Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 60 of 322
Found at i:19083382 original size:19 final size:20
Alignment explanation
Indices: 19083360--19083436 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 20
19083350 GTGTTACACA
19083360 GATGAATTACTG-TTATATG
1 GATGAATTACTGTTTATATG
* *
19083379 GATGAAGTACTGTTTAAATG
1 GATGAATTACTGTTTATATG
*
19083399 GAT-AAGTTACTG-TTAT-CG
1 GATGAA-TTACTGTTTATATG
*
19083417 AATGAATTACTGTTTATATG
1 GATGAATTACTGTTTATATG
19083437 ATTGAGAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 9 0.20
19 22 0.48
20 15 0.33
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (20 bp):
GATGAATTACTGTTTATATG
Found at i:19083401 original size:20 final size:20
Alignment explanation
Indices: 19083360--19083412 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
19083350 GTGTTACACA
* *
19083360 GATGAATTACTG-TTATATG
1 GATGAAGTACTGTTTAAATG
19083379 GATGAAGTACTGTTTAAATG
1 GATGAAGTACTGTTTAAATG
19083399 GAT-AAGTTACTGTT
1 GATGAAG-TACTGTT
19083413 ATCGAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (20 bp):
GATGAAGTACTGTTTAAATG
Found at i:19089072 original size:27 final size:27
Alignment explanation
Indices: 19089042--19089309 Score: 297
Period size: 27 Copynumber: 9.9 Consensus size: 27
19089032 CCTTAATTGA
* * *
19089042 TAAAATGACTCTTTTGCCTTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
19089069 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
19089096 TAAAATAACTGTTTTGTCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
19089122 ATAAAATGATTGTTTTGCCCTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
* * *
19089150 TAAAATGATTGTTTTCCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
19089177 TAAAATAATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
19089204 TAAGATAACTGTTTTGCCCCTTATGAGG
1 TAAAATGACTGTTTTG-CCCTTATGAGG
* *
19089232 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
19089259 TAAAATGACTGTTATGCCCTT-TTATGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
* * *
19089286 TAAGATGACTGTTTTACCCCTATG
1 TAAAATGACTGTTTTGCCCTTATG
19089310 TGATGTATGT
Statistics
Matches: 206, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 176 0.85
28 27 0.13
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:19089263 original size:82 final size:81
Alignment explanation
Indices: 19089046--19089309 Score: 334
Period size: 81 Copynumber: 3.2 Consensus size: 81
19089036 AATTGATAAA
* * *
19089046 ATGACTCTTTTGCCTTTATGGGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAACTGTTTT
1 ATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAACTGTTTT
* *
19089111 GTCCTTATG-GGATAAA
66 GCCCTTATGAGG-TAAG
* * * *
19089127 ATGATTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTCCCCTTATGGGGTAAAATAATTGTTTT
1 ATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAACTGTTTT
19089192 GCCCTTATGAGGTAAG
66 GCCCTTATGAGGTAAG
* * * * *
19089208 ATAACTGTTTTGCCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTA
1 ATGACTGTTTTG-CCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAACTGTTT
*
19089273 TGCCCTT-TTATGGTAAG
65 TGCCCTTATGA-GGTAAG
* *
19089290 ATGACTGTTTTACCCCTATG
1 ATGACTGTTTTGCCCTTATG
19089310 TGATGTATGT
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
81 88 0.56
82 70 0.44
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (81 bp):
ATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAACTGTTTT
GCCCTTATGAGGTAAG
Found at i:19089328 original size:82 final size:82
Alignment explanation
Indices: 19089061--19089306 Score: 264
Period size: 82 Copynumber: 3.0 Consensus size: 82
19089051 TCTTTTGCCT
* * * * * * *
19089061 TTATGGGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAACTGTTTTGTCCTTATG-GGATA
1 TTATGAGGTAAAATGACTATTTTCCCCTTATGGGGTAAAATAACTGTTATGCCCTTATGAGG-TA
* * * *
19089125 AAATGATTGTTTT-GCCC
65 AGATAACTGTTTTACCCC
* * * *
19089142 TTATGAGGTAAAATGATTGTTTTCCCCTTATGGGGTAAAATAATTGTTTTGCCCTTATGAGGTAA
1 TTATGAGGTAAAATGACTATTTTCCCCTTATGGGGTAAAATAACTGTTATGCCCTTATGAGGTAA
*
19089207 GATAACTGTTTTGCCCC
66 GATAACTGTTTTACCCC
* * * *
19089224 TTATGAGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTATGCCCTT-TTATGGTA
