Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 67 of 349
Found at i:19628151 original size:28 final size:29
Alignment explanation
Indices: 19628110--19628164 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
19628100 AGTCATTTAT
*
19628110 TATTTTTCTATGTTAGTATAATTTGATTA
1 TATTTTTCTATGTTAATATAATTTGATTA
* *
19628139 TATTTTT-TTTGTTAATATAGTTTGAT
1 TATTTTTCTATGTTAATATAATTTGAT
19628165 GGCATGTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (29 bp):
TATTTTTCTATGTTAATATAATTTGATTA
Found at i:19628210 original size:81 final size:82
Alignment explanation
Indices: 19628075--19628237 Score: 265
Period size: 81 Copynumber: 2.0 Consensus size: 82
19628065 GTTCTTTTGT
* * * *
19628075 TAGTTTCATGTCATGTACCTAAGAGAGTCATTTATTATTTTTCTATGTTAGTATAATTTGATTAT
1 TAGTTTCATGGCATGTAACTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
*
19628140 AT-TTTTTTTGTTAATA
66 ATGTTTTGTTGTTAATA
*
19628156 TAGTTTGATGGCATGTAACTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
1 TAGTTTCATGGCATGTAACTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
19628221 ATGTTTTGTTGTTAATA
66 ATGTTTTGTTGTTAATA
19628238 GACAATATGC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 62 0.83
82 13 0.17
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (82 bp):
TAGTTTCATGGCATGTAACTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
ATGTTTTGTTGTTAATA
Found at i:19630385 original size:23 final size:23
Alignment explanation
Indices: 19630322--19630413 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
19630312 TAAATGCTAG
*
19630322 CAAAAGTATGTTTCAAATGTTGT-
1 CAAAA-TATGTTTTAAATGTTGTC
* * * *
19630345 TAAACTAAGATTTAAATGTTGTC
1 CAAAATATGTTTTAAATGTTGTC
**
19630368 CAAAATATGTTTTAAATGTCATC
1 CAAAATATGTTTTAAATGTTGTC
** *
19630391 CAAAACGTGTTTTAAGTGTTGTC
1 CAAAATATGTTTTAAATGTTGTC
19630414 TAACCTAGAC
Statistics
Matches: 52, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
22 14 0.27
23 38 0.73
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (23 bp):
CAAAATATGTTTTAAATGTTGTC
Found at i:19631039 original size:72 final size:72
Alignment explanation
Indices: 19630927--19631151 Score: 245
Period size: 72 Copynumber: 3.1 Consensus size: 72
19630917 TTATTTTTTG
** * * * *
19630927 ATTTTACCGACCAGCGCAGAACACACTTATTTGTCAGTTATACTAACTAGTGCTGGGCATACTCA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
19630992 TTTTTCA
66 TTTTTCA
* * * * * * *
19630999 ATTTTACCGACCAGCGCAGGGTACACTTATTTGTCGGTTATACCAACCAATACTAGGCACATTTA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
*
19631064 TATTTT-G
66 T-TTTTCA
* ** * * * *
19631071 GTTTTACCGACCAATGCAAGGCGCACTTATTTGTCAGTTATACTGACCAATGTTGGGCACAATCA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
19631136 TTTTTCA
66 TTTTTCA
19631143 ATTTTACCG
1 ATTTTACCG
19631152 GCTAGCCCAA
Statistics
Matches: 122, Mismatches: 29, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
71 4 0.03
72 114 0.93
73 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (72 bp):
ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
TTTTTCA
Found at i:19634316 original size:49 final size:49
Alignment explanation
Indices: 19634259--19634490 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 49
19634249 CTGGTACGCA
* * *
19634259 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
** * *
19634308 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * * ** *
19634358 TAGTAGCCTATACTTAGTACTACGCACGTGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTACACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* * *
19634409 TAGTAGCCTCCACTTAGTACTACACATGAGACCAATTATTCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * *
19634458 TAGTAGCCCACATTTAGTACTACACACGTGACC
1 TAGTAGCCTACACTTAGTACTACACATGTGACC
19634491 CTACAACAGA
Statistics
Matches: 146, Mismatches: 34, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
49 68 0.47
50 44 0.30
51 34 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:19634373 original size:50 final size:49
Alignment explanation
Indices: 19634259--19634380 Score: 163
Period size: 50 Copynumber: 2.5 Consensus size: 49
19634249 CTGGTACGCA
* ** *
19634259 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAACCATCCGACACACG
* * *
19634308 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACCATCCGACACACG
*
19634358 TAGTAGCCTATACTTAGTACTAC
1 TAGTAGCCTACACTTAGTACTAC
19634381 GCACGTGATC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 31 0.48
50 33 0.52
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAACCATCCGACACACG
Found at i:19634430 original size:101 final size:100
Alignment explanation
Indices: 19634308--19634488 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 100
19634298 CCGGCACACG
* * *
19634308 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCA-TCTGATACACGTAGTAGCCTATACT
1 TAGTAGCCTACACTTAGTACTACACATGAGACC-AACCATTC-GATACACGTAGTAGCCCACACT
*
19634372 TAGTACTACGCACGTGATCGAAGTTATCGGGTATGCA
64 TAGTACTACACACGTGATCGAAGTTATCGGGTATGCA
* ** * *
19634409 TAGTAGCCTCCACTTAGTACTACACATGAGACCAATTATTCGGTACACGTAGTAGCCCACATTTA
1 TAGTAGCCTACACTTAGTACTACACATGAGACCAACCATTCGATACACGTAGTAGCCCACACTTA
19634474 GTACTACACACGTGA
66 GTACTACACACGTGA
19634489 CCCTACAACA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
100 37 0.53
101 33 0.47
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACATGAGACCAACCATTCGATACACGTAGTAGCCCACACTTA
GTACTACACACGTGATCGAAGTTATCGGGTATGCA
Found at i:19634767 original size:27 final size:27
Alignment explanation
Indices: 19634737--19634790 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19634727 TCATACAACC
* *
19634737 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
19634764 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
19634791 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:19643875 original size:46 final size:45
Alignment explanation
Indices: 19643821--19643996 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
19643811 TGGTTGAGCA
19643821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
19643867 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
19643914 TCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
19643960 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19643997 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:19643977 original size:93 final size:93
Alignment explanation
Indices: 19643818--19643988 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
19643808 GGATGGTTGA
* *
19643818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
19643883 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
19643911 GCATCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
19643976 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19643989 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:19653464 original size:24 final size:26
Alignment explanation
Indices: 19653414--19653467 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
19653404 CGAGGCATAT
*
19653414 AATTCATGATAGCAATTAAGCATTTA
1 AATTCATGATAACAATTAAGCATTTA
*
19653440 AATTCAT-ATAAC-ATTAAAGCATTAA
1 AATTCATGATAACAATT-AAGCATTTA
19653465 AAT
1 AAT
19653468 ATGTAACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 15 0.60
26 7 0.28
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTCATGATAACAATTAAGCATTTA
Found at i:19654505 original size:25 final size:25
Alignment explanation
Indices: 19654464--19654524 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
19654454 ATTTTCGAAC
*
19654464 AAAATTTT-CACTAAATCATCTTGT
1 AAAATTTTAGACTAAATCATCTTGT
19654488 AAAATTTTAGACTAAATCATCTTGT
1 AAAATTTTAGACTAAATCATCTTGT
19654513 AAAATTTTAGAC
1 AAAATTTTAGAC
19654525 CATAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 8 0.23
25 27 0.77
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (25 bp):
AAAATTTTAGACTAAATCATCTTGT
Found at i:19659211 original size:46 final size:46
Alignment explanation
Indices: 19659146--19659263 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
19659136 TTATCTTTGA
* * * * *
19659146 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATAT
*
19659192 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
* *
19659238 CAGGTTGCCATGGTATATTTCAACTA
1 CATGTTGCCATGGTATCTTTCAACTA
19659264 GAGCTGATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 4 0.06
46 58 0.94
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
Found at i:19659444 original size:38 final size:38
Alignment explanation
Indices: 19659388--19659471 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
19659378 GTTTAGAAAA
* *
19659388 CGGGCCGGGCCTCGGGTAAGAGTTTTTTTGCCCGGGTC
1 CGGGCCGGGCCTCAGGTAAGAGTTTTTTTGCCCGGGCC
*
19659426 CGGGCCGGGCCTCAGGTAAGAGTTTTTTTGCCTGGGCC
1 CGGGCCGGGCCTCAGGTAAGAGTTTTTTTGCCCGGGCC
*
19659464 CGGCCCGG
1 CGGGCCGG
19659472 CCCGGCCCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.08, C:0.29, G:0.39, T:0.24
Consensus pattern (38 bp):
CGGGCCGGGCCTCAGGTAAGAGTTTTTTTGCCCGGGCC
Found at i:19659524 original size:15 final size:16
Alignment explanation
Indices: 19659504--19659536 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19659494 TATATATTTT
19659504 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
19659519 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
19659536 T
1 T
19659537 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:19659609 original size:21 final size:22
