53357686 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
53357708 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
53357723 TAATAACAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:53357887 original size:27 final size:26
Alignment explanation
Indices: 53357809--53357890 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
53357799 TCGATCGGTC
* *
53357809 AACAGATATTGT-GCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
53357834 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
53357861 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
53357888 AAC
1 AAC
53357891 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 18 0.35
27 32 0.63
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:53358118 original size:27 final size:27
Alignment explanation
Indices: 53358088--53358283 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
53358078 GGGGCAAAAT
* * *
53358088 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53358115 GGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
53358142 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53358169 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53358196 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
53358223 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53358250 GGAAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
53358277 AGTAATT
1 GGTAATT
53358284 TCACAATCAA
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 137 0.96
28 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53358154 original size:54 final size:54
Alignment explanation
Indices: 53358088--53358276 Score: 254
Period size: 54 Copynumber: 3.5 Consensus size: 54
53358078 GGGGCAAAAT
* * * * *
53358088 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
53358142 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
53358196 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
*
53358250 GGAAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
53358277 AGTAATTTCA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.02
54 116 0.98
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:53358324 original size:27 final size:27
Alignment explanation
Indices: 53358288--53358607 Score: 367
Period size: 27 Copynumber: 11.9 Consensus size: 27
53358278 GTAATTTCAC
*
53358288 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
53358315 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
53358342 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
53358369 AATCAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
53358396 AATCGAGGGTAAAACGATAA-TCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*** *
53358422 AATCGAGGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
53358449 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
53358476 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
53358503 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
53358530 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
53358557 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
53358584 AATCGAGGCTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
53358608 ACAAATTGAG
Statistics
Matches: 250, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.09
27 226 0.90
28 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:53358658 original size:26 final size:26
Alignment explanation
Indices: 53358621--53358691 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
53358611 AATTGAGGGC
53358621 ATTTCAGG-AATTTTACAATCGACGGT
1 ATTTC-GGTAATTTTACAATCGACGGT
* **
53358647 ATTTCGGTAATTTTATAAATCGGGGGT
1 ATTTCGGTAATTTTA-CAATCGACGGT
53358674 ACTTT-GGTAATTTTACAA
1 A-TTTCGGTAATTTTACAA
53358692 CTGGGGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 2 0.05
26 14 0.37
27 19 0.50
28 3 0.08
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTCGGTAATTTTACAATCGACGGT
Found at i:53358709 original size:26 final size:27
Alignment explanation
Indices: 53358598--53358712 Score: 92
Period size: 26 Copynumber: 4.3 Consensus size: 27
53358588 GAGGCTAAAA
* * * *
53358598 TGGTAATTCTACAAATTGAGGGCATTT
1 TGGTAATTTTACAAATCGGGGGTATTT
* **
53358625 CAGG-AATTTTAC-AATCGACGGTATTT
1 -TGGTAATTTTACAAATCGGGGGTATTT
* * *
53358651 CGGTAATTTTATAAATCGGGGGTACTT
1 TGGTAATTTTACAAATCGGGGGTATTT
*
53358678 TGGTAATTTTACAACT-GGGGGTATTT
1 TGGTAATTTTACAAATCGGGGGTATTT
*
53358704 TAGTAATTT
1 TGGTAATTT
53358713 GGTAAACTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.03
26 35 0.50
27 31 0.44
28 2 0.03
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAAATCGGGGGTATTT
Found at i:53358907 original size:18 final size:18
Alignment explanation
Indices: 53358884--53358919 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53358874 AACTTATCCA
53358884 ATTGGGCCCACATGGCCC
1 ATTGGGCCCACATGGCCC
53358902 ATTGGGCCCACATGGCCC
1 ATTGGGCCCACATGGCCC
53358920 CTTTCGGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.39, G:0.28, T:0.17
Consensus pattern (18 bp):
ATTGGGCCCACATGGCCC
Found at i:53359677 original size:19 final size:18
Alignment explanation
Indices: 53359649--53359688 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
53359639 AAACCTTCAA
53359649 TTTTCCCTTTTCATCTTTC
1 TTTTCCCTTTT-ATCTTTC
* *
53359668 TTTTCTCTTTTTTCTTTC
1 TTTTCCCTTTTATCTTTC
53359686 TTT
1 TTT
53359689 CTTTCCCCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCCCTTTTATCTTTC
Found at i:53363366 original size:2 final size:2
Alignment explanation
Indices: 53363359--53363393 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53363349 AAACAAGAAA
