Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 266 of 310
Found at i:87834498 original size:56 final size:56
Alignment explanation
Indices: 87834400--87834508 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
87834390 GAGCATAACT
* * *
87834400 ATAAATGTGATTGGGCCTAATGACCGTATGAATGTGATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTTGGGCCTAATGGGCCAC
* *
87834456 ATAAATGTGATTGGGCTTAATTGGCCATATGAAAGAGA-TTGGGCCTAATGGGC
1 ATAAATGTGATTGGGCCTAA-TGACCATATGAAAGAGATTTGGGCCTAATGGGC
87834509 TATATACAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 34 0.72
57 13 0.28
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.28
Consensus pattern (56 bp):
ATAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTTGGGCCTAATGGGCCAC
Found at i:87837262 original size:68 final size:67
Alignment explanation
Indices: 87837190--87837339 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
87837180 CATCATGTGT
* * * *
87837190 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
87837252 ATGTAG
62 ATGTAG
** * *
87837258 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
87837323 AG
66 AG
87837325 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
87837340 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:87837295 original size:64 final size:64
Alignment explanation
Indices: 87837214--87837397 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
87837204 AGACATTATG
* *
87837214 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
87837278 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
87837343 AA
63 AA
* * * *
87837345 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
87837398 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:87852937 original size:17 final size:18
Alignment explanation
Indices: 87852915--87852950 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
87852905 GTGCATTGTA
87852915 TAAG-TTTAAAAAAATTT
1 TAAGTTTTAAAAAAATTT
*
87852932 TAAGTTTTAGAAAAATTT
1 TAAGTTTTAAAAAAATTT
87852950 T
1 T
87852951 GTATGTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TAAGTTTTAAAAAAATTT
Found at i:87856118 original size:40 final size:40
Alignment explanation
Indices: 87856044--87856215 Score: 163
Period size: 40 Copynumber: 4.3 Consensus size: 40
87856034 GATAACCGGA
* * *
87856044 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATTCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTCGCTATATTCGGG
* * * *
87856084 CTATGTCCCGAAGGCATTTATGCTAG-CGAT-TATATCTGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT-TC-GGG
* *
87856124 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTCGCTATATTCGGG
* * * * *
87856164 CTAAGACCCGAGGGCATTTGTGCGAGTTGTTATA-TCCGG
1 CTAAGACCCGAAGGCATTTATGCGAGTCGCTATATTCGGG
87856203 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
87856216 ATACTTGGGT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.04
39 18 0.16
40 81 0.74
41 4 0.04
42 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTATGCGAGTCGCTATATTCGGG
Found at i:87856197 original size:80 final size:79
Alignment explanation
Indices: 87856039--87856215 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 79
87856029 CGGATGATAA
* * *
87856039 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGACCCGAAGGCATTTA
*
87856104 TGCTAGCGATTATAT
65 TGCGAGCGATTATAT
* * *
87856119 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGACCCGAGGGCATTTG
1 C-CGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGACCCGAAGGCATTTA
*
87856184 TGCGAGTTG-TTATAT
65 TGCGAG-CGATTATAT
87856199 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGA-CCCGAAG
87856216 ATACTTGGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 68 0.80
81 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGACCCGAAGGCATTTAT
GCGAGCGATTATAT
Found at i:87858093 original size:96 final size:96
Alignment explanation
Indices: 87857943--87858131 Score: 324
Period size: 96 Copynumber: 2.0 Consensus size: 96
87857933 ACAGCTTTCA
* * * * *
87857943 ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGGTCGCATATGCTGAACACCTTTTTACT
1 ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
87858008 GGACAGAGCTTAGCGAGAATAAGATTCATGG
66 GGACAGAGCTTAGCGAGAATAAGATTCATGG
*
87858039 ATCGAGTATAAAAATGGCACCGTATGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
1 ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
87858104 GGACAGAGCTTAGCGAGAATAAGATTCA
66 GGACAGAGCTTAGCGAGAATAAGATTCA
87858132 CAGGGTTAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (96 bp):
ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
GGACAGAGCTTAGCGAGAATAAGATTCATGG
Found at i:87859895 original size:43 final size:43
Alignment explanation
Indices: 87859847--87859993 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
87859837 ACTTCTGAGG
* *
87859847 TGTGATTTCATGTAAGACCATGTCTGGGACATG-GGCATCGATA
1 TGTGATTTCATGTAAGACCATGTCTAGGATA-GAGGCATCGATA
* * *
87859890 TGTGATTACGTGTAAGACCATGTCTAGGATAGTGG-ATCG-TA
1 TGTGATTTCATGTAAGACCATGTCTAGGATAGAGGCATCGATA
* *
87859931 TATGA-TT--TGTAAATGACCCTGTCTAGGATAGAGGCATCGATA
1 TGTGATTTCATGT-AA-GACCATGTCTAGGATAGAGGCATCGATA
**
87859973 TGTGATAGCATGTAAGACCAT
1 TGTGATTTCATGTAAGACCAT
87859994 ATCCGGGATA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
38 3 0.04
39 2 0.02
40 19 0.23
41 10 0.12
42 11 0.13
43 34 0.40
44 2 0.02
45 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTTCATGTAAGACCATGTCTAGGATAGAGGCATCGATA
Found at i:87862640 original size:24 final size:24
Alignment explanation
Indices: 87862589--87862930 Score: 479
Period size: 24 Copynumber: 14.0 Consensus size: 24
87862579 GTTTTATCAT
*
87862589 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
87862614 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
87862638 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
87862662 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
87862686 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
87862711 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
87862736 ATAATTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
87862761 ATAACTGGGGCGTAAACCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
87862786 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
87862810 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
87862834 ATAATTGCGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
87862858 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
87862882 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
87862907 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
87862931 CACTTCCTCC
Statistics
Matches: 290, Mismatches: 24, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
24 164 0.57
25 126 0.43
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:87863007 original size:20 final size:20
Alignment explanation
Indices: 87862979--87863039 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
87862969 TTATGAATAC
87862979 ATCAAGTGCATATCATACAT
1 ATCAAGTGCATATCATACAT
* *
87862999 ATCACGTGCATATCATACTT
1 ATCAAGTGCATATCATACAT
* *
87863019 GTCATGTGCATATCATACAT
1 ATCAAGTGCATATCATACAT
87863039 A
1 A
87863040 CCGTGTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCAAGTGCATATCATACAT
Found at i:87863124 original size:25 final size:25
Alignment explanation
Indices: 87863082--87863129 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87863072 ATATTTAAAC
* * *
87863082 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
87863107 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
87863130 CATTTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:87864321 original size:27 final size:27
Alignment explanation
Indices: 87864291--87864355 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
87864281 GGGCGTATTC
87864291 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
87864318 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
87864345 GTCTTTTTACC
1 GTCATTTTACC
87864356 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:87864522 original size:27 final size:27
Alignment explanation
Indices: 87864386--87864595 Score: 140
Period size: 27 Copynumber: 7.7 Consensus size: 27
87864376 TTTCATCCTA
** * * *
87864386 CAAGGGTGCTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
87864413 CAAGGGT-TTTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTT-GGTAATTTTACAAAT
* * *
87864440 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
**
87864469 CAAGGGTATTTAT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
87864496 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
87864523 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
87864550 CAATGGTATTCTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
87864576 CTAAGGGTATTTTGGTAATT
1 C-AAGGGTATTTTGGTAATT
87864596 CTACCCTACA
Statistics
Matches: 143, Mismatches: 33, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
26 5 0.03
27 106 0.74
28 17 0.12
29 15 0.10
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:87864657 original size:27 final size:27
Alignment explanation
Indices: 87864627--87864799 Score: 215
Period size: 27 Copynumber: 6.4 Consensus size: 27
87864617 GTAATTTCAC
* *
87864627 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
*
87864654 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
* *
87864681 AATC-AGGGGTAAAATGGTAATTCTATA
1 AATCGA-GGGTAAAACGATAATTCTATA
* *
87864708 AATCGAGGTTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTCTATA
* * *
87864735 AATTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
87864762 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
*
87864789 AATCAAGGGTA
1 AATCGAGGGTA
87864800 CTTTGGTAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:87864736 original size:81 final size:81
Alignment explanation
Indices: 87864627--87864799 Score: 267
Period size: 81 Copynumber: 2.1 Consensus size: 81
87864617 GTAATTTCAC
*
87864627 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC-AGGGGT
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGA-GGGT
* *
87864691 AAAATGGTAATTCTATA
65 AAAACGATAATTCTATA
* * *
87864708 AATCGAGGTTAAAATAGTAATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
87864773 AAACGATAATTCTATA
66 AAACGATAATTCTATA
*
87864789 AATCAAGGGTA