Alignment explanation
Indices: 19659583--19659641 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
19659573 GTTTTAAGAA
*
19659583 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
19659604 TTGTTTTAATATTTGTTTTTA-
1 TTGTTTTAATATTTATTTTTAT
* *
19659625 -TGTTTTAAAATATATTT
1 TTGTTTTAATATTTATTT
19659642 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 14 0.44
21 10 0.31
22 8 0.25
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:19659661 original size:26 final size:24
Alignment explanation
Indices: 19659612--19659661 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
19659602 ATTTGTTTTA
*
19659612 ATATTTGTTTTTATGTTTTAAAAT
1 ATATTTGTTTTTATATTTTAAAAT
*
19659636 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTAAAAT
19659662 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTAAAAT
Found at i:19659926 original size:46 final size:46
Alignment explanation
Indices: 19659859--19659954 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
19659849 ATCACCTCTA
* *
19659859 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATAGTAT
1 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
*
19659905 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATGGTAT
1 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
19659951 CTTT
1 CTTT
19659955 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
Found at i:19661897 original size:30 final size:30
Alignment explanation
Indices: 19661830--19661897 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
19661820 CACCCTTAAA
* * *
19661830 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
19661860 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
19661889 AGTATTTAC
1 A-TATTTAC
19661898 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:19666022 original size:26 final size:24
Alignment explanation
Indices: 19665993--19666075 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
19665983 GCTATGATCG
19665993 GTAAGCTCCT-TCTAAGCTGATGAACA
1 GTAAGCT-CTATC-AAGCTGA-GAACA
* *
19666019 GTAAGCTCTATCGAGCTGAAAACA
1 GTAAGCTCTATCAAGCTGAGAACA
*
19666043 GTAAGCTCTGA-CAAGCTGAGAATA
1 GTAAGCTCT-ATCAAGCTGAGAACA
19666067 GTAAGCTCT
1 GTAAGCTCT
19666076 TACGAGTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 32 0.64
25 9 0.18
26 9 0.18
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (24 bp):
GTAAGCTCTATCAAGCTGAGAACA
Found at i:19666046 original size:24 final size:25
Alignment explanation
Indices: 19666015--19666110 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 25
19666005 TAAGCTGATG
19666015 AACAGTAAGCTCTAT-CGAGCTGAA
1 AACAGTAAGCTCTATACGAGCTGAA
* * *
19666039 AACAGTAAGCTCT-GACAAGCTGAG
1 AACAGTAAGCTCTATACGAGCTGAA
* *
19666063 AATAGTAAGCTCT-TACGAGTTGATA
1 AACAGTAAGCTCTATACGAGCTGA-A
*
19666088 TATCAGTAAGCTC-ATACGAGCTG
1 -AACAGTAAGCTCTATACGAGCTG
19666111 CTGTGGGTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 39 0.68
26 18 0.32
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
AACAGTAAGCTCTATACGAGCTGAA
Found at i:19667550 original size:19 final size:19
Alignment explanation
Indices: 19667526--19667563 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19667516 CTCAATAACA
*
19667526 TAGCTCATTTCATGTACAC
1 TAGCTCATTTCATATACAC
19667545 TAGCTCATTTCATATACAC
1 TAGCTCATTTCATATACAC
19667564 ACCTTTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (19 bp):
TAGCTCATTTCATATACAC
Found at i:19667893 original size:45 final size:43
Alignment explanation
Indices: 19667829--19667948 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 43
19667819 TTGAAGGATC
* *
19667829 TCATAGTGTCTTTCAACCATGGTCCTATTCATTCTCGACTTAATG-
1 TCATAGTGTCTTTCAACCATGGTCTTATT-ATT-T-GACATAATGT
* *
19667874 TCATAGTGTCTTTCAACCATGGTCTTATATATTTTACATCATGT
1 TCATAGTGTCTTTCAACCATGGTCTTAT-TATTTGACATAATGT
19667918 TGCCATAGTGTCTTTCAACCATGGTCTTATT
1 T--CATAGTGTCTTTCAACCATGGTCTTATT
19667949 TGTCTGATTC
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 31 0.46
46 28 0.42
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (43 bp):
TCATAGTGTCTTTCAACCATGGTCTTATTATTTGACATAATGT
Found at i:19671623 original size:42 final size:42
Alignment explanation
Indices: 19671476--19671637 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 42
19671466 TGAGTTATAT
* *
19671476 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCTCACAC
1 GGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
* * * * *
19671518 GGCCTCGGCACACACCCATGTCCTTACCTCTATGGCTCACAC
1 GGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
* ** * *** * * *
19671560 AGTTTAGGCACACGTTGATGTCCTTGCCTGTGTAGCTCAAAT
1 GGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
* *
19671602 GGCCTGGGCACACGCCTATGTCCCTAGCC-GTGTGGC
1 GGCCTGGGCACACGCCCATGT-CCTTGCCTGTGTGGC
19671638 GTCGACAGTC
Statistics
Matches: 89, Mismatches: 30, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
42 83 0.93
43 6 0.07
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.23
Consensus pattern (42 bp):
GGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
Found at i:19672647 original size:26 final size:26
Alignment explanation
Indices: 19672618--19672670 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19672608 AAATAAAAGG
19672618 ATGTCCAGTTCACTAGAAGAAAATCA
1 ATGTCCAGTTCACTAGAAGAAAATCA
19672644 ATGTCCAGTTCACTAGAAGAAAATCA
1 ATGTCCAGTTCACTAGAAGAAAATCA
19672670 A
1 A
19672671 ACTTTCAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (26 bp):
ATGTCCAGTTCACTAGAAGAAAATCA
Found at i:19672938 original size:64 final size:64
Alignment explanation
Indices: 19672865--19673073 Score: 140
Period size: 64 Copynumber: 3.1 Consensus size: 64
19672855 CTGGGCCAGA
*
19672865 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
19672929 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
19672991 ACTGGGCCAGA-
54 A-TGGCCCATAG
19673002 G-CCATTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCA-TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
19673066 GCCCATTT
1 GCCCATTT
19673074 GGAAATACAT
Statistics
Matches: 101, Mismatches: 25, Indels: 38
0.62 0.15 0.23
Matches are distributed among these distances:
63 9 0.09
64 20 0.20
65 8 0.08
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 8 0.08
73 13 0.13
74 9 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:19673039 original size:137 final size:136
Alignment explanation
Indices: 19672831--19673116 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
19672821 CATTGGGCCT
** *
19672831 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
*
19672896 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
19672961 CATATGC
130 CATATGC
19672968 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
**
19673033 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
19673098 ATATGC
131 ATATGC
19673104 AAGCCCATTTGGG
1 AAGCCCATTTGGG
19673117 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 22 0.15
137 121 0.85
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:19674935 original size:26 final size:26
Alignment explanation
Indices: 19674899--19674982 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
19674889 CATGAAATTC
19674899 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19674925 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19674951 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19674977 TTATCA
1 TTATCA
19674983 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19675688 original size:30 final size:31
Alignment explanation
Indices: 19675653--19675711 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
19675643 TTTCGGGATG
19675653 TTACAAT-TTTTTAAAATTT-TAATAATTTTT
1 TTACAATCTTTTT-AAATTTCTAATAATTTTT
*
19675683 TTACAATCTTTTTCAATTTCTAATAATTT
1 TTACAATCTTTTTAAATTTCTAATAATTT
19675712 ATTATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (31 bp):
TTACAATCTTTTTAAATTTCTAATAATTTTT
Found at i:19675753 original size:19 final size:19
Alignment explanation
Indices: 19675691--19675753 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
19675681 TTTTACAATC
* *
19675691 TTTTTCAATTTCTAATAAT
1 TTTTACAATTTCTAATAAA
* * *
19675710 TTATTATAATATGT-ATAATA
1 TT-TTACAATTTCTAATAA-A
19675730 TTTTACAATTTCTAATAAA
1 TTTTACAATTTCTAATAAA
19675749 TTTTA
1 TTTTA
19675754 TATTGTTATA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTACAATTTCTAATAAA
Found at i:19675845 original size:21 final size:21
Alignment explanation
Indices: 19675821--19675862 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19675811 ATATTAATAA
*
19675821 ATTTAGAATTTTTATAATTTT
1 ATTTAGAATTTTTAAAATTTT
* *
19675842 ATTTATATTTTTTAAAATTTT
1 ATTTAGAATTTTTAAAATTTT
19675863 TACAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTAGAATTTTTAAAATTTT
Found at i:19686292 original size:21 final size:21
Alignment explanation
Indices: 19686268--19686309 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19686258 AAAAACAATC
19686268 ATGTTGAAATGGAGTTTCATA
1 ATGTTGAAATGGAGTTTCATA
19686289 ATGTTGAAATGGAGTTTCATA
1 ATGTTGAAATGGAGTTTCATA
19686310 TTTCATCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTTGAAATGGAGTTTCATA
Found at i:19699638 original size:11 final size:11
Alignment explanation
Indices: 19699622--19699646 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19699612 ATATCTAGAA
19699622 TTCTCTTCATT
1 TTCTCTTCATT
19699633 TTCTCTTCATT