53363359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
53363394 ACTCTCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53367769 original size:96 final size:96
Alignment explanation
Indices: 53367660--53367991 Score: 646
Period size: 96 Copynumber: 3.5 Consensus size: 96
53367650 TGTGAAAGAG
53367660 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
53367725 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCGATGTGATGAATGTGAAGGTGTA
53367756 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
53367821 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCGATGTGATGAATGTGAAGGTGTA
53367852 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
53367917 TAATGGCCGATGTGATGAATGTGAAGGTATA
66 TAATGGCCGATGTGATGAATGTGAAGGTGTA
*
53367948 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
53367992 CATATGTGTG
Statistics
Matches: 234, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 234 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAGGTGTA
Found at i:53367779 original size:49 final size:47
Alignment explanation
Indices: 53367650--53367991 Score: 549
Period size: 47 Copynumber: 7.1 Consensus size: 47
53367640 TATTAAAATT
*
53367650 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
53367697 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
53367744 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
53367793 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
53367840 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
53367889 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
53367936 TGTGAAGGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAG-A-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
53367985 TGTGAAA
1 TGTGAAA
53367992 CATATGTGTG
Statistics
Matches: 273, Mismatches: 16, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
47 141 0.52
48 1 0.00
49 131 0.48
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:53368039 original size:48 final size:48
Alignment explanation
Indices: 53367983--53368182 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
53367973 CGATGTGATG
*
53367983 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
53368031 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53368079 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
53368127 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53368175 AATGTGAA
1 AATGTGAA
53368183 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:53368276 original size:37 final size:37
Alignment explanation
Indices: 53368222--53368312 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
53368212 AACTTGGAAA
*
53368222 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
53368260 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
53368297 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
53368313 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:53371588 original size:10 final size:10
Alignment explanation
Indices: 53371568--53371596 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
53371558 TTCCTTTCAT
53371568 CTTTT-CTTC
1 CTTTTCCTTC
53371577 CTTTTCCTTC
1 CTTTTCCTTC
53371587 CTTTTCCTTC
1 CTTTTCCTTC
53371597 TTCCAAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
CTTTTCCTTC
Found at i:53374119 original size:29 final size:29
Alignment explanation
Indices: 53374084--53374184 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
53374074 ATCAGCCGCA
*
53374084 CACACTTAGTGCCATATACTTT-AAACTCG
1 CACACTTAGTGCCATACA-TTTCAAACTCG
* *
53374113 CACACTTAGTGCCATGCATTTCAAGCTCG
1 CACACTTAGTGCCATACATTTCAAACTCG
* * *
53374142 CACACTTAGTGCCATGCATTCCAAGCTCG
1 CACACTTAGTGCCATACATTTCAAACTCG
*
53374171 CACACTCAGTGCCA
1 CACACTTAGTGCCA
53374185 ATCTCTCAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 3 0.05
29 63 0.95
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACATTTCAAACTCG
Found at i:53376863 original size:93 final size:93
Alignment explanation
Indices: 53376751--53376923 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
53376741 CGCCCATAAG
* *
53376751 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53376816 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
53376844 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53376909 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
53376924 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53376919 original size:46 final size:46
Alignment explanation
Indices: 53376744--53376919 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53376734 TGTAACCCGC
* * *
53376744 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
53376790 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
53376840 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53376883 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53376920 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53378832 original size:20 final size:20
Alignment explanation
Indices: 53378807--53378850 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
53378797 GTTTTGATAT
53378807 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
53378827 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53378847 ACAT
1 ACAT
53378851 TATGTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53378969 original size:26 final size:26
Alignment explanation
Indices: 53378903--53378975 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
53378893 GAGGAAGTGC
* *
53378903 AAAAGGGCTTACGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTACCG
*
53378929 AAAAGGGCTTATGCCTTAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTACCG
*
53378955 AAAAGGGCTTTTGCCCTAGTT
1 AAAAGGGCTTATGCCCTAGTT
53378976 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTACCG
Found at i:53380577 original size:46 final size:46
Alignment explanation
Indices: 53380527--53380702 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
53380517 TGGTTGAGCA
* *
53380527 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53380573 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
53380620 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * ** * *
53380666 CCCGAGCTTATTGAGTTAAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53380703 GTGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53380688 original size:93 final size:93
Alignment explanation
Indices: 53380524--53380695 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
53380514 GGATGGTTGA
* * * * *
53380524 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
*
53380589 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
53380617 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTTATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
53380682 TAAGTCCGAGTTCG
66 TAAGTCCGAGTTCG
53380696 CTTATGGGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53383619 original size:15 final size:15
Alignment explanation
Indices: 53383599--53383653 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
53383589 GTATCTTGGG
53383599 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53383614 TTTCTTTATT-TGGA
1 TTTCTTTATTCTGGA
*
53383628 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53383643 TTTCTTTATTC
1 TTTCTTTATTC
53383654 GTTTCTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 1 0.03
14 11 0.31
15 21 0.60
16 2 0.06
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53384684 original size:46 final size:46
Alignment explanation
Indices: 53384628--53384828 Score: 257
Period size: 46 Copynumber: 4.4 Consensus size: 46
53384618 TGGTTGAGCA
*
53384628 TCCGAGTTCACTTATGGATGTAAAAGTCCGAACTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGCAAAAGTCCGAACTCGTTGAGTTGAG
*
53384674 TCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGCAAAAGTCCGAACTCGTTGAGTTGAG
* * * *
53384720 TCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAACTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGCAA--AAG--TCCGAACTCGTTGAGTTGAG
* * *
53384767 TCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGCAAAAGTCCGAACTCGTTGAGTTGAG
53384812 TCCGAGTTCACTTATGG
1 TCCGAGTTCACTTATGG
53384829 GCGGGTTACA
Statistics
Matches: 136, Mismatches: 12, Indels: 15
0.83 0.07 0.09
Matches are distributed among these distances:
43 6 0.04
45 39 0.29
46 53 0.39
47 29 0.21
48 4 0.03
50 5 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAGTTCACTTATGGATGCAAAAGTCCGAACTCGTTGAGTTGAG
Found at i:53387749 original size:15 final size:15
Alignment explanation
Indices: 53387729--53387792 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
53387719 GTATCTTGGG
53387729 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53387744 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53387759 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53387774 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
53387787 TTTCTT
1 TTTCTT
53387793 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53390218 original size:46 final size:46
Alignment explanation
Indices: 53390168--53390343 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
53390158 ATGGTTGGCA
53390168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53390214 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53390259 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53390307 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53390344 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53390323 original size:93 final size:93
Alignment explanation
Indices: 53390164--53390335 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53390154 TAGGATGGTT
* *
53390164 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53390229 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53390257 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53390322 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53390336 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53393277 original size:15 final size:15
Alignment explanation
Indices: 53393257--53393320 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
53393247 GTATCTTGGG
53393257 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53393272 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53393287 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53393302 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
53393315 TTTCTT
1 TTTCTT
53393321 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53395797 original size:47 final size:45
Alignment explanation
Indices: 53395680--53395803 Score: 146
Period size: 45 Copynumber: 2.7 Consensus size: 45
53395670 GGATGGTTGA
* *
53395680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-CTGA-GGATGCAAAG
*
53395727 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-TGAGGATGCAA--AG
*
53395772 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
53395804 ACTCATGGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
43 6 0.09
44 1 0.01
45 32 0.47
47 29 0.43
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGGATGCAAAG
Found at i:53395848 original size:93 final size:92
Alignment explanation
Indices: 53395680--53395850 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 92
53395670 GGATGGTTGA
* * *