1 TTATGAGGTAAAATGACTATTTTCCCCTTATGGGGTAAAATAACTGTTATGCCCTTATGA-GGTA
*
19089288 AGATGACTGTTTTACCCC
65 AGATAACTGTTTTACCCC
19089306 T
1 T
19089307 ATGTGATGTA
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
81 68 0.48
82 75 0.52
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (82 bp):
TTATGAGGTAAAATGACTATTTTCCCCTTATGGGGTAAAATAACTGTTATGCCCTTATGAGGTAA
GATAACTGTTTTACCCC
Found at i:19089956 original size:34 final size:35
Alignment explanation
Indices: 19089910--19089988 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
19089900 CTTGCTTTCT
19089910 TATTTGATTTTTAATTTATAA-TAATTTAATTTGGG
1 TATTTG-TTTTTAATTTATAAGTAATTTAATTTGGG
19089945 TATTTGTTTTTAATTTATAAGTAATTTAATTTGGG
1 TATTTGTTTTTAATTTATAAGTAATTTAATTTGGG
19089980 TATTTGTTT
1 TATTTGTTT
19089989 ATGTAATAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
34 14 0.33
35 29 0.67
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (35 bp):
TATTTGTTTTTAATTTATAAGTAATTTAATTTGGG
Found at i:19099429 original size:27 final size:27
Alignment explanation
Indices: 19099399--19099467 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
19099389 GTAGGCTAGT
* *
19099399 ATTATTGAAATACCCCTGAAGGGTAGA
1 ATTACTGAAATACCCCTGAAGGATAGA
* *
19099426 ATTACTGAAATGCCCCTGTAGGATAGA
1 ATTACTGAAATACCCCTGAAGGATAGA
19099453 ATTACTGAAATACCC
1 ATTACTGAAATACCC
19099468 TTCGGTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGAAGGATAGA
Found at i:19099518 original size:28 final size:27
Alignment explanation
Indices: 19099460--19099525 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
19099450 AGAATTACTG
* * *
19099460 AAATACCCTTCGGTTACAAAATTACCA
1 AAATACCCCTAGGTTACAAAATTACAA
*
19099487 AAATACCCCTAGGTTATAAAATTATCAA
1 AAATACCCCTAGGTTACAAAATTA-CAA
*
19099515 AAATATCCCTA
1 AAATACCCCTA
19099526 ATTTGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATACCCCTAGGTTACAAAATTACAA
Found at i:19099534 original size:28 final size:27
Alignment explanation
Indices: 19099472--19099575 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
19099462 ATACCCTTCG
* * *
19099472 GTTACAAAATTACCAAAATACCCCTAG
1 GTTATAAAATTACAAAAATACCCCTAA
*
19099499 GTTATAAAATTATCAAAAATATCCCTAA
1 GTTATAAAATTA-CAAAAATACCCCTAA
* * ** * * *
19099527 TTTGTAAAATTACTGAAATACGCTTGA
1 GTTATAAAATTACAAAAATACCCCTAA
** *
19099554 CCTATAAAATTACCAAAATACC
1 GTTATAAAATTACAAAAATACC
19099576 TCAACTTGTA
Statistics
Matches: 58, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
27 36 0.62
28 22 0.38
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (27 bp):
GTTATAAAATTACAAAAATACCCCTAA
Found at i:19099619 original size:27 final size:26
Alignment explanation
Indices: 19099589--19099731 Score: 101
Period size: 27 Copynumber: 5.3 Consensus size: 26
19099579 ACTTGTATCG
*
19099589 AAATACCTTCAATTTGTAAAATTACCA
1 AAATACCTTCGATTTGTAAAATTA-CA
* *
19099616 AAATATCCTT-GATTTGGAAAATTATA
1 AAATA-CCTTCGATTTGTAAAATTACA
* **
19099642 GAAATACC-CCTGATTTACAAAATTACAA
1 -AAATACCTTC-GATTTGTAAAATTAC-A
* **
19099670 AAATACCCTCGACTTTCAAAAATTACA
1 AAATACCTTCGA-TTTGTAAAATTACA
* *
19099697 GAAATACCATCGATTTGTAGAATTATCA
1 -AAATACCTTCGATTTGTAAAATTA-CA
19099725 AAATACC
1 AAATACC
19099732 CTTGGTTTGT
Statistics
Matches: 93, Mismatches: 14, Indels: 18
0.74 0.11 0.14
Matches are distributed among these distances:
26 3 0.03
27 60 0.65
28 30 0.32
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATACCTTCGATTTGTAAAATTACA
Found at i:19099721 original size:55 final size:52
Alignment explanation
Indices: 19099588--19099733 Score: 139
Period size: 55 Copynumber: 2.7 Consensus size: 52
19099578 AACTTGTATC
* * * ** *
19099588 GAAATACCTTCAATTTGTAAAATTACCAAAATATCCTTGATTTGGAAAATTATA
1 GAAATACC-TCGATTTGTAAAATTA-CAAAATACCCTCGATTTCAAAAATTACA
* **
19099642 GAAATACCCCTGATTTACAAAATTACAAAAATACCCTCGACTTTCAAAAATTACA
1 GAAATACCTC-GATTTGTAAAATTAC-AAAATACCCTCGA-TTTCAAAAATTACA
*
19099697 GAAATACCATCGATTTGTAGAATTATCAAAATACCCT
1 GAAATACC-TCGATTTGTAAAATTA-CAAAATACCCT
19099734 TGGTTTGTAG
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
53 2 0.03
54 30 0.41
55 40 0.54