1 AATCGAGGGTA
87864800 CTTTGGTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:87867656 original size:25 final size:24
Alignment explanation
Indices: 87867579--87867871 Score: 433
Period size: 24 Copynumber: 12.0 Consensus size: 24
87867569 GCTTTATCAT
87867579 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
87867603 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
87867627 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
87867652 ATAACTGGGACATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
87867677 ATAATTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
87867702 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
87867727 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
87867751 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
87867775 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
87867799 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
87867823 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
87867848 ATAACTGGGGCATAAGCACTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
87867872 CACTTCCTCC
Statistics
Matches: 248, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
24 135 0.54
25 113 0.46
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:87867948 original size:20 final size:20
Alignment explanation
Indices: 87867920--87867980 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
87867910 TTATGAATAC
87867920 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
87867940 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
87867960 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87867980 A
1 A
87867981 CCGTGTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87868062 original size:25 final size:25
Alignment explanation
Indices: 87868023--87868070 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
87868013 ATATTTAAAC
* *
87868023 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
87868048 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
87868071 CATTTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:87869295 original size:27 final size:27
Alignment explanation
Indices: 87869218--87869297 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
87869208 TCATACGGAA
87869218 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
87869243 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
87869270 CCTACAGGGACT-TTACGGTCTTTTTAC
1 CATACAGGG-CTATTACGGTCATTTTAC
87869297 C
1 C
87869298 TATTAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 31 0.69
28 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:87869454 original size:27 final size:27
Alignment explanation
Indices: 87869415--87869570 Score: 138
Period size: 27 Copynumber: 5.8 Consensus size: 27
87869405 GAAGGTCAAT
** *
87869415 GGTATTTAT-GTAATTTTGTAAATTAGG
1 GGTATTT-TGGTAATTTTACAAACTAGG
*
87869442 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * * **
87869469 GGTATTTCGGTAATTTCACAAACCAAT
1 GGTATTTTGGTAATTTTACAAACTAGG
87869496 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
* **
87869523 GGTATTTTGGTAATTCTACCCTA-TAGG
1 GGTATTTTGGTAATTTTA-CAAACTAGG
* *
87869550 GGTATTTTAGTAATTTCACAA
1 GGTATTTTGGTAATTTTACAA
87869571 TCGAGGGTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.04
27 97 0.94
28 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:87869553 original size:81 final size:81
Alignment explanation
Indices: 87869411--87869570 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 81
87869401 TTTAGAAGGT
** * * *
87869411 CAATGGTATTTATGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAATGGTATTTATGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTT
*
87869476 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
**
87869492 CAATGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTAT
1 CAATGGTATTTAT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTAT
*
87869555 TTTAGTAATTTCACAA
64 TTCAGTAATTTCACAA
87869571 TCGAGGGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 63 0.93
82 4 0.06
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
CAATGGTATTTATGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTT
CAGTAATTTCACAAAC
Found at i:87869599 original size:27 final size:27
Alignment explanation
Indices: 87869569--87869733 Score: 181
Period size: 27 Copynumber: 6.1 Consensus size: 27
87869559 GTAATTTCAC
87869569 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
87869596 AATCGATGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* **
87869623 AAT-TAGGGGTAAAACAGTAATTCTATA
1 AATCGA-GGGTAAAATGGTAATTCTATA
* * *
87869650 AATGGAGGTTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
87869677 AATCGAGGGTAAAACT-GTAATTTTATA
1 AATCGAGGGTAAAA-TGGTAATTCTATA
* *
87869704 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
87869731 AAT
1 AAT
87869734 TAAGGGTACT
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 111 0.97
28 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:87869679 original size:81 final size:81
Alignment explanation
Indices: 87869573--87869733 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 81
87869563 TTTCACAATC
* * *
87869573 GAGGGTAAAATGGTAATTCTATAAATCGATGGTAAAA-TGATAATTTTGTAAATTAG-GGGTAAA
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTG-TAATTTTATAAA-TAGAGGGTAAA
87869636 AC-AGTAATTCTATAAATG
64 ACGA-TAATTCTATAAATG
* *
87869654 GAGGTTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTTTATAAATCGAGGGTAAAAC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTTTATAAATAGAGGGTAAAAC
87869719 GATAATTCTATAAAT
66 GATAATTCTATAAAT
87869734 TAAGGGTACT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
80 2 0.03
81 67 0.93
82 3 0.04
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (81 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTTTATAAATAGAGGGTAAAAC
GATAATTCTATAAATG
Found at i:87873359 original size:49 final size:49
Alignment explanation
Indices: 87873287--87873431 Score: 200
Period size: 49 Copynumber: 2.9 Consensus size: 49
87873277 AGCCGAAGCT
87873287 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * * * *
87873336 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGCAGTT
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATA
* *
87873387 ATCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
87873432 TCACAATAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 40 0.49
50 2 0.02
51 40 0.49
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:87876918 original size:19 final size:20
Alignment explanation
Indices: 87876891--87876928 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
87876881 AGTATTAAAG
*
87876891 CAAAATAAACATA-AATCCC
1 CAAAATAAAAATAGAATCCC
*
87876910 CAAATTAAAAATAGAATCC
1 CAAAATAAAAATAGAATCC
87876929 AAAGAGGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.21, G:0.03, T:0.18
Consensus pattern (20 bp):
CAAAATAAAAATAGAATCCC
Found at i:87877831 original size:18 final size:18
Alignment explanation
Indices: 87877795--87877832 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
87877785 ATTGCGAGCT
*
87877795 CATGTGGGCCCACATGCC
1 CATGTGGGCCCACAAGCC
87877813 CATGT-GGCCCACAAAGCC
1 CATGTGGGCCCAC-AAGCC
87877831 CA
1 CA
87877833 GAAATGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.13
Consensus pattern (18 bp):
CATGTGGGCCCACAAGCC
Found at i:87881231 original size:26 final size:27
Alignment explanation
Indices: 87881202--87881255 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
87881192 TAGTCTTCCC
87881202 ACCA-AAAAGGGCAAAATAATCATTTT
1 ACCATAAAAGGGCAAAATAATCATTTT
* *
87881228 ACCATATAAGGGTAAAATAATCATTTT
1 ACCATAAAAGGGCAAAATAATCATTTT
87881255 A
1 A
87881256 TCAATTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (27 bp):
ACCATAAAAGGGCAAAATAATCATTTT
Found at i:87882241 original size:21 final size:21
Alignment explanation
Indices: 87882211--87882251 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87882201 GATGGACTCC
87882211 AAAGAAAAG-AGAAAGAAGTAG
1 AAAGAAAAGAAG-AAGAAGTAG
*
87882232 AAAGAGAAGAAGAAGAAGTA
1 AAAGAAAAGAAGAAGAAGTA
87882252 ATGATCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (21 bp):
AAAGAAAAGAAGAAGAAGTAG
Found at i:87882243 original size:15 final size:16
Alignment explanation
Indices: 87882216--87882248 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
87882206 ACTCCAAAGA
*
87882216 AAAGAGAAAGAAGTAG
1 AAAGAGAAAGAAGAAG
87882232 AAAGAG-AAGAAGAAG
1 AAAGAGAAAGAAGAAG
87882247 AA
1 AA
87882249 GTAATGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAGAAGAAG
Found at i:87884600 original size:19 final size:18
Alignment explanation
Indices: 87884562--87884602 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
87884552 TGGGTAGGCC
*
87884562 GTGTGGTCACACACGCCT
1 GTGTGGTCAAACACGCCT
*
87884580 GTGTGGCTCAAACACGTCT
1 GTGTGG-TCAAACACGCCT
87884599 GTGT
1 GTGT
87884603 CCTCAGCCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (18 bp):
GTGTGGTCAAACACGCCT
Found at i:87889728 original size:15 final size:15
Alignment explanation
Indices: 87889683--87889755 Score: 92
Period size: 15 Copynumber: 4.9 Consensus size: 15
87889673 GAGATGACAT
*
87889683 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * * *
87889698 GAAGTCTAGGAGAAA
1 GAAATCCAAGATAAA
87889713 GAAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
87889728 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
87889743 GAAATCCAAGATA
1 GAAATCCAAGATA
87889756 CAATATCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:87891370 original size:206 final size:209
Alignment explanation
Indices: 87891013--87891405 Score: 738
Period size: 206 Copynumber: 1.9 Consensus size: 209
87891003 CCTTAGTTAT
*
87891013 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAG
1 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
87891078 GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
66 GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
**
87891143 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACTCAGATTTTTTGAGATC
131 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTTTTGAGATC
87891208 GTTGATAATTTTGA
196 GTTGATAATTTTGA
87891222 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATAC-A-ATAAAA
1 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