53395680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTACTCATGGATGCAAACGTCCGAACTCGTTGAGTT
53395745 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
53395772 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTT-ACTCATGGATGCAAACGTC-CGAACTCGTTGAG
**
53395836 TTGAGTTTGAGTTCG
64 TTGAGTCCGAGTTCG
53395851 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
92 31 0.44
93 39 0.56
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTACTCATGGATGCAAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53403887 original size:20 final size:20
Alignment explanation
Indices: 53403862--53403945 Score: 143
Period size: 20 Copynumber: 4.2 Consensus size: 20
53403852 ATTTTGATAT
53403862 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
53403882 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
53403902 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
53403922 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53403942 ACAT
1 ACAT
53403946 TATGTATTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53403889 original size:11 final size:11
Alignment explanation
Indices: 53403873--53403945 Score: 77
Period size: 11 Copynumber: 7.2 Consensus size: 11
53403863 CATGATTGAT
53403873 ATGATATGCAC
1 ATGATATGCAC
*
53403884 ATGATATG--T
1 ATGATATGCAC
53403893 ATGATATGCAC
1 ATGATATGCAC
*
53403904 ATGATATGTAC
1 ATGATATGCAC
53403915 --GATATGCAC
1 ATGATATGCAC
*
53403924 ATGATATG--T
1 ATGATATGCAC
53403933 ATGATATGCAC
1 ATGATATGCAC
53403944 AT
1 AT
53403946 TATGTATTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
9 24 0.48
11 26 0.52
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:53403896 original size:9 final size:9
Alignment explanation
Indices: 53403884--53403940 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
53403874 TGATATGCAC
53403884 ATGATATGT
1 ATGATATGT
*
53403893 ATGATATGCAC
1 ATGATATG--T
53403904 ATGATATGT
1 ATGATATGT
* *
53403913 ACGATATGCAC
1 ATGATATG--T
53403924 ATGATATGT
1 ATGATATGT
53403933 ATGATATG
1 ATGATATG
53403941 CACATTATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:53404027 original size:26 final size:26
Alignment explanation
Indices: 53403998--53404070 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
53403988 GAGGAAGTGC
53403998 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
53404024 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
53404050 AAAAGGGCTTTTACCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
53404071 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:53408084 original size:337 final size:337
Alignment explanation
Indices: 53407469--53408143 Score: 1323
Period size: 337 Copynumber: 2.0 Consensus size: 337
53407459 TGGATCTTGT
53407469 ATCAGGTCTAGCTAAGAGTTGTTGGGATTTTGTAGCAACAAAAATAGAGATCTGGGTAAAGAGCA
1 ATCAGGTCTAGCTAAGAGTTGTTGGGATTTTGTAGCAACAAAAATAGAGATCTGGGTAAAGAGCA
53407534 AAGTAGCAAGATGTATGAAAGATTGCTTGTACACTAAAACAAGCTAACTAAAGAAATCATCATAG
66 AAGTAGCAAGATGTATGAAAGATTGCTTGTACACTAAAACAAGCTAACTAAAGAAATCATCATAG
53407599 CAACATGGTTGGCCATCCTTCAACAAGACTCAATTGAATTGATTTGTCCCCTACCCATAACTAGT
131 CAACATGGTTGGCCATCCTTCAACAAGACTCAATTGAATTGATTTGTCCCCTACCCATAACTAGT
*
53407664 AAATAGTAAGGTAAACCTTCACCAGATTTTCTGCAACACCCCTAACCCGTATCCGACACTGGAAT
196 AAATAGTAAGGTAAACCCTCACCAGATTTTCTGCAACACCCCTAACCCGTATCCGACACTGGAAT
53407729 AGGGTTACGAGGCATTATCGGAAACCACACCTCATTAACATACATTTATACCTTCCTAATCAATA
261 AGGGTTACGAGGCATTATCGGAAACCACACCTCATTAACATACATTTATACCTTCCTAATCAATA
53407794 TGCATTCAAAAC
326 TGCATTCAAAAC
53407806 ATCAGGTCTAGCTAAGAGTTGTTGGGATTTTGTAGCAACAAAAATAGAGATCTGGGTAAAGAGCA
1 ATCAGGTCTAGCTAAGAGTTGTTGGGATTTTGTAGCAACAAAAATAGAGATCTGGGTAAAGAGCA
53407871 AAGTAGCAAGATGTATGAAAGATTGCTTGTACACTAAAACAAGCTAACTAAAGAAATCATCATAG
66 AAGTAGCAAGATGTATGAAAGATTGCTTGTACACTAAAACAAGCTAACTAAAGAAATCATCATAG
*
53407936 CAACATGGTTGGCCATCCTTCAACAAGACTCAATTGAATTGATTTGTCCCCTACCCATGACTAGT
131 CAACATGGTTGGCCATCCTTCAACAAGACTCAATTGAATTGATTTGTCCCCTACCCATAACTAGT
*
53408001 AAATAGTAAGGTAAACCCTCACCAGATTTTCTGTAACACCCCTAACCCGTATCCGACACTGGAAT
196 AAATAGTAAGGTAAACCCTCACCAGATTTTCTGCAACACCCCTAACCCGTATCCGACACTGGAAT
53408066 AGGGTTACGAGGCATTATCGGAAACCACACCTCATTAACATACATTTATACCTTCCTAATCAATA
261 AGGGTTACGAGGCATTATCGGAAACCACACCTCATTAACATACATTTATACCTTCCTAATCAATA
53408131 TGCATTCAAAAC
326 TGCATTCAAAAC
53408143 A
1 A
53408144 ATCATAAATG
Statistics
Matches: 335, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
337 335 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (337 bp):
ATCAGGTCTAGCTAAGAGTTGTTGGGATTTTGTAGCAACAAAAATAGAGATCTGGGTAAAGAGCA
AAGTAGCAAGATGTATGAAAGATTGCTTGTACACTAAAACAAGCTAACTAAAGAAATCATCATAG
CAACATGGTTGGCCATCCTTCAACAAGACTCAATTGAATTGATTTGTCCCCTACCCATAACTAGT
AAATAGTAAGGTAAACCCTCACCAGATTTTCTGCAACACCCCTAACCCGTATCCGACACTGGAAT
AGGGTTACGAGGCATTATCGGAAACCACACCTCATTAACATACATTTATACCTTCCTAATCAATA
TGCATTCAAAAC
Found at i:53418834 original size:49 final size:48
Alignment explanation
Indices: 53418781--53419003 Score: 308
Period size: 47 Copynumber: 4.7 Consensus size: 48
53418771 GATTCTACGC
* * * *
53418781 GATGAATGTGAATGTGTATAAATATGAGATAAGGCTTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT-AATATGTGATAAGGCCTAATGGCCAATGT
*
53418830 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCAATGT
*
53418879 GATGAATGTGAAAGTGTAT-ATGTGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCAATGT
* * * *
53418926 GATGAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCAATGT
*
53418973 GATGGATGTGAAAGTGTATAA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAATATGTGATAAG
53419004 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 95 0.59