1 TTCTCTTCATT
19699644 TTC
1 TTC
19699647 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:19700926 original size:25 final size:25
Alignment explanation
Indices: 19700897--19700948 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
19700887 AAGAATAATT
**
19700897 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
19700922 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
19700947 TG
1 TG
19700949 TTAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:19706376 original size:17 final size:18
Alignment explanation
Indices: 19706338--19706380 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19706328 TGGCCAATAT
19706338 CCCACACGCCCGTGTGGG
1 CCCACACGCCCGTGTGGG
* *
19706356 CCCACATGCCCTTGT-GG
1 CCCACACGCCCGTGTGGG
19706373 CCCACACG
1 CCCACACG
19706381 ACCCAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.14, C:0.47, G:0.26, T:0.14
Consensus pattern (18 bp):
CCCACACGCCCGTGTGGG
Found at i:19710063 original size:30 final size:30
Alignment explanation
Indices: 19710027--19710084 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
19710017 TGGCAAACAT
19710027 TGCCCTGACGTATAGAATTATTATTTAATA
1 TGCCCTGACGTATAGAATTATTATTTAATA
19710057 TGCCCTGACGTATAGAATTATTATTTAA
1 TGCCCTGACGTATAGAATTATTATTTAA
19710085 CATCGCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (30 bp):
TGCCCTGACGTATAGAATTATTATTTAATA
Found at i:19720492 original size:7 final size:7
Alignment explanation
Indices: 19720479--19720511 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
19720469 TAGTTGTTTC
19720479 GTATTTA
1 GTATTTA
*
19720486 ATATTTA
1 GTATTTA
19720493 GTATTTA
1 GTATTTA
19720500 GTATTTA
1 GTATTTA
19720507 GTATT
1 GTATT
19720512 ACCTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:19721390 original size:21 final size:21
Alignment explanation
Indices: 19721329--19721379 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
19721319 CCAACACCCA
*
19721329 CAACCA-AATCCCCTACCGGAG
1 CAACCACAATCCCC-ACTGGAG
*
19721350 GAACCACAATCCCCACTGGAG
1 CAACCACAATCCCCACTGGAG
19721371 CAACCACAA
1 CAACCACAA
19721380 CCCTCGCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.37, C:0.41, G:0.14, T:0.08
Consensus pattern (21 bp):
CAACCACAATCCCCACTGGAG
Found at i:19721712 original size:126 final size:128
Alignment explanation
Indices: 19721494--19721865 Score: 642
Period size: 126 Copynumber: 2.9 Consensus size: 128
19721484 TTGTAGAAAC
19721494 ATTTTTATATAGTTTT-ATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
1 ATTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
*
19721558 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATGTTT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
* *
19721622 ATTTTTATATAGTTTTAATTAATAAAAT-AAA-TTTTTTTTAATATTTTAATTGTACTTTAATTT
1 ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
19721685 TTTTAATTTTATTAAAATAAATATTCTTTTAAATTGGCCAATATTTTTATTATTTTTATATTT
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
19721748 ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
19721813 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
19721866 AAATAAATGT
Statistics
Matches: 229, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
126 118 0.52
127 6 0.03
128 93 0.41
129 12 0.05
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (128 bp):
ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
Found at i:19721894 original size:39 final size:38
Alignment explanation
Indices: 19721819--19721903 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
19721809 CTTTTTTTAA
* * *
19721819 TTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATCAGCCAAT-AT
* *
19721858 TTTTATTAAAATAAATGTTATTTTGAATACAG-CAATAT
1 TTTTAATAAAATAAATGTTATTTTAAAT-CAGCCAATAT
19721896 TTTTAATA
1 TTTTAATA
19721904 TTTTTTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 9 0.23
39 28 0.72
40 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATCAGCCAATAT
Found at i:19721905 original size:9 final size:9
Alignment explanation
Indices: 19721891--19721921 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19721881 TGAATACAGC
19721891 AATATTTTT
1 AATATTTTT
19721900 AATATTTTT
1 AATATTTTT
*
19721909 TATATTTTT
1 AATATTTTT
19721918 AATA
1 AATA
19721922 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:19725185 original size:126 final size:126
Alignment explanation
Indices: 19724955--19725262 Score: 510
Period size: 126 Copynumber: 2.4 Consensus size: 126
19724945 GTCTAAGGCG
* *
19724955 TTTTCAGATACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACA
1 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGACA
*
19725020 GTGCATCATTCTTAAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATT
66 GTGCATCATTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
* * * *
19725081 TTTTCAAATACTACTGTAGCAAAATAGCATCCATGTGGGAGC-TTTTTCCTGTAATTTTACTGAC
1 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCC-GTAATTTTACTGAC
* *
19725145 AGTGCATCATTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
65 AGTGCATCATTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
*
19725207 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATT
1 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
19725263 AATAGTTAAT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
125 7 0.04
126 152 0.92
127 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGACA
GTGCATCATTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
Found at i:19725417 original size:16 final size:16
Alignment explanation
Indices: 19725388--19725425 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
19725378 CTTAAAAAAT
*
19725388 ACTAAAATCCTAAACC
1 ACTAAAAACCTAAACC
19725404 -CTAAAAACCATAAACC
1 ACTAAAAACC-TAAACC
19725420 ACTAAA
1 ACTAAA
19725426 CCGTAACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (16 bp):
ACTAAAAACCTAAACC
Found at i:19725512 original size:174 final size:173
Alignment explanation
Indices: 19725283--19725787 Score: 768
Period size: 174 Copynumber: 2.9 Consensus size: 173
19725273 TTAATTAATA
* *
19725283 AACCCTAAAAAATCCTAAACCCTAATTTAATT-A--TTTTTTAATTTAATAGTTAATTTAATTAA
1 AACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
*
19725345 TTAACCCTCAAGTCTAATTAAATTAATTTTTTCCTTAAAAAATACTAAAATCCTAAACCCTAAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAATACTAAAA-CCTAAACCCTAAAA
* * *
19725410 ACCATAAACCACTAAACCGTAACCTTAAAATAATAAAAAAACCTT
130 ACCATAAACCACTAAACCCTAACCTTAAAACAAT-AAAAAACCCT
* *
19725455 AACCCT-AAAACCCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATGGTTAATTTAATTAA
1 AACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
* *
19725519 TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAGAAAACACTAAAACCATAAACCCTAAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAATACTAAAACC-TAAACCCTAAAA
* ** * *
19725584 ACCCTAAACCACTAAACATTAACTTTAAAACAATCAAAAACCCT
130 ACCATAAACCACTAAACCCTAACCTTAAAACAATAAAAAACCCT
*
19725628 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
1 AACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
*
19725693 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAATACTAAAACCCTAAACCCTAAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAATACTAAAA-CCTAAACCCTAAAA
*
19725758 A-CACTAAACCACTAAACCCTAACCCTAAAA
130 ACCA-TAAACCACTAAACCCTAACCTTAAAA
19725788 AAAGGGTCAA
Statistics
Matches: 301, Mismatches: 25, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
171 23 0.08
172 7 0.02
173 16 0.05
174 253 0.84
175 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (173 bp):
AACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAATACTAAAACCTAAACCCTAAAAA
CCATAAACCACTAAACCCTAACCTTAAAACAATAAAAAACCCT
Found at i:19725586 original size:16 final size:17
Alignment explanation
Indices: 19725561--19725599 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19725551 CCTTAGAAAA
19725561 CACT-AAAACCATAAAC
1 CACTAAAAACCATAAAC
*
19725577 C-CTAAAAACCCTAAAC
1 CACTAAAAACCATAAAC
19725593 CACTAAA
1 CACTAAA
19725600 CATTAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (17 bp):
CACTAAAAACCATAAAC
Found at i:19725752 original size:7 final size:7
Alignment explanation
Indices: 19725740--19725786 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
19725730 AAAAATACTA
19725740 AAACCCT
1 AAACCCT
19725747 AAACCCT
1 AAACCCT
*
19725754 AAAAACACT
1 --AAACCCT
19725763 AAACCACT
1 AAACC-CT
19725771 AAACCCT
1 AAACCCT
19725778 -AACCCT
1 AAACCCT
19725784 AAA
1 AAA
19725787 AAAAGGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 6 0.18
7 15 0.44
8 7 0.21
9 6 0.18
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:19725757 original size:24 final size:24
Alignment explanation
Indices: 19725730--19725779 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
19725720 TTTTCCCTTA
*
19725730 AAAAATACTAAAACC-CTAAACCCT
1 AAAAACACT-AAACCACTAAACCCT
19725754 AAAAACACTAAACCACTAAACCCT
1 AAAAACACTAAACCACTAAACCCT
19725778 AA
1 AA
19725780 CCCTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.14
Consensus pattern (24 bp):
AAAAACACTAAACCACTAAACCCT
Found at i:19725764 original size:16 final size:17
Alignment explanation
Indices: 19725739--19725773 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19725729 AAAAAATACT
*
19725739 AAAACCCTAAACC-CTA
1 AAAACACTAAACCACTA
19725755 AAAACACTAAACCACTA
1 AAAACACTAAACCACTA
19725772 AA
1 AA