56 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (52 bp):
GAAATACCTCGATTTGTAAAATTACAAAATACCCTCGATTTCAAAAATTACA
Found at i:19099740 original size:27 final size:27
Alignment explanation
Indices: 19099710--19099762 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
19099700 ATACCATCGA
* *
19099710 TTTGTAGAATTATCAAAATACCCTTGG
1 TTTGTAGAATTACCAAAACACCCTTGG
*
19099737 TTTGTAGATTTACCAAAACACCCTTG
1 TTTGTAGAATTACCAAAACACCCTTG
19099763 CAGGGTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (27 bp):
TTTGTAGAATTACCAAAACACCCTTGG
Found at i:19103625 original size:40 final size:40
Alignment explanation
Indices: 19103566--19103710 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
19103556 CATTTGAATG
* *
19103566 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* * *
19103606 TTATCCTGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
19103646 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* * * *
19103686 ATACCCAGGTTAAGACACGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
19103711 ATTGTGCTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 89 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:19103700 original size:80 final size:80
Alignment explanation
Indices: 19103566--19103717 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
19103556 CATTTGAATG
* * * * * * *
19103566 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCTGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCAGGCTAAGACACGAAGGCA
*
19103631 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTTGAT
* *
19103646 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCAGGTTAAGACACGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCAGGCTAAGACACGAAGGC
19103710 AATTGTGC
65 AATTGTGC
19103718 TTGTGGCTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 59 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCAGGCTAAGACACGAAGGCA
ATTGTGCGAGTTGAT
Found at i:19115447 original size:46 final size:45
Alignment explanation
Indices: 19115397--19115567 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 45
19115387 TGAGCATCCA
*
19115397 AACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCCG
* * * *
19115443 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA-GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TCCG
* * *
19115490 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCCG
*
19115535 AAGTTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTAGG
19115568 GGCGGGTTAC
Statistics
Matches: 101, Mismatches: 14, Indels: 21
0.74 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 9 0.09
46 50 0.50
47 26 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTCCG
Found at i:19115549 original size:93 final size:93
Alignment explanation
Indices: 19115390--19115560 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
19115380 GGATGGTTGA
* * *
19115390 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGT
*
19115455 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
19115483 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTAAGTTCGTTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAA-CTCGTTGAG
19115547 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
19115561 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 3 0.04
93 66 0.96
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19118009 original size:51 final size:50
Alignment explanation
Indices: 19117929--19118030 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 50
19117919 AAGAAGCAAA
*
19117929 ATGTGGGTCATAAGTCCCAGACTAATTCGGCAGCCAGTGTAGGGGACTCG
1 ATGTGGGTCATAAGTCCCAGACTAATTCGGCAGCCAGTGTAGGGAACTCG
* * *
19117979 ANTGTGGGTCCTAAGTCCCAGACTACTTCGGCAGCCAGTTTAGGGAACTCG
1 A-TGTGGGTCATAAGTCCCAGACTAATTCGGCAGCCAGTGTAGGGAACTCG
19118030 A
1 A
19118031 GATTTGTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTGGGTCATAAGTCCCAGACTAATTCGGCAGCCAGTGTAGGGAACTCG
Found at i:19131825 original size:18 final size:18
Alignment explanation
Indices: 19131802--19131848 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
19131792 TTAACACAAT
19131802 TTAATTATTTTATAATAC