48 2 0.01
49 63 0.39
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (48 bp):
GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCAATGT
Found at i:53424608 original size:40 final size:40
Alignment explanation
Indices: 53424543--53424790 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
53424533 TCTTCGGAAT
* ** *
53424543 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
53424582 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
53424622 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
53424662 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
53424702 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
53424742 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
53424782 TTAGCCCGG
1 TTAGCCCGG
53424791 GTATCATTCA
Statistics
Matches: 192, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 3 0.02
40 188 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:53428010 original size:40 final size:40
Alignment explanation
Indices: 53427883--53428012 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
53427873 ATGCTGGAAA
* * *
53427883 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
53427923 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
53427963 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
53428003 TTATATCCGG
1 TTATATCCGG
53428013 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:53435907 original size:40 final size:40
Alignment explanation
Indices: 53435822--53435972 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
53435812 AATTGAATGA
* * *
53435822 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
53435862 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
53435903 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
53435942 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
53435973 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:53435986 original size:40 final size:40
Alignment explanation
Indices: 53435859--53435988 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
53435849 ATGCTGGAAA
* * * *
53435859 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
53435899 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
53435939 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
53435979 TTATATCCGG
1 TTATATCCGG
53435989 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:53438978 original size:49 final size:49
Alignment explanation
Indices: 53438925--53439022 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
53438915 ATAATTAGTT
53438925 AAAGTGTAAACTTTGCATGTGTATTAAAGGTTTTTATGTGATATTCGGC
1 AAAGTGTAAACTTTGCATGTGTATTAAAGGTTTTTATGTGATATTCGGC
53438974 AAAGTGTAAACTTTGCATGTGTATTAAAGGTTTTTATGTGATATTCGGC
1 AAAGTGTAAACTTTGCATGTGTATTAAAGGTTTTTATGTGATATTCGGC
53439023 CTTGGGAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (49 bp):
AAAGTGTAAACTTTGCATGTGTATTAAAGGTTTTTATGTGATATTCGGC
Found at i:53439561 original size:42 final size:42
Alignment explanation
Indices: 53439510--53439594 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
53439500 AAGTAAGCAC
53439510 AATGGGATTTTAATAAGTTAAATTTGTTTTAGATTAAGCTCA
1 AATGGGATTTTAATAAGTTAAATTTGTTTTAGATTAAGCTCA
53439552 AATGGGATTTTAATAAGTTAAATTTGTTTTAGATTAAGCTCA
1 AATGGGATTTTAATAAGTTAAATTTGTTTTAGATTAAGCTCA
53439594 A
1 A
53439595 GAGCTTAAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (42 bp):
AATGGGATTTTAATAAGTTAAATTTGTTTTAGATTAAGCTCA
Found at i:53439945 original size:47 final size:47
Alignment explanation
Indices: 53439876--53440031 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 47
53439866 AGCTTAAGAT
53439876 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
53439923 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGAGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
53439970 CGAATGGTTAATGTGAT-ATATGTGTAA-T-TGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
53440015 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
53440032 AAAGTGTGCA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 20 0.22
46 7 0.08
47 65 0.71
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:53440156 original size:39 final size:40
Alignment explanation
Indices: 53440102--53440186 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
53440092 AAATGAATTG
* * * *
53440102 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
53440141 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
53440181 TGCTGG
1 TGCTGG
53440187 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:53440847 original size:2 final size:2
Alignment explanation
Indices: 53440835--53440871 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
53440825 GAATTAAGTT
*
53440835 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53440872 TCATGTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:53442646 original size:27 final size:28
Alignment explanation
Indices: 53442616--53442685 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
53442606 ATAGTGAATC
*
53442616 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
53442643 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
53442671 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53442686 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:53448134 original size:33 final size:33
Alignment explanation
Indices: 53448079--53448152 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
53448069 AAGTTATCGT
*
53448079 ATAAGACCATAGCCGAGCTATGGCA-ATCGAATA
1 ATAAGACCATAACCGAGCTATGGCATA-CGAATA
* * * *
53448112 ATAAGACCATAATCGGGTTATGGCATACGAATG
1 ATAAGACCATAACCGAGCTATGGCATACGAATA