19725774 CCCTAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.57, C:0.31, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAACACTAAACCACTA
Found at i:19726856 original size:22 final size:23
Alignment explanation
Indices: 19726817--19726898 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 23
19726807 CACTATTAAA
*
19726817 CAGAGAGTACTGAA-GTGCTATA-
1 CAGAGAGCACT-AATGTGCTATAG
19726839 CAGAGAGCA-TAGATGTGCTA-AG
1 CAGAGAGCACTA-ATGTGCTATAG
* *
19726861 CGGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCT-AT-AG
19726886 CAGAGAGCACTAA
1 CAGAGAGCACTAA
19726899 CGTACTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 29 0.59
23 3 0.06
25 13 0.27
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (23 bp):
CAGAGAGCACTAATGTGCTATAG
Found at i:19726896 original size:25 final size:25
Alignment explanation
Indices: 19726863--19726914 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
19726853 GTGCTAAGCG
* *
19726863 GAGAGCACTAATGTGCTAATAATCA
1 GAGAGCACTAACGTACTAATAATCA
19726888 GAGAGCACTAACGTACTAATAATCA
1 GAGAGCACTAACGTACTAATAATCA
19726913 GA
1 GA
19726915 TAGCGCGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (25 bp):
GAGAGCACTAACGTACTAATAATCA
Found at i:19727834 original size:169 final size:170
Alignment explanation
Indices: 19727539--19727845 Score: 413
Period size: 169 Copynumber: 1.8 Consensus size: 170
19727529 TATCTTTAAT
* * * *
19727539 CAAATCATGAACCTTTGGTTCAAGCTTTCAATCACATATCTCAATTTCAATTCACATTTCAATTC
1 CAAATCATGAACCTTAGGTTCAAGCTTTCAATCACACATCTCAATTTCAATTCACAATTCAACTC
* * *
19727604 ATAATTCCACTTTTTCATACTTTCAATAGTTCAATCGATCAAATTCATTCAATTTTCTCATTTCA
66 ATAATT-CACTTTCTCATACTTTCAATAGTACAATCAATCAAATTCATTCAATTTTCTCATTTCA
*
19727669 TTTATTCAACTGATTTCAATATCAACAATTTGATATTTTAG
130 GTTATTCAACTGATTTCAATATCAACAATTTGATATTTTAG
* * *
19727710 CAAATTCATGAACCTTAGGTTTATGC-TTCAAATCTCACATCTCAA-TTCAATTCACAATTCAAC
1 CAAA-TCATGAACCTTAGGTTCAAGCTTTC-AATCACACATCTCAATTTCAATTCACAATTCAAC
* * * * * *
19727773 TCATAATT-TCTTTCTCATATTTTTAATAGTACGATCAATCAAATTTATTTAATTTTCTCATTTC
64 TCATAATTCACTTTCTCATACTTTCAATAGTACAATCAATCAAATTCATTCAATTTTCTCATTTC
19727837 AGTTATTCA
129 AGTTATTCA
19727846 CCCTATTAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
169 55 0.47
171 31 0.26
172 31 0.26
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.42
Consensus pattern (170 bp):
CAAATCATGAACCTTAGGTTCAAGCTTTCAATCACACATCTCAATTTCAATTCACAATTCAACTC
ATAATTCACTTTCTCATACTTTCAATAGTACAATCAATCAAATTCATTCAATTTTCTCATTTCAG
TTATTCAACTGATTTCAATATCAACAATTTGATATTTTAG
Found at i:19727992 original size:21 final size:21
Alignment explanation
Indices: 19727959--19728029 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
19727949 GGACACATAA
* *
19727959 GTGCATGAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
19727980 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
* *
19728001 ATGCTTGAAATACGACACACGAG
1 GTGCCTG--ATACGACACACGAG
19728024 GTGCCT
1 GTGCCT
19728030 AAAATATGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 24 0.57
23 18 0.43
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.15
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:19728013 original size:23 final size:23
Alignment explanation
Indices: 19727968--19728042 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
19727958 AGTGCATGAA
19727968 ACGACACACGAGGTGCCTG--AT
1 ACGACACACGAGGTGCCTGAAAT
* *
19727989 ACGACACACGAGATGCTTGAAAT
1 ACGACACACGAGGTGCCTGAAAT
*
19728012 ACGACACACGAGGTGCCTAAAAT
1 ACGACACACGAGGTGCCTGAAAT
*
19728035 ATGACACA
1 ACGACACA
19728043 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.37
23 29 0.63
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (23 bp):
ACGACACACGAGGTGCCTGAAAT
Found at i:19734603 original size:25 final size:25
Alignment explanation
Indices: 19734575--19734644 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
19734565 TTTTTAATTC
19734575 TCTTAACAATAATTGTAAAAGAAAA
1 TCTTAACAATAATTGTAAAAGAAAA
* *
19734600 TCTTAAACTAA-AAAT-TAATAGAAAA
1 TCTT-AAC-AATAATTGTAAAAGAAAA
*
19734625 TCTATAAAAATAATTG-AAAA
1 TCT-TAACAATAATTGTAAAA
19734645 TTCATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
24 2 0.06
25 24 0.69
26 7 0.20
27 2 0.06
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.29
Consensus pattern (25 bp):
TCTTAACAATAATTGTAAAAGAAAA
Found at i:19734957 original size:18 final size:18
Alignment explanation
Indices: 19734911--19734961 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19734901 AGCTCTCAGG
19734911 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
19734929 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
19734947 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
19734962 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:19737794 original size:20 final size:20
Alignment explanation
Indices: 19737756--19737795 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19737746 AATATTTTCC
* *
19737756 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
19737776 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19737796 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19737810 original size:34 final size:35
Alignment explanation
Indices: 19737744--19737810 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
19737734 CAAACACCAG
* *
19737744 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
19737779 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19737811 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19738029 original size:15 final size:15
Alignment explanation
Indices: 19737990--19738042 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
19737980 GAACATTTGG
19737990 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
19738007 AACTTTTATTAATAAAA
1 AA--TTTATTAATAAAA
*
19738024 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
19738040 AAT
1 AAT
19738043 CATTGCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 10 0.31
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:19738116 original size:22 final size:20
Alignment explanation
Indices: 19738073--19738111 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19738063 TAATTTAAAA
19738073 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
19738093 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
19738112 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:19738235 original size:20 final size:20
Alignment explanation
Indices: 19738210--19738249 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19738200 AATATTTTCC
*
19738210 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
19738230 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19738250 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19738255 original size:34 final size:35
Alignment explanation
Indices: 19738198--19738264 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
19738188 CAAACACTAG
*
19738198 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
19738233 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19738265 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19738256 original size:14 final size:14
Alignment explanation
Indices: 19738233--19738272 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19738223 ACAGAAAAGT
*
19738233 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
19738247 AAATCATTTTACGG
1 AAAACATTTTACAG
19738261 AAAACATTTTAC
1 AAAACATTTTAC
19738273 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:19741870 original size:47 final size:47
Alignment explanation
Indices: 19741806--19741916 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
19741796 GACATTGAGT
*
19741806 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
19741853 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
19741900 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
19741917 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:19776452 original size:17 final size:17
Alignment explanation
Indices: 19776426--19776459 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19776416 TATATAATTG
*
19776426 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
19776443 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
19776460 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:19777624 original size:24 final size:24
Alignment explanation
Indices: 19777592--19777747 Score: 192
Period size: 24 Copynumber: 6.5 Consensus size: 24
19777582 GAAATGACAT
19777592 TGGCACTATGTGTGCGGATTTAAA
1 TGGCACTATGTGTGCGGATTTAAA
* *
19777616 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGGATTTAAA
*
19777640 TGGCACTATGTGTGCAGATTTAAA
1 TGGCACTATGTGTGCGGATTTAAA
* *
19777664 TAGCACTATGTGTGC-GATTTGAA
1 TGGCACTATGTGTGCGGATTTAAA
* **
19777687 TGGCACTATGTGTGCAGATTTGGA
1 TGGCACTATGTGTGCGGATTTAAA
*
19777711 TGGCACTACGTGTGCGGA-TTAGCAA
1 TGGCACTATGTGTGCGGATTTA--AA
19777736 -GGCACTATGTGT
1 TGGCACTATGTGT
19777748 ACGGGTTAGC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
23 23 0.20
24 91 0.79
25 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTAAA
Found at i:19777648 original size:48 final size:47
Alignment explanation
Indices: 19777592--19777747 Score: 224
Period size: 48 Copynumber: 3.3 Consensus size: 47
19777582 GAAATGACAT
*
19777592 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCG-ATTTGAA
*
19777640 TGGCACTATGTGTGCAGATTTAAATAGCACTATGTGTGCGATTTGAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGATTTGAA
** * *
19777687 TGGCACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGGATTAGCAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGC-GATTTG-AA
19777736 -GGCACTATGTGT
1 TGGCACTATGTGT
19777748 ACGGGTTAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 42 0.42
48 55 0.56
49 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (47 bp):
TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGATTTGAA
Found at i:19777714 original size:71 final size:72
Alignment explanation
Indices: 19777594--19777730 Score: 215
Period size: 71 Copynumber: 1.9 Consensus size: 72
19777584 AATGACATTG
*
19777594 GCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCAGAT
1 GCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTACGTGTGCAGAT
19777659 TTAAATA
66 TTAAATA
* * *
19777666 GCACTATGTGTGC-GATTTGAATGGCACTATGTGTGC-AGATTTGGATGGCACTACGTGTGCGGA
1 GCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGA-ATTTGAATGGCACTACGTGTGCAGA
19777729 TT
65 TT
19777731 AGCAAGGCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 1 0.02
71 46 0.77
72 13 0.22
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (72 bp):
GCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTACGTGTGCAGAT
TTAAATA
Found at i:19777741 original size:71 final size:72
Alignment explanation
Indices: 19777592--19777747 Score: 212
Period size: 71 Copynumber: 2.2 Consensus size: 72
19777582 GAAATGACAT
*
19777592 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCAG
1 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTACGTGTGCAG
19777657 ATTTAAA
66 ATTTAAA
* * * *
19777664 TAGCACTATGTGTGC-GATTTGAATGGCACTATGTGTGC-AGATTTGGATGGCACTACGTGTGCG
1 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGA-ATTTGAATGGCACTACGTGTGCA
19777727 GA-TTAGCAA
65 GATTTA--AA
19777736 -GGCACTATGTGT
1 TGGCACTATGTGT
19777748 ACGGGTTAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
70 4 0.05
71 55 0.73
72 16 0.21
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (72 bp):
TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTACGTGTGCAG
ATTTAAA
Found at i:19777756 original size:24 final size:24
Alignment explanation
Indices: 19777593--19777772 Score: 86
Period size: 24 Copynumber: 7.5 Consensus size: 24
19777583 AAATGACATT
*
19777593 GGCACTATGTGTGCGGATTTA--AA
1 GGCACTATGTGTACGGA-TTAGCAA
* * *
19777616 TGGCACTATGTGTGCGAATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* *
19777640 TGGCACTATGTGTGCAGATTTA--AA
1 -GGCACTATGTGTACGGA-TTAGCAA
* * *
19777664 TAGCACTATGTGTGC-GATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* * * * *
19777687 TGGCACTATGTGTGCAGATTTGGAT
1 -GGCACTATGTGTACGGATTAGCAA
* *
19777712 GGCACTACGTGTGCGGATTAGCAA
1 GGCACTATGTGTACGGATTAGCAA
* *
19777736 GGCACTATGTGTACGGGTTAGCAT
1 GGCACTATGTGTACGGATTAGCAA
*
19777760 GGCAATATGTGTA
1 GGCACTATGTGTA
19777773 TGAATTTCTT
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.02
23 20 0.15
24 107 0.81
25 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (24 bp):
GGCACTATGTGTACGGATTAGCAA
Found at i:19777769 original size:95 final size:95
Alignment explanation
Indices: 19777592--19777771 Score: 220
Period size: 95 Copynumber: 1.9 Consensus size: 95
19777582 GAAATGACAT
* * * *
19777592 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCAG
1 TGGCACTATGTGTGCAGATTTAAATGGCACTACGTGTGCGAATTAGAATGGCACTATGTGTACAG
* *
19777657 ATTTAAATAGCACTATGTGTGCGATTTGAA
66 AGTTAAATAGCAATATGTGTGCGATTTGAA
** *
19777687 TGGCACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGGATTAGCAA-GGCACTATGTGTAC-
1 TGGCACTATGTGTGCAGATTTAAATGGCACTACGTGTGCGAATTAG-AATGGCACTATGTGTACA
* * *
19777750 GGGTTAGCATGGCAATATGTGT
65 GAGTTA-AATAGCAATATGTGT
19777772 ATGAATTTCT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
94 4 0.06
95 65 0.92
96 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (95 bp):
TGGCACTATGTGTGCAGATTTAAATGGCACTACGTGTGCGAATTAGAATGGCACTATGTGTACAG
AGTTAAATAGCAATATGTGTGCGATTTGAA
Found at i:19781373 original size:17 final size:18
Alignment explanation
Indices: 19781347--19781380 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19781337 TTTTTGTTTA
19781347 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
19781364 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
19781381 ATATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:19781389 original size:23 final size:23
Alignment explanation
Indices: 19781362--19781412 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
19781352 ATTAATAGCA
19781362 TTAATAATTTAATATGCATATAT
1 TTAATAATTTAATATGCATATAT
19781385 TTAATAATTTAATATGCATATAT
1 TTAATAATTTAATATGCATATAT
19781408 TTAAT
1 TTAAT
19781413 TATTAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAATAATTTAATATGCATATAT
Found at i:19786154 original size:19 final size:19
Alignment explanation
Indices: 19786123--19786168 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
19786113 GGTATAGAGC
*
19786123 ACACGCCCGTGTGCTAGGG
1 ACACGCCCATGTGCTAGGG
*
19786142 ACATGCCCATGTGCTAGGG
1 ACACGCCCATGTGCTAGGG
19786161 ACACGCCC
1 ACACGCCC
19786169 GTGTCCTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (19 bp):
ACACGCCCATGTGCTAGGG
Found at i:19788195 original size:46 final size:46
Alignment explanation
Indices: 19788000--19788409 Score: 278
Period size: 46 Copynumber: 8.7 Consensus size: 46
19787990 AGGGTATAAT
* * * ** *
19788000 GCCGATGCCATGTCTCAGACATAGTCTTACACTGACTATCGAAGTTGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGAG
* * * *
19788049 GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCT-CG-AG
** * * *
19788100 -TTGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AG
*
19788145 GCCGATGAATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * * * *
19788191 GCCGATGCATGTCCCAGACATGTCTTACAATAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* * *
19788237 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAG
* * * * *
19788285 GTCGATGCATGTCCCAGACTTGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* * * * *
19788331 GTCGATACCATGTCTCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAG
*
19788379 GCCAATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
19788410 AGCACACACA
Statistics
Matches: 288, Mismatches: 56, Indels: 37
0.76 0.15 0.10
Matches are distributed among these distances:
44 10 0.03
45 19 0.07
46 93 0.32
47 53 0.18
48 44 0.15
49 35 0.12
50 31 0.11
51 2 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:19788264 original size:94 final size:94
Alignment explanation
Indices: 19788056--19788412 Score: 390
Period size: 94 Copynumber: 3.8 Consensus size: 94
19788046 GAGGCTGACG
* * *** *
19788056 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-ATTGATGCCATGTCCTAGACA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATG-CATGTCCCAGACA
* * *
19788120 TGGTCTTACACT-G-ACACATCTC-GTAGCCGATGA
62 T-GTCTTACACTAGCTCTCATCTCAATA-CCGAT-A
* *
19788153 --ATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACATG
* * *
19788213 TCTTACAATAGCTCTCGTCTCAATACCGATG
64 TCTTACACTAGCTCTCATCTCAATACCGATA
* *
19788244 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGACTTGTC
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
**
19788309 TTACACTAGCTCTCATCTCAATGTCGATA
66 TTACACTAGCTCTCATCTCAATACCGATA
* *
19788338 CCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGACATGTC
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
19788403 TTACACTAGC
66 TTACACTAGC
19788413 ACACACACAT
Statistics
Matches: 223, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
90 9 0.04
91 16 0.07
92 16 0.07
93 16 0.07
94 151 0.68
95 15 0.07
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (94 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTCAATACCGATA
Found at i:19788301 original size:140 final size:140
Alignment explanation
Indices: 19788056--19788373 Score: 356
Period size: 140 Copynumber: 2.3 Consensus size: 140
19788046 GAGGCTGACG
** ** *
19788056 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTATTGATGCCATGTCCTAGACAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCT--CATATCAATACCGATGCCATGTCCCAGACAT
*
19788121 GGTCTTACACTGACACATCTCGTAGCCGATGAATGTCCCAGACATGTCTTACACTGGCT-TACAT
64 GGTCTTACACTGACACATCTCGTAGCCGATGAATGTCCCAGACATGTCTTACACTAGCTCT-CAT
*
19788185 CTCGAGGCCGAT-
128 CTCAAGGCCGATA
* * * *
19788197 GCATGTCCCAGACAT-GTCTTACAATAGCTCTCGTCTCAATACCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTCCCAGACATGG
* * * * * * *
19788261 TCTTACACTGGCTC-TCATAATGTGGTCGATGCATGTCCCAGACTTGTCTTACACTAGCTCTCAT
66 TCTTACACTGACACATC-T--CGTAGCCGATGAATGTCCCAGACATGTCTTACACTAGCTCTCAT
* *
19788325 CTCAATGTCGATA
128 CTCAAGGCCGATA
* *
19788338 CCATGTCTCAGACATGGTCTTACACTGGCTCTCATA
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
19788374 ATGTGGCCAA
Statistics
Matches: 145, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
137 2 0.01
138 39 0.27
140 60 0.41
141 28 0.19
142 16 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (140 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTCCCAGACATGG
TCTTACACTGACACATCTCGTAGCCGATGAATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
AAGGCCGATA
Found at i:19788389 original size:188 final size:187
Alignment explanation
Indices: 19788055--19788412 Score: 435
Period size: 188 Copynumber: 1.9 Consensus size: 187
19788045 TGAGGCTGAC