1 TTAATTATTTTATAATAC
19131820 TTAATTATTTTATAATAC
1 TTAATTATTTTATAATAC
19131838 TTAATTATTTT
1 TTAATTATTTT
19131849 TCGACAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAATTATTTTATAATAC
Found at i:19137924 original size:7 final size:7
Alignment explanation
Indices: 19137912--19137954 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
19137902 AGATTAGAGT
19137912 TTTAGGG
1 TTTAGGG
19137919 TTTAGGG
1 TTTAGGG
19137926 TTTAGGG
1 TTTAGGG
*
19137933 TTTATGG
1 TTTAGGG
19137940 TTTAGGG
1 TTTAGGG
19137947 TTTAGGG
1 TTTAGGG
19137954 T
1 T
19137955 CACGCTTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:19146794 original size:40 final size:40
Alignment explanation
Indices: 19146726--19146896 Score: 290
Period size: 40 Copynumber: 4.3 Consensus size: 40
19146716 AACCCAAGTA
* *
19146726 CCTTCGGGCTTTAG-CCGGATATAGCAACTAGCAGAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
19146765 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
* *
19146805 CCTTCGGGATTTAGCCCGGATATAGTAGCTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
*
19146845 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
19146885 CCTTCGGGATTT
1 CCTTCGGGATTT
19146897 TAGTTCGGTT
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 110 0.89
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:19147706 original size:19 final size:19
Alignment explanation
Indices: 19147654--19147709 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
19147644 ATAAATATAA
*
19147654 GTTCAATATAAACTCACAT
1 GTTCAATATAAATTCACAT
* *
19147673 G-T-AA-CTAAATGCACAT
1 GTTCAATATAAATTCACAT
19147689 GTTCAATATAAATTCACAT
1 GTTCAATATAAATTCACAT
19147708 GT
1 GT
19147710 AATCGAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 3 0.10
19 13 0.45
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (19 bp):
GTTCAATATAAATTCACAT
Found at i:19154705 original size:40 final size:40
Alignment explanation
Indices: 19154600--19154745 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
19154590 GCTACTCGTT
*
19154600 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19154640 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
19154680 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19154721 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19154746 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19163655 original size:48 final size:47
Alignment explanation
Indices: 19163519--19164038 Score: 531
Period size: 48 Copynumber: 10.8 Consensus size: 47
19163509 AAGGTAAGAT
* *
19163519 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-ATCAG
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCA--AG
* * * *
19163568 TGGCAAAGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCAAG
1 -GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* ** * *
19163617 GCCGATGCTATGTCCAGAACATAATCTTACACTAGCTCACATGTCGAG
1 GCCGATGCCATGTCCA-AACATGGTCTTACACTAGCTCACATATCAAG
* * * * * * *
19163665 GTCGATGTCATGTCCCATACATGGCCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
19163713 GCC-ATGCCATATTCCAAACATGGTCTTACACTGGTTCACATATCGAG
1 GCCGATGCCAT-GTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
19163760 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAAG
* * *
19163808 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAG
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
19163856 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAAG
* * *
19163904 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAG
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
19163952 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAAG
*
19164000 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCA
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCA
19164039 TATAACCCTA
Statistics
Matches: 382, Mismatches: 76, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
47 47 0.12
48 283 0.74
49 14 0.04
50 36 0.09
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATCAAG
Found at i:19163861 original size:96 final size:96
Alignment explanation
Indices: 19163517--19164034 Score: 756