53448145 A-AAGACCA
1 ATAAGACCA
53448153 CGGCAAGGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 7 0.20
33 27 0.77
34 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (33 bp):
ATAAGACCATAACCGAGCTATGGCATACGAATA
Found at i:53453166 original size:58 final size:58
Alignment explanation
Indices: 53453048--53453177 Score: 190
Period size: 58 Copynumber: 2.2 Consensus size: 58
53453038 GTGATGAGAT
* *
53453048 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
***
53453106 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAAATA
*
53453164 TGGCACTGTGTGTG
1 TGGCACTGAGTGTG
53453178 TGGGCTTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 64 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (58 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
Found at i:53453170 original size:29 final size:29
Alignment explanation
Indices: 53453048--53453149 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
53453038 GTGATGAGAT
53453048 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53453077 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53453106 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53453135 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53453150 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53459860 original size:58 final size:59
Alignment explanation
Indices: 53459738--53459903 Score: 196
Period size: 58 Copynumber: 2.9 Consensus size: 59
53459728 TGCGGTGACG
* *
53459738 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
*
53459795 ATATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
* * * ** * **
53459853 GGGTATGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 AGATATGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
53459904 AATCGAGTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
57 7 0.07
58 86 0.91
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (59 bp):
AGATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:53459864 original size:29 final size:29
Alignment explanation
Indices: 53459742--53459843 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
53459732 GTGACGAGAT
53459742 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53459771 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53459800 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53459829 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53459844 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53461367 original size:40 final size:40
Alignment explanation
Indices: 53461283--53461467 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
53461273 TCGAATGATG
* *
53461283 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
53461322 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
53461363 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
53461402 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
53461441 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53461468 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:53461419 original size:79 final size:81
Alignment explanation
Indices: 53461283--53461465 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
53461273 TCGAATGATG
* *
53461283 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
53461347 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
53461362 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
53461424 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
53461442 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53461466 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:53461489 original size:79 final size:78
Alignment explanation
Indices: 53461284--53461500 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
53461274 CGAATGATGT
* *
53461284 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
53461347 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
53461364 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
53461427 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
53461443 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
53461501 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:53469385 original size:40 final size:40
Alignment explanation
Indices: 53469301--53469485 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
53469291 TCGAATGATG
* *
53469301 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
53469340 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
53469381 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
53469420 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
53469459 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53469486 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:53469437 original size:79 final size:81
Alignment explanation
Indices: 53469301--53469483 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
53469291 TCGAATGATG
* *
53469301 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
53469365 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
53469380 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
53469442 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
53469460 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53469484 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:53469507 original size:79 final size:78
Alignment explanation
Indices: 53469302--53469518 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
53469292 CGAATGATGT
* *
53469302 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
53469365 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