87891285 G-AAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
66 GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
87891349 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTT
131 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTT
87891406 GATAATTTTT
Statistics
Matches: 181, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
206 118 0.65
207 6 0.03
208 1 0.01
209 56 0.31
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (209 bp):
TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTTTTGAGATC
GTTGATAATTTTGA
Found at i:87908791 original size:27 final size:27
Alignment explanation
Indices: 87908754--87908838 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
87908744 GCCAAAATGG
87908754 TGACCGAAATACCCTTATAGGGTAAAA
1 TGACCGAAATACCCTTATAGGGTAAAA
* *
87908781 TGACCGGAATACCCCTATAGGGTAAAA
1 TGACCGAAATACCCTTATAGGGTAAAA
*
87908808 TGACCGAAATACCCTTATAAGGTAAAA
1 TGACCGAAATACCCTTATAGGGTAAAA
87908835 TGAC
1 TGAC
87908839 TGTATTTGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
TGACCGAAATACCCTTATAGGGTAAAA
Found at i:87909278 original size:34 final size:34
Alignment explanation
Indices: 87909211--87909278 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
87909201 TGCATTACTG
* *
87909211 CATTGATACTGTTACTGTAATAGGCTAAGGCCCA
1 CATTGATACTGATACTGTAACAGGCTAAGGCCCA
*
87909245 CATTGATACTGATACTGTAACGGGCTCAA-GCCCA
1 CATTGATACTGATACTGTAACAGGCT-AAGGCCCA
87909279 AACTACATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
CATTGATACTGATACTGTAACAGGCTAAGGCCCA
Found at i:87915011 original size:29 final size:28
Alignment explanation
Indices: 87914968--87915076 Score: 103
Period size: 29 Copynumber: 3.9 Consensus size: 28
87914958 CATGAGTATG
*
87914968 AATGTGACTGGGCCTAATGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
87914996 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * * * * * *
87915025 CAGGTGGTTTGGGTCTAATAGACCAT-TG
1 AATGT-GATTGGGCCTAATGGGCCATATA
* *
87915053 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
87915077 GATACAGGCA
Statistics
Matches: 63, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
27 14 0.22
28 10 0.16
29 38 0.60
30 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:87919855 original size:28 final size:28
Alignment explanation
Indices: 87919813--87919898 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
87919803 TACCTGTATC
*
87919813 TGGCCCATTAAGCCCATTCATATTCATA
1 TGGCCCATTAGGCCCATTCATATTCATA
* * * *
87919841 TGGCCCATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-ATTCATATTCATA
*
87919870 TGGCCCGTTAGGCCCATTCATATTCATA
1 TGGCCCATTAGGCCCATTCATATTCATA
87919898 T
1 T
87919899 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (28 bp):
TGGCCCATTAGGCCCATTCATATTCATA
Found at i:87921401 original size:16 final size:16
Alignment explanation
Indices: 87921380--87921411 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87921370 GAAAAATTCA
*
87921380 AGATTTTGGGATTTTT
1 AGATTTCGGGATTTTT
87921396 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
87921412 TGGGTGTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:87924453 original size:93 final size:93
Alignment explanation
Indices: 87924293--87924463 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
87924283 GCCCATAAGC
* * * *
87924293 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTAAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTAAA
87924358 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
* * *
87924386 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTAAA
87924451 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87924464 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTAAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:87924460 original size:46 final size:46
Alignment explanation
Indices: 87924285--87924460 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
87924275 TGTAACCCGC
* * * *
87924285 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
87924331 CCATGAGTGAACTCGGACTCAACTAAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
87924381 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
87924424 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
87924461 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 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 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87930629 original size:2 final size:2
Alignment explanation
Indices: 87930622--87930654 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
87930612 AAGGCCATTT
*
87930622 AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
87930655 TATATATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:87934111 original size:29 final size:29
Alignment explanation
Indices: 87934048--87934149 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
87934038 TACCTGTATG
* * * *
87934048 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCTATTAGGCCCAAATCAAATTTATA
* *
87934076 TGGCCTATTAGGCCCAAA-CCACTTGTATA
1 TGGCCTATTAGGCCCAAATCAAATT-TATA
87934105 TGGCCTATTAGGCCCAAATCAAATTTATA
1 TGGCCTATTAGGCCCAAATCAAATTTATA
* *
87934134 TAGCCCATTAGGCCCA
1 TGGCCTATTAGGCCCA
87934150 GTCACATTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 16 0.26
29 41 0.67
30 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCTATTAGGCCCAAATCAAATTTATA
Found at i:87939751 original size:17 final size:18
Alignment explanation
Indices: 87939729--87939762 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87939719 ACACATTGAA
87939729 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
87939746 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
87939763 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:87940856 original size:28 final size:28
Alignment explanation
Indices: 87940824--87940939 Score: 108
Period size: 29 Copynumber: 4.1 Consensus size: 28
87940814 TACCTGTATG
*
87940824 TGGCCCATTAGGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
87940852 TGGCCCATTAGGCCCAAACCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* * *
87940881 TGGCCTATTAGGCACAAATCACATTTATA
1 TGGCCCATTAGGC-CCAATCACATTCATA
* * * *
87940910 TGTCCCGTTAAGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
87940938 TG
1 TG
87940940 CATGCTTATA
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 30 0.43
29 38 0.54
30 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:87940876 original size:57 final size:58
Alignment explanation
Indices: 87940815--87940925 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
87940805 AAATTCACAT
* * * *
87940815 ACCTGTATGTGGCCCATTAGGC-CCAATCATATTCATATGGCCCATTAGGCCCAAACC
1 ACCTGTATATGGCCCATTAGGCACAAATCACATTCATATGGCCCATTAAGCCCAAACC
* * * *
87940872 ACCTGTATATGGCCTATTAGGCACAAATCACATTTATATGTCCCGTTAAGCCCA
1 ACCTGTATATGGCCCATTAGGCACAAATCACATTCATATGGCCCATTAAGCCCA
87940926 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAGGCACAAATCACATTCATATGGCCCATTAAGCCCAAACC
Found at i:87941019 original size:17 final size:18
Alignment explanation
Indices: 87940997--87941030 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87940987 TGCCTATTAT
87940997 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
87941014 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
87941031 TCTAGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:87945343 original size:40 final size:40
Alignment explanation
Indices: 87945272--87945460 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
87945262 ACATTTCTAA
* * * *
87945272 CACG-AGCCTACGGTTCTTT-AACCCAGATTCCATTCCAG
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
*
87945310 CACGAAGCCTGCGGGTCTTTAAACCCGGATTCCATTCCAG
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
* * * * *
87945350 CACAAAGCCTGC-AGTCTTTAAACCTGGATACAATTCCAA
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
* *
87945389 CA-TATGGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
1 CACGA-AGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
*
87945429 CACGAAGCCTGCGGGTCTTTAAGCCCGGATAC
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATAC
87945461 ACACATCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 5 0.04
39 43 0.34
40 79 0.62
41 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
Found at i:87945813 original size:30 final size:30
Alignment explanation
Indices: 87945777--87945838 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
87945767 GATTACTCAA
*
87945777 AACTTACCTCGGATATTTTGAACAGTTGCG
1 AACTTACCTCGAATATTTTGAACAGTTGCG
87945807 AACTTACCTCGAATATTTTGAACAGTTGCG
1 AACTTACCTCGAATATTTTGAACAGTTGCG
87945837 AA
1 AA
87945839 AAGGTTACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (30 bp):
AACTTACCTCGAATATTTTGAACAGTTGCG
Found at i:87951047 original size:27 final size:27
Alignment explanation
Indices: 87951017--87951103 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
87951007 AGCAAAGCTG
87951017 CCAGTAACAGT-ATATGTGGCAAGGCCA
1 CCAGTAACAGTAAT-TGTGGCAAGGCCA
*
87951044 CCAGTATCAGTAATTGTGGCAAGGCCA
1 CCAGTAACAGTAATTGTGGCAAGGCCA
87951071 CCAGTAACAGTAATTGTGGC-AGAGCCA
1 CCAGTAACAGTAATTGTGGCAAG-GCCA
87951098 CCAGTA
1 CCAGTA
87951104 TAGTACTTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAAGGCCA
Found at i:87953896 original size:24 final size:24
Alignment explanation
Indices: 87953814--87953903 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
87953804 AAGAAATTTC
* * *
87953814 AGCACTATATGTGCGAGGTTATGT
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
87953838 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
87953863 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
*
87953887 AGCACTATGTGTACGAG
1 AGCACTATGTGTGCGAG
87953904 GAAACGTGGA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 33 0.65
25 18 0.35
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:87965715 original size:46 final size:46
Alignment explanation
Indices: 87965662--87965837 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
87965652 TATTTGGGCA
87965662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87965708 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
87965753 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