Period size: 96 Copynumber: 5.4 Consensus size: 96
19163507 AAAAGGTAAG
* * * * * * *
19163517 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC-AGTGGCAAAGCCATG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACT-GGT-TCACATATCGAG-GTCGATGCCATG
* * *
19163581 TTCC-AAACATGGTCTTACACTAGCTCACATGTCA
63 -TCCTAGACATGGTCTTACACTAGCTCTCATATCA
* * ** * * * *
19163615 AGGCCGATGCTATG-TCCAGAACATAATCTTACACTAGCTCACATGTCGAGGTCGATGTCATGTC
1 ATGCCGATGCCATGTTCCA-AACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTC
* * * *
19163679 CCATACATGGCCTTACACTAGCTCTCATATAA
65 CTAGACATGGTCTTACACTAGCTCTCATATCA
*
19163711 ATGCC-ATGCCATATTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
19163775 TAGACATGGTCTTACACTAGCTCTCATATCA
66 TAGACATGGTCTTACACTAGCTCTCATATCA
19163806 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
19163871 TAGACATGGTCTTACACTAGCTCTCATATCA
66 TAGACATGGTCTTACACTAGCTCTCATATCA
19163902 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
19163967 TAGACATGGTCTTACACTAGCTCTCATATCA
66 TAGACATGGTCTTACACTAGCTCTCATATCA
19163998 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGG
19164035 CTCATATAAC
Statistics
Matches: 381, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
95 81 0.21
96 270 0.71
97 5 0.01
98 25 0.07
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCC
TAGACATGGTCTTACACTAGCTCTCATATCA
Found at i:19167874 original size:46 final size:46
Alignment explanation
Indices: 19167824--19168735 Score: 1643
Period size: 46 Copynumber: 19.8 Consensus size: 46
19167814 TGGTTGAGCA
19167824 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19167870 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19167916 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19167962 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168008 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168054 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168100 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168146 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168192 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168376 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168468 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168514 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19168560 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
19168606 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
19168651 CATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
19168699 CCCGAGCTCATTGAGTTGAGTCCGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19168736 GCGGGTTACA
Statistics
Matches: 841, Mismatches: 16, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
45 3 0.00
46 797 0.95
47 27 0.03
48 3 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19170268 original size:10 final size:10
Alignment explanation
Indices: 19170247--19170313 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
19170237 CATGAGATAT
19170247 TGATAT-ACA
1 TGATATGACA
19170256 TGATATGACA
1 TGATATGACA
19170266 TGATATGCACA
1 TGATATG-ACA
**
19170277 TGATATGTTA
1 TGATATGACA
19170287 TGATATGCACA
1 TGATATG-ACA
19170298 TGATATG-CTA
1 TGATATGAC-A
19170308 TGATAT
1 TGATAT
19170314 ACTCATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:19170279 original size:21 final size:20
Alignment explanation
Indices: 19170253--19170329 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 20
19170243 ATATTGATAT
19170253 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
*
19170274 ACATGATATGTTATGATATGC
1 ACATGATATG-CATGATATGC
*
19170295 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
19170316 TCATTATATGCATG
1 ACATGATATGCATG
19170330 GGTTGGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:19170293 original size:5 final size:5
Alignment explanation
Indices: 19170242--19170313 Score: 56
Period size: 5 Copynumber: 14.0 Consensus size: 5
19170232 AGATGCATGA
* * * *
19170242 GATATT GATAT -ACAT GATAT GACAT GATAT GCACAT GATAT GTTAT GATAT
1 GATA-T GATAT GATAT GATAT GATAT GATAT G-ATAT GATAT GATAT GATAT
* *
19170293 GCACAT GATAT GCTAT GATAT