53469382 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
53469445 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
53469461 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
53469519 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:53471288 original size:16 final size:16
Alignment explanation
Indices: 53471267--53471302 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
53471257 AGGTGAAATC
* *
53471267 AATAAACTGTTATAAA
1 AATAAAATGTTAAAAA
53471283 AATAAAATGTTAAAAA
1 AATAAAATGTTAAAAA
53471299 AATA
1 AATA
53471303 TTGTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGTTAAAAA
Found at i:53476048 original size:5 final size:5
Alignment explanation
Indices: 53476038--53476064 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
53476028 CAATTTGTGG
53476038 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
53476065 GAACACAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:53478854 original size:47 final size:47
Alignment explanation
Indices: 53478734--53478921 Score: 324
Period size: 46 Copynumber: 4.0 Consensus size: 47
53478724 ATGTATGAGA
*
53478734 TGTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
53478781 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 TG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
*
53478830 AGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
*
53478876 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
53478922 CATATGTGTG
Statistics
Matches: 135, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
46 45 0.33
47 45 0.33
49 45 0.33
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
Found at i:53478964 original size:93 final size:92
Alignment explanation
Indices: 53478771--53479060 Score: 242
Period size: 93 Copynumber: 3.1 Consensus size: 92
53478761 CAATGTGATG
* * *
53478771 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGAGTAT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATAGTGT
* * * *
53478835 -ATATGTGATAAG-GCCTAATGGCC-ATGTGAT
64 GATATGT-ATATGTG-GTAA-AGCCGATG-GCT
53478865 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACATATGTG
1 -AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-ATA-GTG
53478930 TGATATGTATATGTGGTAAAGCCGATGGCT
63 TGATATGTATATGTGGTAAAGCCGATGGCT
* * * * * *
53478960 -ATGTGAAATATATGTGTGATATGT-ATATGTG-GTAA-AGCCGAATG-GCT-AATGTGAAAATA
1 AATGTG-AA-A-GTGTAT-ATATGTGATAAG-GCCTAATGGCCG-ATGTGATGAATGTGAAAATA
53479019 -TGTGATATGTATATGTGGTAAAGCCGAATGGCT
60 GTGTGATATGTATATGTGGTAAAGCCG-ATGGCT
53479052 AATGTGAAA
1 AATGTGAAA
53479061 TATATGTGTG
Statistics
Matches: 168, Mismatches: 13, Indels: 32
0.79 0.06 0.15
Matches are distributed among these distances:
91 27 0.16
92 8 0.05
93 53 0.32
94 13 0.08
95 26 0.15
96 27 0.16
97 14 0.08
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (92 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATAGTGTGA
TATGTATATGTGGTAAAGCCGATGGCT
Found at i:53479072 original size:93 final size:93
Alignment explanation
Indices: 53478913--53479107 Score: 340
Period size: 93 Copynumber: 2.1 Consensus size: 93
53478903 CGATGTGATG
53478913 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGATGGCTATGTGAAATATATGTGTG
1 AATGTGAAACATA-GTGTGATATGTATATGTGGTAAAGCCGATGGCTATGTGAAATATATGTGTG
53478978 ATATGTATATGTGGTAAAGCCGAATGGCT
65 ATATGTATATGTGGTAAAGCCGAATGGCT
53479007 AATGTGAAA-ATA-TGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 AATGTGAAACATAGTGTGATATGTATATGTGGTAAAGCCG-ATGGCT-ATGTGAAATATATGTGT
*
53479070 GATATGTATGTGTGGTAAAGCCGAATGGCT
64 GATATGTATATGTGGTAAAGCCGAATGGCT
53479100 AATGTGAA
1 AATGTGAA
53479108 TGTTGTAACA
Statistics
Matches: 98, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
91 26 0.27
92 6 0.06
93 57 0.58
94 9 0.09
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (93 bp):
AATGTGAAACATAGTGTGATATGTATATGTGGTAAAGCCGATGGCTATGTGAAATATATGTGTGA
TATGTATATGTGGTAAAGCCGAATGGCT
Found at i:53479090 original size:48 final size:48
Alignment explanation
Indices: 53478913--53479107 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
53478903 CGATGTGATG
*
53478913 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCG-ATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53478960 -ATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53479007 AATGTGAAA-ATA--TGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
53479052 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53479100 AATGTGAA
1 AATGTGAA
53479108 TGTTGTAACA
Statistics
Matches: 141, Mismatches: 2, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
45 42 0.30
46 42 0.30
47 9 0.06
48 48 0.34
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:53479201 original size:37 final size:37
Alignment explanation
Indices: 53479147--53479237 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
53479137 AACTTGGAAA
*
53479147 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
53479185 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
53479222 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
53479238 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:53481175 original size:40 final size:40
Alignment explanation
Indices: 53481119--53481320 Score: 155
Period size: 40 Copynumber: 5.1 Consensus size: 40
53481109 CATGAGCATT
* *
53481119 TGAATGATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG
*
53481160 TGAATATATCCGGGCTAAGACCCGAAGGCATTTGTG-TGAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG
* * * * * *
53481200 TTG-TTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTG
1 -TGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG
** * ** *
53481240 TGGTTATATCC-GGCTAAAT-CCGAAGAGCA-TTCAGCTAA
1 TGAATATATCCGGGCTAAGTCCCGAAG-GCATTTGTGCTAG
* * *
53481278 TG-ATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAG
1 TGAATATATCCGGGCTAAGTCCCGAAG-GCATTTGTGCTAG
53481318 TGA
1 TGA
53481321 TGTATCCNAG
Statistics
Matches: 131, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
37 7 0.05
38 21 0.16
39 21 0.16
40 74 0.56
41 8 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG
Found at i:53483934 original size:49 final size:49
Alignment explanation
Indices: 53483873--53484110 Score: 408
Period size: 49 Copynumber: 4.9 Consensus size: 49
53483863 GTATGAGATG
* *
53483873 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
53483922 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
53483971 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
53484020 TAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
53484067 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
53484111 CATATGTGTG
Statistics
Matches: 182, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 45 0.25
49 137 0.75
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (49 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:53484052 original size:96 final size:97
Alignment explanation
Indices: 53483873--53484110 Score: 415
Period size: 96 Copynumber: 2.5 Consensus size: 97
53483863 GTATGAGATG
*
53483873 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGG
53483938 CCTAATGGCCAATGTGATGAATGTGAAAGTGTA
65 CCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53483971 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT-ATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGC
* *
53484035 CTAATGGCCGATGTGATGAATGTGAAGGTGTA
66 CTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53484067 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
53484111 CATATGTGTG
Statistics
Matches: 134, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
96 84 0.63
98 50 0.37
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (97 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGC
CTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:53484158 original size:48 final size:48
Alignment explanation
Indices: 53484102--53484300 Score: 364
Period size: 48 Copynumber: 4.2 Consensus size: 48
53484092 CGATGTGATG
*
53484102 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
53484150 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53484198 AATGTGAAA-ATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
53484245 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
53484293 AATGTGAA
1 AATGTGAA
53484301 TGTTGTAACA
Statistics
Matches: 146, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 46 0.32
48 100 0.68
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:53484220 original size:95 final size:96
Alignment explanation
Indices: 53484102--53484300 Score: 373
Period size: 95 Copynumber: 2.1 Consensus size: 96
53484092 CGATGTGATG
53484102 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
53484167 TGATATGTATATGTGGTAAAGCCGAAGGGCT
66 TGATATGTATATGTGGTAAAGCCGAAGGGCT
53484198 AATGTGAAA-ATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
* *
53484262 TGATATGTATGTGTGGTAAAGCCGAATGGCT
66 TGATATGTATATGTGGTAAAGCCGAAGGGCT
53484293 AATGTGAA
1 AATGTGAA
53484301 TGTTGTAACA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 92 0.91
96 9 0.09
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (96 bp):
AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
TGATATGTATATGTGGTAAAGCCGAAGGGCT
Found at i:53484394 original size:37 final size:37
Alignment explanation
Indices: 53484340--53484430 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
53484330 AACTTGGAAA
*
53484340 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
53484378 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
53484415 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
53484431 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:53485943 original size:14 final size:14
Alignment explanation
Indices: 53485924--53485962 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
53485914 AACACTTAAG
53485924 AAAGTGTCGGCCCA
1 AAAGTGTCGGCCCA
53485938 AAAGTGTCGGCCCA
1 AAAGTGTCGGCCCA
53485952 AAAGTGTCGGC
1 AAAGTGTCGGC
53485963 ATAGTGTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.31, T:0.15
Consensus pattern (14 bp):
AAAGTGTCGGCCCA
Found at i:53486195 original size:129 final size:129
Alignment explanation
Indices: 53485985--53486228 Score: 362
Period size: 129 Copynumber: 1.9 Consensus size: 129
53485975 AAAGCTGACT
* * ** *
53485985 CTTATTTAAGTGTTGCCCTAGGTATGCATATCCCAACCCTTATACAAATGGTTGGCCAAAGCGTA
1 CTTATTTAAGCGTTGCCCTAGGCATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCATA
** * *
53486050 TATTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTCGGACAAAGCCAACC
66 TATCAGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTCGGACAAAGCCAACC
* *
53486114 CTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCTTTATACAAAAAGTTGGCCAAAGCATA
1 CTTATTTAAGCGTTGCCCTAGGCATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCATA
* * *
53486179 TGTCAGCAAGTGTATCCCAACATTTAAGAAAGTGTCGCCCCAAAAGTGTC
66 TATCAGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTC
53486229 TGTCCTAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
129 101 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (129 bp):
CTTATTTAAGCGTTGCCCTAGGCATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCATA
TATCAGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTCGGACAAAGCCAACC
Done.