87965801 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87965838 GCGAGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 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:87965817 original size:93 final size:93
Alignment explanation
Indices: 87965658--87965830 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
87965648 AGGATATTTG
* * * *
87965658 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
87965723 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
87965751 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
87965816 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
87965831 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:87974886 original size:47 final size:47
Alignment explanation
Indices: 87974789--87974888 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
87974779 TTAGGATTTT
* ** * * * *
87974789 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCAAACGGCCA
**
87974836 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCAAACGGTTA
1 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCAAACGGCCA
87974883 ATGTGA
1 ATGTGA
87974889 GATATATATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGTGATAAAGCCAAACGGCCA
Found at i:87974965 original size:48 final size:49
Alignment explanation
Indices: 87974858--87975044 Score: 263
Period size: 50 Copynumber: 3.8 Consensus size: 49
87974848 TGAACATGCA
* * * * *
87974858 TATATGTGATAAAGCCAAACGGTTAATGTGAGATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA-ATATATGTATGAGATATG
87974908 TATATGTGGTAAAGCCGAATGGCTAATGTGAA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAATATATGTATGAGATATG
*
87974956 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AATATATGTATGAGATATG
*
87975006 TATATGTGGTAAAGCCGAATGGCTAGTGTGAA-ATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAATATATGTA
87975045 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
47 1 0.01
48 49 0.39
49 5 0.04
50 69 0.55
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (49 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAATATATGTATGAGATATG
Found at i:87974992 original size:98 final size:98
Alignment explanation
Indices: 87974859--87975044 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 98
87974849 GAACATGCAT
* *
87974859 ATATGTGATAAAGCCAAACGGTTAATGTGAGATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGATAAAGCCAAACGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
87974924 GAATGGCTAATGTGAAATATGTATGAGATATGC
66 GAATGGCTAATGTGAAATATGTATGAGATATGC
* * * *
87974957 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGATAAAGCCAAACGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
87975022 GAATGGCTAGTGTGAAATATGTA
66 GAATGGCTAATGTGAAATATGTA
87975045 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATGTGATAAAGCCAAACGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:87975059 original size:50 final size:50
Alignment explanation
Indices: 87974811--87975065 Score: 235
Period size: 50 Copynumber: 5.2 Consensus size: 50
87974801 TGAATGTGTA
* * * * * *
87974811 TATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATATGA-ACATGCA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGTATGAGATATGCG
* * * * *
87974858 TATATGTGATAAAGCCAAACGGTTAATGTGAGATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA-A-ATATGTATGAGATATGCG
87974908 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC-
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
87974957 -ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
* * * *
87975006 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
87975056 TATATTGTGG
1 TATA-TGTGG
87975066 CCGAACGACC
Statistics
Matches: 175, Mismatches: 16, Indels: 30
0.79 0.07 0.14
Matches are distributed among these distances:
47 26 0.15
48 53 0.30
49 5 0.03
50 74 0.42
51 14 0.08
52 3 0.02
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
Found at i:87975312 original size:74 final size:74
Alignment explanation
Indices: 87975191--87975370 Score: 299
Period size: 74 Copynumber: 2.4 Consensus size: 74
87975181 GGAAATATGT
87975191 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATGACTACGTGTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATGACTACGTGTG
87975256 GAGATTTTG
66 GAGATTTTG
87975265 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG-CCTGGGTAAGACCCGATGACTACGTGT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCC-GGGTAAGACCCGATGACTACGTGT
87975329 GGAGATTTTG
65 GGAGATTTTG
* * * * *
87975339 TTCGGATAAGACCTGATAACTTCGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
87975371 TTTCATCTGA
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
73 2 0.02
74 98 0.98
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (74 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATGACTACGTGTG
GAGATTTTG
Found at i:87975371 original size:37 final size:37
Alignment explanation
Indices: 87975191--87975373 Score: 269
Period size: 37 Copynumber: 4.9 Consensus size: 37
87975181 GGAAATATGT
* *
87975191 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
87975228 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
87975265 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
87975302 -CCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCC-GGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * * *
87975339 TTCGGATAAGACCTGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
87975374 CATCTGAGCT
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
36 2 0.02
37 130 0.98
38 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:87979451 original size:33 final size:33
Alignment explanation
Indices: 87979390--87979452 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
87979380 TGCAACAGTA
*** *
87979390 GTCTGGGCCTAAGCCCTGTTTAGTAACAGTGCT
1 GTCTGGGCCTAAGCCCTAAATAGAAACAGTGCT
*
87979423 GTCTGGGCCTTAGCCCTAAATAGAAACAGT
1 GTCTGGGCCTAAGCCCTAAATAGAAACAGT
87979453 ATGGGCCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (33 bp):
GTCTGGGCCTAAGCCCTAAATAGAAACAGTGCT
Found at i:87979610 original size:27 final size:27
Alignment explanation
Indices: 87979569--87979669 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
87979559 CAATATCGCA
**
87979569 GCAAAGCTGCCAGTAACAGT-ATATGTG
1 GCAAAGCCACCAGTAACAGTAAT-TGTG
* *
87979596 GCAAAGCCACTAGTATCAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAATTGTG
87979623 GCAAAGCCACCAGTAACAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAATTGTG
*
87979650 GCAGAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
87979670 CTTCCTCCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 6 0.09
27 58 0.88
28 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAATTGTG
Found at i:87979994 original size:42 final size:41
Alignment explanation
Indices: 87979932--87980190 Score: 178
Period size: 42 Copynumber: 5.7 Consensus size: 41
87979922 TTCGTTTTCT
** * *
87979932 TGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
87979974 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
87980015 TGGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 T-GATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* * *
87980064 TCGATGCCATAGCCTAGCTATGATTTTACATGTAATCACATA-TCACCTA
1 T-GATGCCATAGCCCAGCTATG---GT-C-T-T-A-CACATATTCACATA
*
87980113 TCGATGCCATAGCCTAGCTATGGTCTTACACGGATCACATATCACATA
1 T-GATGCCATAGCCCAGCTATGGTCTTACAC--AT---AT-TCACATA
* *
87980161 TCGATGCCATAGCCCAACTATAGTCTTACA
1 T-GATGCCATAGCCCAGCTATGGTCTTACA
87980191 TGAATCACAT
Statistics
Matches: 179, Mismatches: 15, Indels: 40
0.76 0.06 0.17
Matches are distributed among these distances:
41 5 0.03
42 65 0.36
43 3 0.02
44 1 0.01
45 3 0.02
46 2 0.01
48 35 0.20
49 54 0.30
51 1 0.01
52 1 0.01
53 1 0.01
54 3 0.02
55 1 0.01
56 1 0.01
57 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (41 bp):
TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:87980169 original size:48 final size:49
Alignment explanation
Indices: 87980001--87980310 Score: 297
Period size: 49 Copynumber: 6.2 Consensus size: 49
87979991 TATGGTCTTA
* *
87980001 CACATATTCATATATGGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * *
87980051 CACATATCACATATCGATGCCATAGCCTAGCTATGATTTTACATGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * *
87980100 CACATATCACCTATCGATGCCATAGCCTAGCTATGGTCTTACACG-GAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * *
87980148 CACATATCACATATCGATGCCATAGCCCAACTATAGTCTTACATG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
87980196 CACATATCTCAT-T-GATGCCATATCCCAGATATGGTCTTATAAAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA-CACGTAAT
* * * * *
87980243 CACATAATCATATCTCTAGGAAATGCCGTAGCCCAGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACATATC---G--ATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
87980299 CACATATCACAT
1 CACATATCACAT
87980311 GTTGCCATGG
Statistics
Matches: 213, Mismatches: 35, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
46 22 0.10
47 9 0.04
48 60 0.28
49 79 0.37
50 6 0.03
53 1 0.00
54 1 0.00
55 29 0.14
56 6 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:87980174 original size:97 final size:95
Alignment explanation
Indices: 87980017--87980234 Score: 305
Period size: 97 Copynumber: 2.3 Consensus size: 95
87980007 TTCATATATG
* *
87980017 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCTAGC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAAC
*
87980082 TAT-GATTTTACATGTAATCACATATCACCTATC
66 TATAG-TCTTACATG-AATCACATATC-CC-ATC
* *
87980115 GATGCCATAGCCTAGCTATGGTCTTACACG-GATCACATATCACATATCGATGCCATAGCCCAAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAAC
* *
87980179 TATAGTCTTACATGAATCACATATCTCATT
66 TATAGTCTTACATGAATCACATATCCCATC
* *
87980209 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
87980235 TAAAGTAGCA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
94 25 0.23
95 1 0.01
96 11 0.10
97 42 0.39
98 30 0.28
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (95 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAAC
TATAGTCTTACATGAATCACATATCCCATC
Found at i:87985131 original size:44 final size:44
Alignment explanation
Indices: 87985068--87985200 Score: 230
Period size: 44 Copynumber: 3.0 Consensus size: 44
87985058 TTTTACACCA
* *