1 G-ATAT GATAT GATAT GATAT
19170314 ACTCATTATA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
4 3 0.06
5 36 0.71
6 12 0.24
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (5 bp):
GATAT
Found at i:19173153 original size:51 final size:51
Alignment explanation
Indices: 19173091--19173193 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
19173081 GTGTTTTATG
19173091 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTACTACTCGGTTTT
1 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTACTACTCGGTTTT
*
19173142 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTATTACTCGGTTTT
1 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTACTACTCGGTTTT
19173193 A
1 A
19173194 AGCGAAAACG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (51 bp):
ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTACTACTCGGTTTT
Found at i:19173380 original size:30 final size:30
Alignment explanation
Indices: 19173344--19173403 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19173334 TTCTTGAGCC
**
19173344 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAAAGTAATTATGCAAAAGTT
* *
19173374 TAGGGGCAAAAAAGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAAAGTAATTATGCAAAAGTT
19173404 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAAAGTAATTATGCAAAAGTT
Found at i:19175345 original size:27 final size:27
Alignment explanation
Indices: 19175315--19175601 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
19175305 TTAGTTTACC
19175315 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19175342 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19175369 AAATCACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
19175396 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19175423 AAATTACCAAAATACCCCTAGCTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
19175450 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19175477 AAGTTACCAAAATAACTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
19175504 AAATTACCAAAATACCCCAGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19175531 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19175558 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
19175585 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
19175602 TCGACCTATA
Statistics
Matches: 216, Mismatches: 44, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 216 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:19175614 original size:54 final size:54
Alignment explanation
Indices: 19175502--19175655 Score: 134
Period size: 54 Copynumber: 2.9 Consensus size: 54
19175492 CTCTGGTTTG
* * ** *
19175502 TAAAATTACCAAAATACCCCAGGTTTGTAAAATTATCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCAGATTTGTAAAATTATCAAAATACCCCGAGCCTA
* * *
19175556 TAAAATTACCAAAATATCCCTGATTTGTGAAATTA-CTAAAATACCCTCGA-CCTA
1 TAAAATTACCAAAATACCCCAGATTTGTAAAATTATC-AAAATACCC-CGAGCCTA
*** * * *
19175610 TAAAATTATTGAAATACCCTC-GACTTGTAAAATTACCAAAGTACCC
1 TAAAATTACCAAAATACCC-CAGATTTGTAAAATTATCAAAATACCC
19175656 TTGATTTACA
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
53 1 0.01
54 76 0.94
55 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCAGATTTGTAAAATTATCAAAATACCCCGAGCCTA
Found at i:19175614 original size:81 final size:79
Alignment explanation
Indices: 19175315--19175656 Score: 328
Period size: 81 Copynumber: 4.2 Consensus size: 79
19175305 TTAGTTTACC
* * ** *
19175315 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACTAAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCC-CGACTTATAAAATTACTAAA
*
19175380 ATACCCCTGGTTTGTA
64 ATACCCCTAGTTTGTA
* ** * *
19175396 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGCTTGTAAAATTACTAAA
1 AAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCCGA-CTTATAAAATTACTAAA
* * *
19175461 ATACCCTTTGTTTATA
64 ATACCCCTAGTTTGTA
* * ** *
19175477 AAGTTACCAAAATAACTCTGGTTTGTAAAATTACCAAAATACCCCAGGTTTGTAAAATTA-TCAA
1 AAATTACCAAAAT-ACCCTGGTTTGTAAAATTACCAAAATACCCC-GACTTATAAAATTACT-AA
19175541 AATACCCCTAGTTTGTA
63 AATACCCCTAGTTTGTA
* * * * * *