* *
19788055 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTATTGATGCCATGTCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-CGTATCGATGCCATGTCCCAGACA
*
19788120 TGGTCTTACACTGACACATCTCGTAGCCGATGAATGTCCCAGACATGTCTTACACTGGCTTACAT
65 TGGTCTTACACTGACACATCTCATAGCCGATGAATGTCCCAGACATGTCTTACACTGGCTTACAT
* *
19788185 CTCGAGGCCGATGCATGTCCCAGACATGTCTTACAATAGCTCTCGTCTCAATACCGAT
130 ATCGAGGCCAATGCATGTCCCAGACATGTCTTACAATAGCTCTCGTCTCAATACCGAT
* * *
19788243 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGTCGATG-CATGTCCCAGAC-
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCGT-ATCGATGCCATGTCCCAGACA
* * * * *
19788304 TTGTCTTACACTAGCTCTCATCTCA-ATGTCGAT-ACCATGTCTCAGACATGGTCTTACACTGGC
65 TGGTCTTACACT-G-ACACATCTCATA-GCCGATGA--ATGTCCCAGACAT-GTCTTACACTGGC
* *
19788367 TCT-CATAAT-GTGGCCAATGCATGTCCCAGACATGTCTTACACTAGC
124 T-TACAT-ATCGAGGCCAATGCATGTCCCAGACATGTCTTACAATAGC
19788413 ACACACACAT
Statistics
Matches: 146, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
184 11 0.08
185 16 0.11
186 17 0.12
187 14 0.10
188 86 0.59
189 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (187 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCGTATCGATGCCATGTCCCAGACAT
GGTCTTACACTGACACATCTCATAGCCGATGAATGTCCCAGACATGTCTTACACTGGCTTACATA
TCGAGGCCAATGCATGTCCCAGACATGTCTTACAATAGCTCTCGTCTCAATACCGAT
Found at i:19797847 original size:7 final size:7
Alignment explanation
Indices: 19797835--19797869 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
19797825 ATAAAATAAT
19797835 ATTTTTA
1 ATTTTTA
19797842 ATTTTTA
1 ATTTTTA
19797849 ATTTTTA
1 ATTTTTA
19797856 ATTTTTA
1 ATTTTTA
19797863 ATTTTTA
1 ATTTTTA
19797870 TATATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:19798409 original size:131 final size:130
Alignment explanation
Indices: 19798103--19798499 Score: 392
Period size: 131 Copynumber: 3.0 Consensus size: 130
19798093 TGAAATTCAT
* * * *
19798103 GTTCGATTCCTTTCTTACTCACATTTGCATTTTTTATTTCAT-ATGCTTTAAGCTTTTTAAAATT
1 GTTCGATTCTTTTC-TACTCACATTTGTATTTTTTATTTCATGTTGCTTTAA-CTTTTTTAAATT
* * *
19798167 TTAATT-A-ATTTTTTATCATATTAGTTCTTTGGTTAGATAGTTAGATAATTGTAATTACATATT
64 TTAATTAATATTTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAATTGTAATTAC-----
19798230 TAAGTCTCAA
124 --A-TCTCAA
* * * * *
19798240 GGTT-GATTTCTCTCCTACTCATATGTGTATTTTTTATTTCATGTTACTTTAACTTTTTTAAATT
1 -GTTCGA-TTCTTTTCTACTCACATTTGTATTTTTTATTTCATGTTGCTTTAACTTTTTTAAATT
* * * *
19798304 TTGAATTAATATTTTTTAACATTTTAGTT-TTTCCTTAGATGGTTAAATAGTTGTAATTACATCT
64 TT-AATTAATATTTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAATTGTAATTACATCT
19798368 CAA
128 CAA
* * * * *
19798371 GTTCGATTCTTTTACTAATCACATTTGTATTTTTTATTTTATGTTGCTTTAATTATTTTTTTATT
1 GTTCGATTCTTTT-CTACTCACATTTGTATTTTTTATTTCATGTTGCTTTAA--CTTTTTTAAAT
* *
19798436 TTTAATTAATA-TTTTTAACATATTAATTCATTTCGTTAGATGGTTAGATAATTGTGATTACATC
63 TTTAATTAATATTTTTTAACATATTAGTTC-TTTCGTTAGATGGTTAGATAATTGTAATTACATC
19798500 CTTAAGACTA
Statistics
Matches: 216, Mismatches: 32, Indels: 27
0.79 0.12 0.10
Matches are distributed among these distances:
130 8 0.04
131 56 0.26
132 9 0.04
133 41 0.19
137 39 0.18
138 19 0.09
139 27 0.12
140 17 0.08
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.53
Consensus pattern (130 bp):
GTTCGATTCTTTTCTACTCACATTTGTATTTTTTATTTCATGTTGCTTTAACTTTTTTAAATTTT
AATTAATATTTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAATTGTAATTACATCTCAA
Found at i:19815995 original size:12 final size:12
Alignment explanation
Indices: 19815978--19816026 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
19815968 TTTTTTAATA
19815978 AAATTTAATATT
1 AAATTTAATATT
*
19815990 AAATTTAAT-CT
1 AAATTTAATATT
19816001 AATATTT-ATATT
1 AA-ATTTAATATT
19816013 -AATTTAATATT
1 AAATTTAATATT
19816024 AAA
1 AAA
19816027 GTGATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 4 0.13
11 11 0.35
12 16 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATTTAATATT
Found at i:19816005 original size:17 final size:18
Alignment explanation
Indices: 19815983--19816026 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
19815973 TAATAAAATT
19815983 TAATATTAAAT-TTAATC
1 TAATATTAAATATTAATC
* *
19816000 TAATATT-TATATTAATT
1 TAATATTAAATATTAATC
19816017 TAATATTAAA
1 TAATATTAAA
19816027 GTGATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTAAATATTAATC
Found at i:19827854 original size:8 final size:9
Alignment explanation
Indices: 19827831--19827856 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19827821 AGGAGTTAAG
19827831 ACAAAAATA
1 ACAAAAATA
19827840 ACAAAAATA
1 ACAAAAATA
19827849 ACAAAAAT
1 ACAAAAAT
19827857 TCAAAGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
ACAAAAATA
Found at i:19831228 original size:25 final size:25
Alignment explanation
Indices: 19831194--19831252 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
19831184 GGCAAACAAA
**
19831194 ATCACAACAC-AGATCGGAGGAATTT
1 ATCA-AACACTAGATCAAAGGAATTT
*
19831219 ATCATAACACTGGATCAAAGGAATTT
1 ATCA-AACACTAGATCAAAGGAATTT
19831245 ATCAAACA
1 ATCAAACA
19831253 AAATCCAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (25 bp):
ATCAAACACTAGATCAAAGGAATTT
Found at i:19840768 original size:16 final size:16
Alignment explanation
Indices: 19840746--19840814 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
19840736 TTTGGTTCGC
19840746 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
19840762 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19840778 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
19840795 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19840811 TGTA
1 TGTA
19840815 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:19840792 original size:33 final size:32
Alignment explanation
Indices: 19840746--19840814 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
19840736 TTTGGTTCGC
19840746 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
19840778 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
19840811 TGTA
1 TGTA
19840815 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:19840879 original size:44 final size:45
Alignment explanation
Indices: 19840795--19840885 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
19840785 GGATTAGAGG
* * *
19840795 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
19840840 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
19840884 TG
1 TG
19840886 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:19841172 original size:121 final size:121
Alignment explanation
Indices: 19841033--19842856 Score: 3238
Period size: 121 Copynumber: 15.2 Consensus size: 121
19841023 ATCATATTTA
19841033 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841098 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841154 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841219 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841275 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841340 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841396 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841461 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841517 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841582 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841638 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841703 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841759 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841824 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19841880 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19841945 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19842001 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
19842066 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
19842122 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA--AAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
19842183 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
** *
19842240 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAAAAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
19842302 AAT-TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * * *
19842358 AACATAATTATTATTAAATGTATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
19842420 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
19842477 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
19842539 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
19842596 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
19842658 AATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * * *
19842715 AACATAATTATTATTAAATGTATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
19842777 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
19842834 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
19842857 AACTTGAAAA
Statistics
Matches: 1685, Mismatches: 13, Indels: 12
0.99 0.01 0.01
Matches are distributed among these distances:
117 15 0.01
118 189 0.11
119 468 0.28
121 1013 0.60
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:19845915 original size:33 final size:33
Alignment explanation
Indices: 19845876--19845951 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
19845866 ATTATAAAGC
*
19845876 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
19845909 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
19845942 ATGTATAATT