87985068 TAATTCTGTTGGAGAGGATGACAAGAGAATATAAAATTATTTTG
1 TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
*
87985112 TAATTCAGTTGTAGAGGATGACAAGAGAATATAAAATTGTTTTG
1 TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
*
87985156 TAATTCAATTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
1 TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
87985200 T
1 T
87985201 TTTATTTATT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 84 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (44 bp):
TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
Found at i:87986198 original size:18 final size:19
Alignment explanation
Indices: 87986153--87986203 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
87986143 AACATTCTAT
**
87986153 TTTAGGAAAACCATTTTTA
1 TTTAGGAAAACCATTAGTA
* *
87986172 TTTACGAAAACC-TTAGTC
1 TTTAGGAAAACCATTAGTA
87986190 TTTAGGAAAACCAT
1 TTTAGGAAAACCAT
87986204 GTTTTGGGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TTTAGGAAAACCATTAGTA
Found at i:87986888 original size:20 final size:20
Alignment explanation
Indices: 87986863--87986904 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
87986853 TAATCATTCA
*
87986863 CACAATCAGTTCAGTATTAT
1 CACAATAAGTTCAGTATTAT
87986883 CACAATAAGTTCAGTATTAT
1 CACAATAAGTTCAGTATTAT
87986903 CA
1 CA
87986905 AACTCAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
CACAATAAGTTCAGTATTAT
Found at i:87995066 original size:32 final size:32
Alignment explanation
Indices: 87995030--87995094 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
87995020 ACGAAAGCTG
87995030 CATTAGATCAACCAGAAACACTATCCCTTGGA
1 CATTAGATCAACCAGAAACACTATCCCTTGGA
*
87995062 CATTAGATCAACCGGAAACACTATCCCTTGGA
1 CATTAGATCAACCAGAAACACTATCCCTTGGA
87995094 C
1 C
87995095 CTCTAGCGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (32 bp):
CATTAGATCAACCAGAAACACTATCCCTTGGA
Found at i:88003056 original size:30 final size:30
Alignment explanation
Indices: 88003022--88003081 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
88003012 ATTTAATACG
88003022 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* ***
88003052 AACTTTTGCGTAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
88003082 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:88005596 original size:20 final size:20
Alignment explanation
Indices: 88005547--88005588 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
88005537 TAATCATTCA
*
88005547 CACAATCAATTCAGTATTAT
1 CACAATCAGTTCAGTATTAT
88005567 CACAATCAGTTCAGTATTAT
1 CACAATCAGTTCAGTATTAT
88005587 CA
1 CA
88005589 AACTCAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (20 bp):
CACAATCAGTTCAGTATTAT
Found at i:88012243 original size:13 final size:13
Alignment explanation
Indices: 88012227--88012251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88012217 TTTTGTGTAG
88012227 AAATTTTCCCACT
1 AAATTTTCCCACT
88012240 AAATTTTCCCAC
1 AAATTTTCCCAC
88012252 ATGGTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCCCACT
Found at i:88018666 original size:24 final size:24
Alignment explanation
Indices: 88018634--88018708 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
88018624 AAGTCTGTCA
88018634 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
88018658 GGAGAGGATTTAGGAACTGATACG
1 GGAGAGGATTTAGGAGCTGATAAG
*
88018682 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
88018706 GGA
1 GGA
88018709 CAGCAGTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:88020186 original size:27 final size:26
Alignment explanation
Indices: 88020104--88020214 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
88020094 AGGAAGTGTC
* *
88020104 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
*
88020131 CTGGTGGCTTTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
88020158 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* * * *
88020185 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTATT
88020211 CTGG
1 CTGG
88020215 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:88031493 original size:67 final size:66
Alignment explanation
Indices: 88031305--88031526 Score: 192
Period size: 67 Copynumber: 3.4 Consensus size: 66
88031295 CATAATTTTG
** * *
88031305 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGT--T-TATCTCG
1 GCTCTCTTGTACACATGGTGTGCACATAGTACCACCCATGCGACCTAGCTCA-TCATATATCTCG
88031366 TA
65 TA
* * * * *
88031368 GCTCTCTTGT-CTACATGGTGT-CATTCACCTGGAACCACGCATACAACCTAGCT-A-CATATAT
1 GCTCTCTTGTAC-ACATGGTGTGCA--CA--TAGTACCACCCATGCGACCTAGCTCATCATATAT
*
88031429 CCCGTA
61 CTCGTA
* *
88031435 GCTCTCTTGT-CTACATGGTGTGCACATAGTATCACCCATGCGACCTAGCTACATCATATGTCTC
1 GCTCTCTTGTAC-ACATGGTGTGCACATAGTACCACCCATGCGACCTAGCT-CATCATATATCTC
88031499 GTA
64 GTA
*
88031502 GCTCTCTTGTACACATGATGTGCAC
1 GCTCTCTTGTACACATGGTGTGCAC
88031527 TCAGCACCAT
Statistics
Matches: 127, Mismatches: 18, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
62 3 0.02
63 18 0.14
64 19 0.15
66 22 0.17
67 62 0.49
68 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTGCACATAGTACCACCCATGCGACCTAGCTCATCATATATCTCGT
A
Found at i:88031547 original size:67 final size:64
Alignment explanation
Indices: 88031359--88031556 Score: 168
Period size: 67 Copynumber: 3.0 Consensus size: 64
88031349 CTAGCCAGTT
* * * * * * *
88031359 TATCTCGTAGCTCTCTTGTCTACATGGTGT-CATTCACCTGGAACCACGCATACAACCTAGCTAC
1 TATCCCGTAGCTCTCTTGTCTACATGATGTGCA--CA--TAGCACCACACATGCGACCTAGCTAC
88031423 ATA
62 ATA
* * * *
88031426 TATCCCGTAGCTCTCTTGTCTACATGGTGTGCACATAGTATCACCCATGCGACCTAGCTACATCA
1 TATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGCACCACACATGCGACCTAGCTACAT-A
* * *
88031491 TATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTAC
1 TA--TCCCGTAGCTCTCTTGT-CTACATGATGTGCACAT-AGCACCACACATGCGACCTAGCTAC
88031554 ATA
62 ATA
88031557 CCATCTGTAT
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
64 22 0.20
65 3 0.03
66 4 0.04
67 79 0.71
68 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
TATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGCACCACACATGCGACCTAGCTACATA
Found at i:88032055 original size:30 final size:30
Alignment explanation
Indices: 88032021--88032081 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88032011 TCCTTAACTC
88032021 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
88032051 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
88032081 A
1 A
88032082 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:88033548 original size:42 final size:42
Alignment explanation
Indices: 88033460--88033602 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 42
88033450 CCCAGACGAC
* * * * *
88033460 GTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAAACATG
*
88033503 GTCTTACACGAAATCATATACGATGCCAATGTCCCAAACATG
1 GTCTTACACGAAATCAAATACGATGCCAATGTCCCAAACATG
* * * *
88033545 GTCTTACACGTAAATCCCAAAT-CAATGCCAACGTCCCATACTTG
1 GTCTTACACG-AAAT--CAAATACGATGCCAATGTCCCAAACATG
*
88033589 GTCTTACATGAAAT
1 GTCTTACACGAAAT
88033603 AACATATCAG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
42 29 0.34
43 25 0.29
44 27 0.32
45 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
GTCTTACACGAAATCAAATACGATGCCAATGTCCCAAACATG
Found at i:88041091 original size:42 final size:42
Alignment explanation
Indices: 88041002--88041146 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
88040992 TCCAAGATTA
* * * * *
88041002 GGTCTTACATGTAATCAAATAAAGATGCCACTGTCCCAGACAA
1 GGTCTTACACGAAATCAAAT-ATGATGCCAATGTCCCAGACAT
* *
88041045 GGTCTTACACGAAATCATATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAGACAT
* *
88041087 GGTCTTACACGTAAATCCCAAAT-TGATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AAAT--CAAATATGATGCCAATGTCCCAGACAT
*
88041131 GGTCTTACATGAAATC
1 GGTCTTACACGAAATC
88041147 CCATATCAGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 25 0.29
44 28 0.32
45 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAGACAT
Found at i:88041124 original size:44 final size:44
Alignment explanation
Indices: 88041025--88041149 Score: 150
Period size: 44 Copynumber: 2.9 Consensus size: 44
88041015 ATCAAATAAA
* *
88041025 GATGCC-ACTGTCCCAGACAAGGTCTTACACGAAAT--CATATAT
1 GATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCCCAAATAT
* *
88041067 GATGCCAATGTCCCAAACATGGTCTTACACGTAAATCCCAAAT-T
1 GATGCCAACGTCCCAGACATGGTCTTACACG-AAATCCCAAATAT
* *
88041111 GATGCCAACGTCCCAGACGTGGTCTTACATGAAATCCCA
1 GATGCCAACGTCCCAGACATGGTCTTACACGAAATCCCA
88041150 TATCAGAATC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.37
43 13 0.18
44 28 0.39
45 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
GATGCCAACGTCCCAGACATGGTCTTACACGAAATCCCAAATAT
Found at i:88045287 original size:26 final size:27
Alignment explanation
Indices: 88045199--88045302 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
88045189 ATATTTACAT
* * *
88045199 CACAT-AGGGCAAAACAATTATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
88045225 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
88045252 CTCATGAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
88045279 CACATAGGGGCACAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
88045303 ATCAATCAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 4 0.06
27 60 0.94
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:88051987 original size:28 final size:28
Alignment explanation
Indices: 88051925--88051987 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
88051915 TGATATTATA
* *
88051925 TAGATC-AAGAAAAATGAAGTTCGGATC
1 TAGATCGAGGAAAAATAAAGTTCGGATC
88051952 TAGATCGAGGAAAGAATAAAGTATCGGA-C
1 TAGATCGAGGAAA-AATAAAGT-TCGGATC
88051981 TAG-TCGA
1 TAGATCGA
88051988 TTTGTTTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.19
28 9 0.29
29 11 0.35
30 5 0.16
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (28 bp):
TAGATCGAGGAAAAATAAAGTTCGGATC
Found at i:88055451 original size:27 final size:28
Alignment explanation
Indices: 88055389--88055451 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
88055379 CAGTCACTTG
*
88055389 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
88055417 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
88055443 CCCACAAGG
1 CCCACAAGG
88055452 TATCTCGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 3 0.11