19175558 AAATTACCAAAATATCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTATAAAATTATTGAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCC-CGACTTATAAAATTACTAAA
* *
19175623 ATA-CCCTCGACTTGTA
64 ATACCCCTAG-TTTGTA
*
19175639 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
19175657 TGATTTACAG
Statistics
Matches: 215, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
80 13 0.06
81 198 0.92
82 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCGACTTATAAAATTACTAAAAT
ACCCCTAGTTTGTA
Found at i:19175615 original size:27 final size:27
Alignment explanation
Indices: 19175585--19175656 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
19175575 CTGATTTGTG
19175585 AAATTACTAAAATACCCTCGACCTATA
1 AAATTACTAAAATACCCTCGACCTATA
* * * *
19175612 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGACCTATA
* *
19175639 AAATTACCAAAGTACCCT
1 AAATTACTAAAATACCCT
19175657 TGATTTACAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGACCTATA
Found at i:19175708 original size:27 final size:27
Alignment explanation
Indices: 19175594--19175710 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
19175584 GAAATTACTA
* * *
19175594 AAATACCCTCGACCTATAAAATTATTG
1 AAATACCCTCGACTTACAAAATTATCG
** *
19175621 AAATACCCTCGACTTGTAAAATTA-CC
1 AAATACCCTCGACTTACAAAATTATCG
* * *
19175647 AAAGTACCCTTGATTTACAGAATTATCG
1 AAA-TACCCTCGACTTACAAAATTATCG
*** *
19175675 TTTTACCCTCGATTTACAAAATTATCG
1 AAATACCCTCGACTTACAAAATTATCG
19175702 AAATACCCT
1 AAATACCCT
19175711 TCTAGGGTAG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 3 0.04
27 66 0.94
28 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGACTTACAAAATTATCG
Found at i:19175730 original size:27 final size:26
Alignment explanation
Indices: 19175694--19176887 Score: 1348
Period size: 27 Copynumber: 44.3 Consensus size: 26
19175684 CGATTTACAA
* *
19175694 AATTATCGAAATACCCTTCTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
* *
19175721 AAATACCGAAATACTCCTGTAAGGTAG
1 AATTACCGAAATAC-CCTGTAGGGTAG
19175748 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
*
19175775 AATTACCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
*
19175802 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
** * *
19175829 AATTACTTAAATACCCTTATAGGGTAA
1 AATTACCGAAATACCC-TGTAGGGTAG
* *
19175856 AATTACCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
19175883 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
*
19175910 AACTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19175937 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19175964 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19175991 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176018 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176045 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176072 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176099 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176126 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176153 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176180 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176207 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176234 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176261 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176288 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176315 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176342 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176369 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176396 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176423 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176450 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176477 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176504 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176531 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176558 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
19176585 AATTACCAAAATAACCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
19176612 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
* *