1 ATGTATAATT
19845952 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:19846027 original size:37 final size:37
Alignment explanation
Indices: 19845986--19846067 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
19845976 TTTGTTAAGT
* * *
19845986 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
19846023 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
19846060 ATTGATTA
1 ATTGATTA
19846068 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:19856733 original size:33 final size:33
Alignment explanation
Indices: 19856695--19856793 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
19856685 AACTGAGTGG
*
19856695 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
19856728 GAGTGTTTTGCTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
19856761 GGGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
19856794 CAAGAAGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.17, C:0.10, G:0.41, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:19859137 original size:189 final size:189
Alignment explanation
Indices: 19858817--19859194 Score: 729
Period size: 189 Copynumber: 2.0 Consensus size: 189
19858807 GTAGATGAAA
*
19858817 TCTTAGTCTTTATTTCATAGATTTGAGCAGCATCTCGAACTTTAGAATAAGTCTGTTTCACAGCT
1 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTCGAACTTTAGAATAAGTCTGTTTCACAGCT
*
19858882 TCCCATATTTCTTTGGATGTGTTAAGAAATATGCATGTATCACTGATTTATGGCATCATAGAGTT
66 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
19858947 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
131 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
19859006 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTCGAACTTTAGAATAAGTCTGTTTCACAGCT
1 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTCGAACTTTAGAATAAGTCTGTTTCACAGCT
*
19859071 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCATTGATTTATGGCATCATAGAGTT
66 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
19859136 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
131 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
19859195 CTTCTTTAGG
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
189 186 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (189 bp):
TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTCGAACTTTAGAATAAGTCTGTTTCACAGCT
TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
Found at i:19862500 original size:43 final size:43
Alignment explanation
Indices: 19862418--19862519 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 43
19862408 CAATGTGTTT
*
19862418 GCAAAACTGAGAAGATATAAGAAAAGGAAAACCTGTAGATG-C
1 GCAAAACTGAGAAGATATAAGAAAAGGAAAACCTATAGATGTC
* *
19862460 GCAAAACTGAGATGATAATAAGAACAA-GAAAACAC-ATAGATGTTT
1 GCAAAACTGAGAAGAT-ATAAGAA-AAGGAAAAC-CTATAGATG-TC
19862505 GCAAAACTGAGAAGA
1 GCAAAACTGAGAAGA
19862520 ACATATTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
42 15 0.29
43 19 0.37
44 3 0.06
45 14 0.27
ACGTcount: A:0.51, C:0.12, G:0.22, T:0.16
Consensus pattern (43 bp):
GCAAAACTGAGAAGATATAAGAAAAGGAAAACCTATAGATGTC
Found at i:19863632 original size:97 final size:97
Alignment explanation
Indices: 19863466--19863657 Score: 375
Period size: 97 Copynumber: 2.0 Consensus size: 97
19863456 ACATCAAGAA
*
19863466 TGTTTCTCATAGTAATGATCTAGAGGAGCCAATAAGCATTACTGGTCTTGAGACATTTTCCTTGA
1 TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACTGGTCTTGAGACATTTTCCTTGA
19863531 GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTT
66 GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTT
19863563 TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACTGGTCTTGAGACATTTTCCTTGA
1 TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACTGGTCTTGAGACATTTTCCTTGA
19863628 GCTATAAGGTGGGCTTTTTTTTTTTTTTTT
66 GCTATAAGGTGGGCTTTTTTTTTTTTTTTT
19863658 GTAGTTACTG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (97 bp):
TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACTGGTCTTGAGACATTTTCCTTGA
GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTT
Found at i:19864338 original size:129 final size:129
Alignment explanation
Indices: 19864108--19864365 Score: 419
Period size: 129 Copynumber: 2.0 Consensus size: 129
19864098 AGGGGCCCTC
* *
19864108 AATTCAAGTCAAATATAAACAGTTAAATTAAAATAAAAACAAGAGTCTAAGTGTCTGTTCACTGA
1 AATTCAAGTCAAATATAAACAGTTAAATTAAAATAAAAACAACAGTCTAAGTGCCTGTTCACTGA
* ** * *
19864173 ATGGCTTCAGTGTTTTGGGAATTCATTCTCTTCTCA-TTCTCCCAACGCTAGAGTCATGCAACA
66 ATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
**
19864236 AATTCAAGTCAAATATAAACAGTTAAATTAAAATAGAAAACAACAGTCTAAGTGCCTGTTCTGTG
1 AATTCAAGTCAAATATAAACAGTTAAATTAAAATA-AAAACAACAGTCTAAGTGCCTGTTCACTG
19864301 AATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
65 AATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
19864366 GATGAGGCCT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 35 0.29
129 59 0.50
130 25 0.21
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (129 bp):
AATTCAAGTCAAATATAAACAGTTAAATTAAAATAAAAACAACAGTCTAAGTGCCTGTTCACTGA
ATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
Found at i:19867233 original size:28 final size:28
Alignment explanation
Indices: 19867194--19867288 Score: 77
Period size: 28 Copynumber: 3.3 Consensus size: 28
19867184 TTTATTTCTT
19867194 TTAAAATATTATAAATTTGTAAAAAATTA
1 TTAAAA-ATTATAAATTTGTAAAAAATTA
* *
19867223 TTAAAAATTATAAA-ATGTTAAATAAAAT-
1 TTAAAAATTATAAATTTG-TAAA-AAATTA
* * * * *
19867251 TTAAAAATAAAAAATTTATTAAAAATCA
1 TTAAAAATTATAAATTTGTAAAAAATTA
19867279 TTCAAAAATT
1 TT-AAAAATT
19867289 TAATTTTAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 5 0.10
28 29 0.57
29 17 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
TTAAAAATTATAAATTTGTAAAAAATTA
Found at i:19868127 original size:10 final size:10
Alignment explanation
Indices: 19868112--19868139 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
19868102 AGTGCGATTC
19868112 ATTATTTTAT
1 ATTATTTTAT
19868122 ATTATTTTAT
1 ATTATTTTAT
19868132 ATTATTTT
1 ATTATTTT
19868140 TTAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTATTTTAT
Found at i:19868265 original size:27 final size:27
Alignment explanation
Indices: 19868235--19868339 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 27
19868225 GACTAATCGA
* * *
19868235 GCCTTTCTCTGAGGCGCAAATGATTGT
1 GCCTATCTCAGAGGCGCAAATGGTTGT
19868262 GCCTATCTCAGAGGCGCAAATGGTTGT
1 GCCTATCTCAGAGGCGCAAATGGTTGT
19868289 GCCTATCTCAGAGGCGCAAATGGTTGT
1 GCCTATCTCAGAGGCGCAAATGGTTGT
* * *
19868316 GCCTATCCCAAAGGTGCAAATGGT
1 GCCTATCTCAGAGGCGCAAATGGT
19868340 GGGGCCCACA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (27 bp):
GCCTATCTCAGAGGCGCAAATGGTTGT
Found at i:19873444 original size:24 final size:24
Alignment explanation
Indices: 19873397--19873450 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
19873387 ATATATTTTT
19873397 AAATATTTTTAATAAAAATAAAAAA
1 AAAT-TTTTTAATAAAAATAAAAAA
* *
19873422 TAATTTTTTATTAAAAA-ACAAAAA
1 AAATTTTTTAATAAAAATA-AAAAA
19873446 AAATT
1 AAATT
19873451 AATATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.84
25 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATTTTTTAATAAAAATAAAAAA
Found at i:19873798 original size:31 final size:31
Alignment explanation
Indices: 19873760--19873818 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
19873750 ATTAAATATT
19873760 TTTAATACAGGTAACACAATATGATTGGCTC
1 TTTAATACAGGTAACACAATATGATTGGCTC
* ** *
19873791 TTTAATACATGTGGCATAATATGATTGG
1 TTTAATACAGGTAACACAATATGATTGG
19873819 TTGACATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (31 bp):
TTTAATACAGGTAACACAATATGATTGGCTC
Found at i:19874752 original size:20 final size:20
Alignment explanation
Indices: 19874723--19874764 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19874713 GAAAGAAAGG
19874723 AAAGAAAGAAAAGAAAAGAA
1 AAAGAAAGAAAAGAAAAGAA
* *
19874743 AAAGAGAGAAAAGAAAATAA
1 AAAGAAAGAAAAGAAAAGAA
19874763 AA
1 AA
19874765 GTTTTCATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAGAAAAGAA
Found at i:19878511 original size:45 final size:44
Alignment explanation
Indices: 19878453--19878571 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 44
19878443 AGACATCATG
*
19878453 ATAAAGATGAGTAAGACCATAACTGAAAGATGTTATGGCATCACC
1 ATAAAGATGAGTAAGACCATAACTGAAAGATGCTATGGCATCA-C
* *
19878498 ATAAAGATCAGTAAGACCATAGAC-GAAACG-TGCTATGGCATCAT
1 ATAAAGATGAGTAAGACCATA-ACTGAAA-GATGCTATGGCATCAC
**
19878542 ATATAA-ATGAGTAAGACCATGGCTGAAAGA
1 ATA-AAGATGAGTAAGACCATAACTGAAAGA
19878572 CACTATGGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
43 2 0.03
44 20 0.32
45 38 0.60
46 3 0.05
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (44 bp):
ATAAAGATGAGTAAGACCATAACTGAAAGATGCTATGGCATCAC
Found at i:19878743 original size:27 final size:27
Alignment explanation
Indices: 19878713--19878783 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
19878703 ACAGTTCGCA
* *
19878713 GGGACATTAAACACGGGACAGTCTGAT
1 GGGACACTAAACACGGGACAGTCCGAT
** *
19878740 GGGACACTAAACATC-GGATGGTCCGCT
1 GGGACACTAAACA-CGGGACAGTCCGAT
*
19878767 GGGACAGTAAACACGGG
1 GGGACACTAAACACGGG
19878784 GTTATATTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.32, T:0.15
Consensus pattern (27 bp):
GGGACACTAAACACGGGACAGTCCGAT
Found at i:19882552 original size:38 final size:38
Alignment explanation
Indices: 19882510--19882583 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