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:88055489 original size:27 final size:27
Alignment explanation
Indices: 88055433--88055673 Score: 288
Period size: 27 Copynumber: 9.0 Consensus size: 27
88055423 GGGCAAAATG
* * * * *
88055433 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88055459 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88055486 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
88055513 GTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
88055540 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
88055567 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
88055594 GTAATTCTACCCTATAGGGTTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88055621 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
88055647 GATATTTCCACCCTACAAGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
88055674 GATAATTTTG
Statistics
Matches: 190, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 15 0.08
27 175 0.92
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:88055515 original size:54 final size:54
Alignment explanation
Indices: 88055433--88055680 Score: 322
Period size: 54 Copynumber: 4.6 Consensus size: 54
88055423 GGGCAAAATG
* * * *
88055433 GTAATTTTACCCCACAA-GGTATCTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
88055486 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
**
88055540 GTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
88055594 GTAATTCTACCCTA-TAGGGTTATTTCGGTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
88055647 GATATTTCCACCCTACAAGGGTATTTCGATAATT
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATT
88055681 TTGTAAATCG
Statistics
Matches: 169, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
53 19 0.11
54 146 0.86
55 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:88055548 original size:81 final size:81
Alignment explanation
Indices: 88055432--88055680 Score: 342
Period size: 81 Copynumber: 3.1 Consensus size: 81
88055422 AGGGCAAAAT
* * *
88055432 GGTAATTTTACCCCACAA-GGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
88055496 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* *
88055512 GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
88055577 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * * *
88055593 AGTAATTCTACCCTA-TAGGGTTATTTCGGTAATTCTACCCTATAGGGGTA-TTTCGATATTTCC
1 GGTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TAATTCT
*
88055656 ACCCTACAAGGGTATTTC
64 ACCCTACAGGGGTATTTC
*
88055674 GATAATT
1 GGTAATT
88055681 TTGTAAATCG
Statistics
Matches: 150, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 23 0.15
81 127 0.85
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:88055694 original size:27 final size:27
Alignment explanation
Indices: 88055664--88055763 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
88055654 CCACCCTACA
88055664 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGATAATTTTGTAAATCG
*** * *
88055691 AGGGTAAAACGATAATTCTGTAAATCA
1 AGGGTATTTCGATAATTTTGTAAATCG
* ** *
88055718 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTGTAAATCG
*
88055745 AGGGTATTTCAATAATTTT
1 AGGGTATTTCGATAATTTT
88055764 ACAGGTCGAG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTGTAAATCG
Found at i:88055764 original size:27 final size:26
Alignment explanation
Indices: 88055712--88056004 Score: 176
Period size: 27 Copynumber: 10.9 Consensus size: 26
88055702 ATAATTCTGT
*
88055712 AAATCAAGGGTACTTT-GGTAATTTTAC
1 AAATC-AGGGTA-TTTCAGTAATTTTAC
* *
88055739 AAGTCGAGGGTATTTCAATAATTTTAC
1 AAATC-AGGGTATTTCAGTAATTTTAC
** ** *
88055766 AGGTCGAGTATATTTCAGTAATTTCAC
1 AAATC-AGGGTATTTCAGTAATTTTAC
**
88055793 AAATCAGGGTTATTTTGGTAATTTTAC
1 AAATCAGGG-TATTTCAGTAATTTTAC
**
88055820 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCA-GGGTATTTCAGTAATTTTAC
* **
88055847 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATCA-GGGTATTTCAGTAATTTTAC
* ** *
88055874 AAACCAGGGGTATTTTGGTAATTTTAT
1 AAATCA-GGGTATTTCAGTAATTTTAC
*
88055901 AAA-CAAAGGGTATTTTAGTAATTTTAC
1 AAATC--AGGGTATTTCAGTAATTTTAC
* ** * *
88055928 AAACCAGGGGTATTTTGGTGATTTTAT
1 AAATCA-GGGTATTTCAGTAATTTTAC
* * * *
88055955 AAACCAAGGTATTTTAGTGATTTTAC
1 AAATCAGGGTATTTCAGTAATTTTAC
* **
88055981 AAACCAGGGGTATTTTGGTAATTT
1 AAATCA-GGGTATTTCAGTAATTT
88056005 GGTAAACTAA
Statistics
Matches: 227, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
26 30 0.13
27 192 0.85
28 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
AAATCAGGGTATTTCAGTAATTTTAC
Found at i:88055842 original size:81 final size:79
Alignment explanation
Indices: 88055712--88056004 Score: 232
Period size: 81 Copynumber: 3.6 Consensus size: 79
88055702 ATAATTCTGT
* * * * *
88055712 AAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGT-CGAGT
1 AAATC-AGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAGTACGAGT
88055775 ATATTTCAGTAATTTCAC
64 AT-TTT-AGTAATTTCAC
* * * *
88055793 AAATCAGGGTTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTAGGGGT
1 AAATCAGGG-TATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTAC-AAGTACGAGT
* *
88055858 ATTTTGGTAATTTTAC
64 ATTTTAGTAATTTCAC
* * * ** * *
88055874 AAACCAGGGGTATTTTGGTAATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAACCAGGGG
1 AAATCA-GGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTAGTAATTTTAC-AAGTACGAG
* * * *
88055938 TATTTTGGTGATTTTAT
63 TATTTTAGTAATTTCAC
* * * * * *
88055955 AAACCAAGGTATTTTAGTGATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AAATCAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTT
88056005 GGTAAACTAA
Statistics
Matches: 180, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
80 41 0.23
81 125 0.69
82 9 0.05
83 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
AAATCAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAGTACGAGTAT
TTTAGTAATTTCAC
Found at i:88056011 original size:27 final size:27
Alignment explanation
Indices: 88055783--88056004 Score: 302
Period size: 27 Copynumber: 8.3 Consensus size: 27
88055773 GTATATTTCA
* * *
88055783 GTAATTTCACAAATCAGGGTTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
*
88055810 GTAATTTTACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
**
88055837 GTAATTTTACAAATTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
88055864 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * *
88055891 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
88055918 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * *
88055945 GTGATTTTATAAACCA-AGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
*
88055971 GTGATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
88055998 GTAATTT
1 GTAATTT
88056005 GGTAAACTAA
Statistics
Matches: 173, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.13
27 150 0.87
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:88058704 original size:25 final size:27
Alignment explanation
Indices: 88058665--88058716 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
88058655 CTTTCTATTT
88058665 TTTTCATAAATTATTTATTTTA-TATA
1 TTTTCATAAATTATTTATTTTACTATA
*
88058691 TTTT-ATATATTATTTATTTTACTATA
1 TTTTCATAAATTATTTATTTTACTATA
88058717 AATATTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTCATAAATTATTTATTTTACTATA
Found at i:88058749 original size:18 final size:17
Alignment explanation
Indices: 88058701--88058751 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
88058691 TTTTATATAT
*
88058701 TATTTATTTTACTATAAA
1 TATTTATTATA-TATAAA
88058719 TA-TTATGTATATATAAA
1 TATTTAT-TATATATAAA
88058736 TGATTTATTATATATA
1 T-ATTTATTATATATA
88058752 TTATTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 11 0.38
18 14 0.48
19 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TATTTATTATATATAAA
Found at i:88058830 original size:20 final size:22
Alignment explanation
Indices: 88058801--88058868 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 22
88058791 TAAGTTTTAT
88058801 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
*
88058820 TTATATCATTTTACTATATATG
1 TTATATCATTTTACTATATATA
* * * *
88058842 TTAT-TCATTATATTATTTTTA
1 TTATATCATTTTACTATATATA
88058863 TTATAT
1 TTATAT
88058869 TTTATATTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 18 0.46
22 9 0.23
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:88062046 original size:17 final size:17
Alignment explanation
Indices: 88062024--88062061 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
88062014 TTTGAAAGGA
88062024 AGAATTTAGAGCTCGGG
1 AGAATTTAGAGCTCGGG
88062041 AGAATTTAGAGCTCGGG
1 AGAATTTAGAGCTCGGG
88062058 AGAA
1 AGAA
88062062 AGATAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (17 bp):
AGAATTTAGAGCTCGGG
Found at i:88070422 original size:21 final size:21
Alignment explanation
Indices: 88070398--88070437 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
88070388 TTTCCTATTG
*
88070398 TATTCT-AATGATTTAACTAAC
1 TATTCTCAA-GATTAAACTAAC
88070419 TATTCTCAAGATTAAACTA
1 TATTCTCAAGATTAAACTA
88070438 TTTGTCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (21 bp):
TATTCTCAAGATTAAACTAAC
Found at i:88071009 original size:44 final size:44
Alignment explanation
Indices: 88070952--88071862 Score: 1010
Period size: 44 Copynumber: 20.8 Consensus size: 44
88070942 CACTGATAGT
* * * *
88070952 AGATTTGGAGTCTCTGTATTGTCAGAGAACAGATCGAAGATAAT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
88070996 AGGTTTGACGTCTCTGTATTGACAGAGAGTAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
88071040 AAATTTGGTGTCTCTGTATTGACAGAGAGCAGA-C--TGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
88071081 AGATGTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
88071125 AGGTTTGACGTCTCTGTATTGATAGAGAGCAGATCGAAAATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * *
88071169 AAATTTGGCGTCTCTGTATTGATAGAGAGTAGATCGAAAATAAA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * ** *
88071213 AAAATTGGCGTCTCTGTATTAACAGAGAATAGATCGAATATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * *
88071257 AAATATGGCATCTCTGTATTGACAGAGAGCAAATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
88071301 AGATTTGGTGTCTCTGTATT-ACAGAGAACAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