19882500 CCAGTTGACC
*
19882510 CCTTAGTAGGGGATAAAATACTTGAAAACGAGTATACT
1 CCTTAGTAGGGGACAAAATACTTGAAAACGAGTATACT
* *
19882548 CCTTAGTTGGGGACAAAATACTTGAAAAGGAGTATA
1 CCTTAGTAGGGGACAAAATACTTGAAAACGAGTATA
19882584 TTTTACACGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (38 bp):
CCTTAGTAGGGGACAAAATACTTGAAAACGAGTATACT
Found at i:19883470 original size:45 final size:43
Alignment explanation
Indices: 19883403--19883623 Score: 167
Period size: 45 Copynumber: 4.9 Consensus size: 43
19883393 AGTTGTAAGC
* *
19883403 ATAAATTGAGTAAGACCATAGCTAAATGATTCTATGTCATCATG
1 ATAAAATGAGTAAGACCATAGCTAAA-GATTCTATGACATCATG
* * *
19883447 ATAAAGATGAGTAAGATCGTAGCTAAAAGATGT-TATGAAATCACT-
1 ATAAA-ATGAGTAAGACCATAGCT-AAAGAT-TCTATGACATCA-TG
* * *
19883492 ATAAAAATGAGTAAAACCATAGCTGAAAGATGCTATGGCATCATG
1 AT-AAAATGAGTAAGACCATAGCT-AAAGATTCTATGACATCATG
* * * * *
19883537 ATATAAATGAATAAGACCATGGCTGAAAGATGCCATGGCATCATG
1 ATA-AAATGAGTAAGACCATAGCT-AAAGATTCTATGACATCATG
* * * **
19883582 GTAAACAAGACTAAGACCATAGCTGAAAGACACTATGACATC
1 ATAAA-ATGAGTAAGACCATAGCT-AAAGATTCTATGACATC
19883624 CTAGTAGTCT
Statistics
Matches: 144, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
44 9 0.06
45 127 0.88
46 8 0.06
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (43 bp):
ATAAAATGAGTAAGACCATAGCTAAAGATTCTATGACATCATG
Found at i:19886028 original size:18 final size:18
Alignment explanation
Indices: 19885970--19886016 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
19885960 AATTGATCGG
*
19885970 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
19885988 TTATTCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
19886006 TTATTCAGTAA
1 TTATTCAGTAA
19886017 TAATCAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:19886259 original size:45 final size:45
Alignment explanation
Indices: 19886203--19886312 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
19886193 ATAGTAAAAG
* ***
19886203 TAACAGTAACAGTAACAGTATTCAACATACAAAGTGTTGAATCGC
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGC
* * *
19886248 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCAAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGC
*
19886293 TAATAGTAACAGTAACAGTA
1 TAACAGTAACAGTAACAGTA
19886313 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGC
Found at i:19891126 original size:27 final size:27
Alignment explanation
Indices: 19891078--19891182 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
19891068 GCGAGGCTGC
* *
19891078 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
19891105 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
19891131 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
19891158 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19891183 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19892807 original size:26 final size:26
Alignment explanation
Indices: 19892776--19892908 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
19892766 TGAAATGCCC
*
19892776 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19892802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19892828 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19892854 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19892879 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19892905 ATCA
1 ATCA
19892909 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 78 0.77
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19892884 original size:51 final size:52
Alignment explanation
Indices: 19892776--19892908 Score: 232
Period size: 51 Copynumber: 2.6 Consensus size: 52
19892766 TGAAATGCCC
19892776 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
19892828 ATCATGGAATATTTACCTAATCCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
19892879 ATCATGGAACATTTACCTAACCCATTATCA
1 ATCATGGAACATTTACCTAAACCATTATCA
19892909 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 48 0.62
52 29 0.38
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:19898174 original size:27 final size:27
Alignment explanation
Indices: 19898126--19898230 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
19898116 GCGAGGCTGC
* *
19898126 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
19898153 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
19898179 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
19898206 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19898231 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19899850 original size:26 final size:26
Alignment explanation
Indices: 19899819--19899926 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
19899809 TGAAATGCCC
*
19899819 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19899845 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
19899871 ATCATGGAATATATACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19899897 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19899923 ATCA
1 ATCA
19899927 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19901722 original size:15 final size:18
Alignment explanation
Indices: 19901694--19901735 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
19901684 TCATCCTTTC
19901694 TTTCTTTATCTATT-CTT
1 TTTCTTTATCTATTCCTT
19901711 TTTCTTT-T-TATTCCTT
1 TTTCTTTATCTATTCCTT
*
19901727 TTACTTTAT
1 TTTCTTTAT
19901736 ATATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTATCTATTCCTT
Found at i:19905163 original size:38 final size:38
Alignment explanation
Indices: 19905121--19905195 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
19905111 TTTTAGGTAT
*
19905121 AAGAATGGCTCTCATACTTTCTTATAATCCATTGGGAC
1 AAGAATGGCTCCCATACTTTCTTATAATCCATTGGGAC
19905159 AAGAATGGCTCCCATACTTTCTTATAATCCATTGGGA
1 AAGAATGGCTCCCATACTTTCTTATAATCCATTGGGA
19905196 TCCCAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (38 bp):
AAGAATGGCTCCCATACTTTCTTATAATCCATTGGGAC
Found at i:19910334 original size:62 final size:62
Alignment explanation
Indices: 19910234--19910359 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
19910224 TAGATTCTTA
19910234 GTATCGCTCAGCAAGGTTCCTTGTGGTATATTACGAAGCTCCGTAGCTAACTGACCCATTTG
1 GTATCGCTCAGCAAGGTTCCTTGTGGTATATTACGAAGCTCCGTAGCTAACTGACCCATTTG
* * *
19910296 GTATCGCTCAGCAAGGTTCCTTGTGGTCTATTATGAAGCTCCGTAGTTAACTGACCCATTTG
1 GTATCGCTCAGCAAGGTTCCTTGTGGTATATTACGAAGCTCCGTAGCTAACTGACCCATTTG
19910358 GT
1 GT
19910360 TTTCCAAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (62 bp):
GTATCGCTCAGCAAGGTTCCTTGTGGTATATTACGAAGCTCCGTAGCTAACTGACCCATTTG
Found at i:19928969 original size:23 final size:23
Alignment explanation
Indices: 19928925--19928969 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19928915 AGGAGACATT
*
19928925 CAAAAATAATAATTTTATAATTA
1 CAAAAATAATAATTTTAAAATTA
*
19928948 CAAAAATGA-AATTTCTAAAATT
1 CAAAAATAATAATTT-TAAAATT
19928970 GTTTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
CAAAAATAATAATTTTAAAATTA
Found at i:19935428 original size:13 final size:13
Alignment explanation
Indices: 19935410--19935436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19935400 ATAATATTTT
19935410 TATCACTGAACTC
1 TATCACTGAACTC
19935423 TATCACTGAACTC
1 TATCACTGAACTC
19935436 T
1 T
19935437 TTGATTCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (13 bp):
TATCACTGAACTC
Found at i:19939871 original size:40 final size:41
Alignment explanation
Indices: 19939813--19939894 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
19939803 GCATGACTGT
19939813 TACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGA
1 TACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGA
19939854 TACTG-TACTGTGATGGGCTAAGGCCCTACTGCATATTTGA
1 TACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGA
19939894 T
1 T
19939895 TGTGCACTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (41 bp):
TACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGA
Found at i:19940343 original size:23 final size:23
Alignment explanation
Indices: 19940299--19940343 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
19940289 TTATATTAAA
***
19940299 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAACAAATATG
*
19940322 ATTAAAAATAAAAAACATATAT
1 ATTAAAAATAAAAAACAAATAT
19940344 TTAATATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAAAAATAAAAAACAAATATG
Found at i:19941195 original size:25 final size:25
Alignment explanation
Indices: 19941164--19941211 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19941154 TTGTTTTAAA
* *
19941164 CTGAAACTATTATTGATAGTATATT
1 CTGAAACTACTATAGATAGTATATT
*
19941189 CTGAAACTACTATAGGTAGTATA
1 CTGAAACTACTATAGATAGTATA
19941212 CTGTACTGAA
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:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
CTGAAACTACTATAGATAGTATATT
Found at i:19941220 original size:28 final size:26
Alignment explanation
Indices: 19941163--19941222 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
19941153 ATTGTTTTAA
* *
19941163 ACTGAAACTATTATTGATAGTATATT
1 ACTGAAACTACTATAGATAGTATATT
*
19941189 -CTGAAACTACTATAGGTAGTATACTGT
1 ACTGAAACTACTATAGATAGTATA-T-T
19941216 ACTGAAA
1 ACTGAAA
19941223 ACATTTTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 20 0.71
26 1 0.04
27 1 0.04
28 6 0.21
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (26 bp):
ACTGAAACTACTATAGATAGTATATT
Done.