88071344 AAATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAATATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
** *
88071388 AGATTTGATGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
88071432 ATATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
88071476 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* ** * * * **
88071520 CGATTTGGAATATCTTTATTG-CTAAAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGAC-AGAGAGCAGATCGAAGATAAC
* * * * * *
88071564 AGATTTGGTGTCTCTATATTGTCAGAGAGCAGATCAAACATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * **
88071608 AGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * *
88071652 AGATTTAGCATTTCTGTATTGACAGAGAGTAGATCAAAGATAGA-
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA-AC
* * * * *
88071696 AGATTTGGTGCCTCCGTATTGGCAGAGAGCAGATC-AGAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA-AGATAAC
*
88071740 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
88071784 AGATTTGTCGTCTCTGTATTGACAAAGAGCATATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
*
88071828 AGATTTGGTGTCTCTGTATTGACAGAG-GACAGATC
1 AGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATC
88071863 AAATGTAACG
Statistics
Matches: 734, Mismatches: 122, Indels: 22
0.84 0.14 0.03
Matches are distributed among these distances:
41 34 0.05
42 1 0.00
43 42 0.06
44 655 0.89
45 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
Found at i:88082444 original size:20 final size:22
Alignment explanation
Indices: 88082415--88082482 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
88082405 TAAGTTTTAT
88082415 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
88082434 TTATATCATTTTACTATATATA
1 TTATATCATTTTACTATATATA
* * * *
88082456 TTAT-TCATTATATTATTTTTA
1 TTATATCATTTTACTATATATA
88082477 TTATAT
1 TTATAT
88082483 TTTATATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:88082479 original size:14 final size:14
Alignment explanation
Indices: 88082432--88082483 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
88082422 TTTTATAATA
*
88082432 TATTATATCA-TTT
1 TATTATATTATTTT
*
88082445 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
88082461 CATTATATTATTTT
1 TATTATATTATTTT
88082475 TATTATATT
1 TATTATATT
88082484 TTATATTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:88082505 original size:33 final size:35
Alignment explanation
Indices: 88082452--88082521 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 35
88082442 TTTTACTATA
* *
88082452 TATATTATTCATTATATTATTTTTAT-TAT-ATTT
1 TATATTATTCAATATATTATTATTATGTATAATTT
88082485 TATATTACTTCAATAT-TTATTATTATGTATAATTT
1 TATATTA-TTCAATATATTATTATTATGTATAATTT
88082520 TA
1 TA
88082522 AAAATTTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 16 0.50
34 10 0.31
35 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (35 bp):
TATATTATTCAATATATTATTATTATGTATAATTT
Found at i:88085832 original size:18 final size:18
Alignment explanation
Indices: 88085790--88085832 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88085780 GCCCATTCCG
*
88085790 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
88085808 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
88085826 AAGTATG
1 AAGTATG
88085833 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:88086354 original size:27 final size:28
Alignment explanation
Indices: 88086270--88086367 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
88086260 CATGAGATTG
* * *
88086270 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
88086299 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
88086327 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
88086354 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
88086368 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:88086381 original size:29 final size:27
Alignment explanation
Indices: 88086298--88086381 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
88086288 TAAATTGTTC
* *
88086298 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
88086326 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
88086353 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
88086382 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:88092382 original size:55 final size:55
Alignment explanation
Indices: 88092316--88092424 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
88092306 TATACATGCC
*
88092316 ATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGGGCTTTGATAGTGTGGGCG
1 ATTTCGAAGTTCAACCAAAATTGTACCAAAAGGAGGGGCTTTGATAGTGTGGGCG
88092371 ATTTCGAAGTTCAACCAAAATTGTACCAAAAGGAGGGGCTTTGATAGTGTGGGC
1 ATTTCGAAGTTCAACCAAAATTGTACCAAAAGGAGGGGCTTTGATAGTGTGGGC
88092425 AACTTTGACT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (55 bp):
ATTTCGAAGTTCAACCAAAATTGTACCAAAAGGAGGGGCTTTGATAGTGTGGGCG
Found at i:88092799 original size:39 final size:39
Alignment explanation
Indices: 88092745--88093148 Score: 708
Period size: 39 Copynumber: 10.3 Consensus size: 39
88092735 AACATACCTC
88092745 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88092784 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88092823 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88092862 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88092901 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88092940 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88092979 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88093018 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
88093057 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
1 GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
* * *
88093096 GATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCG
1 G-GCTTAGCCCGGA-ATTAGT-ATC-TCGCACAAATGCCTTCG
88093135 GGACTTAGCCCGGA
1 GG-CTTAGCCCGGA
88093149 CATCATTCAA
Statistics
Matches: 355, Mismatches: 5, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
39 331 0.93
40 15 0.04
41 9 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG
Found at i:88094775 original size:24 final size:24
Alignment explanation
Indices: 88094748--88094826 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
88094738 TTGGGCTGTC
88094748 ACAACCACCACCTCCAGGCTTTCA
1 ACAACCACCACCTCCAGGCTTTCA
***
88094772 ACAACCACCA--TACCA-GC-AGGA
1 ACAACCACCACCT-CCAGGCTTTCA
*
88094793 GA-AAACACCACCTCCAGGCTTTCA
1 -ACAACCACCACCTCCAGGCTTTCA
88094817 ACAACCACCA
1 ACAACCACCA
88094827 TACCAGCAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 7 0.17
24 18 0.45
ACGTcount: A:0.37, C:0.42, G:0.10, T:0.11
Consensus pattern (24 bp):
ACAACCACCACCTCCAGGCTTTCA
Found at i:88094817 original size:45 final size:45
Alignment explanation
Indices: 88094753--88094842 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
88094743 CTGTCACAAC
88094753 CACCACCTCCAGGCTTTCAACAACCACCATACCAGCAGGAGAAAA
1 CACCACCTCCAGGCTTTCAACAACCACCATACCAGCAGGAGAAAA
88094798 CACCACCTCCAGGCTTTCAACAACCACCATACCAGCAGGAGAAAA
1 CACCACCTCCAGGCTTTCAACAACCACCATACCAGCAGGAGAAAA
88094843 GTCGAGCCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.38, G:0.13, T:0.11
Consensus pattern (45 bp):
CACCACCTCCAGGCTTTCAACAACCACCATACCAGCAGGAGAAAA
Found at i:88094825 original size:21 final size:21
Alignment explanation
Indices: 88094749--88094825 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
88094739 TGGGCTGTCA
*
88094749 CAACCACCACCTCCAGGCTTT
1 CAACAACCACCTCCAGGCTTT
***
88094770 CAACAACCACCATACCA-GCAGGA
1 CAACAACCACC-T-CCAGGC-TTT
* *
88094793 GAAAACACCACCTCCAGGCTTT
1 CAACA-ACCACCTCCAGGCTTT
88094815 CAACAACCACC
1 CAACAACCACC
88094826 ATACCAGCAG
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
21 16 0.40
22 9 0.22
23 9 0.22
24 6 0.15
ACGTcount: A:0.35, C:0.43, G:0.10, T:0.12
Consensus pattern (21 bp):
CAACAACCACCTCCAGGCTTT
Found at i:88100994 original size:49 final size:49
Alignment explanation
Indices: 88100920--88101016 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
88100910 AGCTCGAGCC
88100920 CATTGGGCCTAAGCCCTATTCAGATAACAGTACACAGTAGACCGAAGCT
1 CATTGGGCCTAAGCCCTATTCAGATAACAGTACACAGTAGACCGAAGCT
* *
88100969 CATTGGGCCTAAGCCCTATTTAGATAACAGTACACAGTGGACCGAAGC
1 CATTGGGCCTAAGCCCTATTCAGATAACAGTACACAGTAGACCGAAGC
88101017 CCTTTTCAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (49 bp):
CATTGGGCCTAAGCCCTATTCAGATAACAGTACACAGTAGACCGAAGCT
Found at i:88113463 original size:13 final size:13
Alignment explanation
Indices: 88113445--88113469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88113435 TACTAAATTT
88113445 TCATGGATTCAAA
1 TCATGGATTCAAA
88113458 TCATGGATTCAA
1 TCATGGATTCAA
88113470 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:88115677 original size:58 final size:59
Alignment explanation
Indices: 88115587--88115743 Score: 168
Period size: 58 Copynumber: 2.8 Consensus size: 59
88115577 ACATGAATTC
* ** *
88115587 CATTT-CACACACTTAGTGCC-CACTGATCGATCTTGCACTCATAGTACTCGGTTAAA-GA
1 CATTTGCACACAC--AGTGCCTCAATGATCGATCTCACACACATAGTACTCGGTTAAAGGA
* * *
88115645 CATTTGCACACACAGTGCCTCAATTATCGATCTCACCCACATAGTGCTCGGTTAAAGGA
1 CATTTGCACACACAGTGCCTCAATGATCGATCTCACACACATAGTACTCGGTTAAAGGA
*
88115704 -ATTTGCACACACAATGCCTCAA--ATC-AT-TCACACACATAGT
1 CATTTGCACACACAGTGCCTCAATGATCGATCTCACACACATAGT
88115744 GCCCTTATTC
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
54 12 0.14
55 2 0.02
56 3 0.03
57 6 0.07
58 55 0.63
59 9 0.10
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (59 bp):
CATTTGCACACACAGTGCCTCAATGATCGATCTCACACACATAGTACTCGGTTAAAGGA
Found at i:88115941 original size:43 final size:43
Alignment explanation
Indices: 88115894--88115977 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
88115884 GCATTAAGCT
* * *
88115894 TGCTAGGCATGAAAGCCTGAATACATATCACCGGCACGAATCC
1 TGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAATCC
*
88115937 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAT
1 TGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAT
88115978 GCTCTTCGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (43 bp):
TGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAATCC
Found at i:88116025 original size:40 final size:40
Alignment explanation
Indices: 88115970--88116205 Score: 312
Period size: 40 Copynumber: 5.9 Consensus size: 40
88115960 CACATCACCG
* *
88115970 GCACGAATGCTCTTCGGGACTTAGCTCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTA
* * *
88116010 GCACGAATGCTCTTCGGGTCTTAACCCGGGTATAACACCA
1 GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTA
88116050 GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTA
* * * *
88116090 GCACGAATGCTCTTCAGGTCTTAACCCGGGTATAACACCA
1 GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTA
* * *
88116130 GCACGAATGCTCTTCGGGACTTAACCCAGATATAGCA-TCG
1 GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACT-A
* * * *
88116170 GCACAAATGCCCTTCGGGACTTAGCCTGGATATAAC
1 GCACGAATGCTCTTCGGGACTTAACCCGGATATAAC
88116206 TCACTAAACT
Statistics
Matches: 170, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTA
Found at i:88116205 original size:80 final size:80
Alignment explanation
Indices: 88115965--88116163 Score: 353
Period size: 80 Copynumber: 2.5 Consensus size: 80
88115955 GAATACACAT
* * *
88115965 CACCGGCACGAATGCTCTTCGGGACTTAGCTCGGATATAACACTAGCACGAATGCTCTTCGGGTC
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
88116030 TTAACCCGGGTATAA
66 TTAACCCGGGTATAA
*
88116045 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCAGGTC
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
88116110 TTAACCCGGGTATAA
66 TTAACCCGGGTATAA
*
88116125 CACCAGCACGAATGCTCTTCGGGACTTAACCCAGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATA
88116164 GCATCGGCAC
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 114 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
TTAACCCGGGTATAA
Found at i:88119799 original size:13 final size:13
Alignment explanation
Indices: 88119781--88119805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88119771 TACTAAATTT
88119781 TCATGGATTCAAA
1 TCATGGATTCAAA
88119794 TCATGGATTCAA
1 TCATGGATTCAA
88119806 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:88127111 original size:50 final size:48
Alignment explanation
Indices: 88126951--88127309 Score: 198
Period size: 46 Copynumber: 7.6 Consensus size: 48
88126941 GTATAATGCT
* * * * *
88126951 GATGCCATGTCCCGGACAAGGTCTTACACTG-GCTCATC-TGTCAG-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGCTCTCA-CATATC-GTGCC
* * * * * *
88126998 GATGTCATGTCCCAGATATGGTTTTACATTGACTATCGA-A-ATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-ACATATCG-TGCC
**
88127047 GACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATGCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACATAT-CGTGCC
* * *
88127097 GATGCCATGTCCCAGACATGGTCTTCCACTGACACCTC-TATAT-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-C-TCTCACATATCGTGCC
* * * *
88127145 AATGCCATGTCCCAGACATGGTC-TACACTG---ACACATCTCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACATATCGT-GCC
* * *
88127190 GATG-CATGTCCCGGACAT-GTCTTACACTGGCT-T-ACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACATATCG-TGCC
* * *
88127236 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACATATC-GTGCC
* * *
88127282 AATGCCATGTCCTATACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
88127310 ATAGCACACA
Statistics
Matches: 246, Mismatches: 42, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 20 0.08
45 7 0.03
46 51 0.21
47 45 0.18
48 38 0.15
49 34 0.14
50 39 0.16
51 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACATATCGTGCC
Found at i:88129340 original size:62 final size:62
Alignment explanation
Indices: 88129224--88129341 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
88129214 GAATTCGACT
* **
88129224 AGTGGTAAATACTTTTCCCAACTACCTTGAAACTCAAGAACATAACACTGTAACATTTGACC
1 AGTGGTAAATACTTTTCCCAACTACCTTGAAACTCAAGAACACAACACCATAACATTTGACC
* *
88129286 AGTGGTAAATACTTTTCCCAACTGCCTTGAAACTCGAGAACACAACACCATAACAT
1 AGTGGTAAATACTTTTCCCAACTACCTTGAAACTCAAGAACACAACACCATAACAT
88129342 GTCCTCTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (62 bp):
AGTGGTAAATACTTTTCCCAACTACCTTGAAACTCAAGAACACAACACCATAACATTTGACC
Found at i:88136982 original size:67 final size:68
Alignment explanation
Indices: 88136874--88137010 Score: 249
Period size: 67 Copynumber: 2.0 Consensus size: 68
88136864 TCTTTTTTTT
*
88136874 TTCTAGTTTCGGCAAAATGGGGGAACAACCACACAC-TTTTTTTTTGTTTGCATCATATTCCCTT
1 TTCTAGTTTCGGAAAAATGGGGGAACAACCACACACTTTTTTTTTTGTTTGCATCATATTCCCTT
88136938 TCA
66 TCA
*
88136941 TTCTAGTTTCGGAAAAATGGGGGAACAACCACACACTTTTTTTTTTGTTTTCATCATATTCCCTT
1 TTCTAGTTTCGGAAAAATGGGGGAACAACCACACACTTTTTTTTTTGTTTGCATCATATTCCCTT
88137006 TCA
66 TCA
88137009 TT
1 TT
88137011 ATTTTATTCC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 35 0.52
68 32 0.48
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (68 bp):
TTCTAGTTTCGGAAAAATGGGGGAACAACCACACACTTTTTTTTTTGTTTGCATCATATTCCCTT
TCA
Found at i:88138540 original size:40 final size:40
Alignment explanation
Indices: 88138485--88138850 Score: 608
Period size: 40 Copynumber: 9.2 Consensus size: 40
88138475 TGCTCTACGA
* *
88138485 ATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
*
88138525 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
* * *
88138565 GTACATCACTGGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
* *
88138605 ATACATCACTAGCATGAATTCTTTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
88138645 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
*
88138685 ATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
* * *
88138725 GTACATCACTAGCATGAATTCTTTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
88138765 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
*
88138805 ATACATCACTAGCATGAATGCTCTTCCGGACTTAGCCCGG
1 ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
88138845 AT-CATC
1 ATACATC
88138851 GTCGAGACCT
Statistics
Matches: 307, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 4 0.01
40 303 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
Found at i:88138977 original size:38 final size:38
Alignment explanation
Indices: 88138904--88138978 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
88138894 GAATTTTAAT
* *
88138904 CCGGACATAATCTCTGTACATAGCCATCGGTTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
88138942 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
88138979 AACTCGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:88141487 original size:47 final size:47
Alignment explanation
Indices: 88141409--88141759 Score: 567
Period size: 47 Copynumber: 7.4 Consensus size: 47
88141399 CCCTTCGGGA
* * * * * *
88141409 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88141456 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88141503 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88141550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88141597 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88141644 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88141691 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88141740 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
88141760 GTACATCAAT
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88147786 original size:50 final size:48
Alignment explanation
Indices: 88147619--88147943 Score: 232
Period size: 48 Copynumber: 6.8 Consensus size: 48
88147609 TAGGGTATAA
* * * * *
88147619 TGCCGTTGCCATGTCCCAGACATGGTCCTACACTTGCTCATCT-ATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC-TCTCAT-ATG
* * * *
88147668 T--CGATGCTATGTCCCAGACATGGTCTTACACT-G-AATATCGAAATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTC-ATAT-G
* * * *
88147714 AGGCCGATGCCATGTCCCAGACATCGTCTTACACTAGCTCTCACATATTTG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTCATA--TG
* *
88147765 TGCCGATGCCATGTCCCAGACATGGTGTTACACT-GACAC-CTCTATAGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCTC-ATATG
* *
88147813 TGCCCATGCCATGTCCC-GAACATGGTCTTACACTAACACATCTCATA--
1 TGCCGATGCCATGTCCCAG-ACATGGTCTTACACTAGCAC-TCTCATATG
* *
88147860 -GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTTGTCTCA-A--
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC---TCTCATATG
*
88147905 TACCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
88147944 ACAAATGACC
Statistics
Matches: 221, Mismatches: 33, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
44 15 0.07
45 14 0.06
46 20 0.09
47 42 0.19
48 48 0.22
49 36 0.16
50 42 0.19
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTCATATG
Found at i:88157096 original size:40 final size:40
Alignment explanation
Indices: 88157006--88157309 Score: 298
Period size: 40 Copynumber: 7.7 Consensus size: 40
88156996 TTGAATGATG
* * *
88157006 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
88157045 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * * *
88157086 TTCGGGCTAAG-CCCGAAGACATTTGCGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
88157125 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
88157164 AACCGGGCTATGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * * *
88157205 TTCGGGCTAAG-CCCGAAGACATTTGCGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
88157244 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
88157283 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
88157310 AATGAGTAGC
Statistics
Matches: 212, Mismatches: 43, Indels: 18
0.78 0.16 0.07
Matches are distributed among these distances:
39 65 0.31
40 135 0.64
41 12 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:88157143 original size:79 final size:80
Alignment explanation
Indices: 88157006--88157309 Score: 314
Period size: 79 Copynumber: 3.8 Consensus size: 80
88156996 TTGAATGATG
* * * * *
88157006 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
88157069 TTGTGCGAGATACTAAT
64 TTGTGCGAGTTACTAAT
* * * * * *
88157086 TTCGGGCTAAG-CCCGAAGACATTTGCGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
88157150 GTGCGAGTTACT-AT
66 GTGCGAGTTACTAAT
* * * * * *
88157164 AACCGGGCTATGTCCCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAG-CCCGAAGACATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* * *
88157228 TGCGTGAGTTACTAAA
65 TGTGCGAGTTACTAAT
* * *
88157244 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
88157308 TG
65 TG
88157310 AATGAGTAGC
Statistics
Matches: 181, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
78 3 0.02
79 116 0.64
80 62 0.34
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAT
Done.