19176639 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
19176666 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATA-CCCTGTAGGGTAG
* *
19176693 ATTTACCGGAATACTCCTGTAGGGTAG
1 AATTACCGAAATAC-CCTGTAGGGTAG
*
19176720 AATTA-CGAGAATACCTCTATAGGGTAG
1 AATTACCGA-AATACC-CTGTAGGGTAG
* *
19176747 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
* * *
19176774 AATTATCGCAATACCCATGTAAGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
* * *
19176801 AATTATCGCAATACCTATGTAGGGTAG
1 AATTACCGAAATACC-CTGTAGGGTAG
** *
19176828 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* * * * *
19176855 AATTACCGAGATACCTTATGGGGTAA
1 AATTACCGAAATACCCTGTAGGGTAG
19176881 AATTACC
1 AATTACC
19176888 ATTTTGCCCC
Statistics
Matches: 1034, Mismatches: 101, Indels: 65
0.86 0.08 0.05
Matches are distributed among these distances:
26 34 0.03
27 979 0.95
28 21 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (26 bp):
AATTACCGAAATACCCTGTAGGGTAG
Found at i:19176869 original size:81 final size:81
Alignment explanation
Indices: 19175716--19176861 Score: 1748
Period size: 81 Copynumber: 14.1 Consensus size: 81
19175706 ACCCTTCTAG
* * * * *
19175716 GGTAGAAATACCGAAAT-ACTCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTA
1 GGTAGAATTACCAAAATAAC-CCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTA
** *
19175780 CCGCAAT-ACCCTTGTAG
65 CCAAAATAACCC-TGTAA
** * * * * *
19175797 GGTAGAATTACCGCAATACCCCTGTAGGGTAGAATTA-CTTAAATACCCTTATAGGGTAAAATTA
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATC-GAAATACCCCTGTAGGGTAGAATTA
** * * *
19175861 CCGCAATACCCCTATAG
65 CCAAAATAACCCTGTAA
* * * *
19175878 GGTAGAATTACCGAAATACCCCTGTAGGGTAGAACTACCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19175943 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19175959 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176024 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176040 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176105 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176121 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176186 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176202 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176267 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176283 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176348 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176364 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176429 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176445 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176510 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
19176526 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
19176591 CAAAATAACCCTGTAA
66 CAAAATAACCCTGTAA
*
19176607 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGGAATACCCCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
* * *
19176672 CAGAATACCCCTGTAG
66 CAAAATAACCCTGTAA
* ** * *
19176688 GGTAGATTTACCGGAAT-ACTCCTGTAGGGTAGAATTA-CGAGAATACCTCTATAGGGTAGAATT
1 GGTAGAATTACCAAAATAAC-CCTGTAGGGTAGAATTATCGA-AATACCCCTGTAGGGTAGAATT
* ** *
19176751 ATCGCAAT-ACCCTTGTAG
64 ACCAAAATAACCC-TGTAA
* ** * * **
19176769 GGTAGAATTATCGCAAT-ACCCATGTAAGGTAGAATTATCGCAATACCTATGTAGGGTAGAATTA
1 GGTAGAATTACCAAAATAACCC-TGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTA
* * *
19176833 CTAAAATACCCCTGTAG
65 CCAAAATAACCCTGTAA
*
19176850 GGTGGAATTACC
1 GGTAGAATTACC
19176862 GAGATACCTT
Statistics
Matches: 1003, Mismatches: 52, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
80 10 0.01
81 983 0.98
82 10 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
GGTAGAATTACCAAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAC
CAAAATAACCCTGTAA
Found at i:19177366 original size:22 final size:22
Alignment explanation
Indices: 19177314--19177366 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
19177304 TTAAAGCCTT
* **
19177314 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGCCTTTGTCCCAAC
*
19177336 CT-ACATATGCCTTTGTCCCAAC
1 CTGA-TTATGCCTTTGTCCCAAC
19177358 CTGATTATG
1 CTGATTATG
19177367 GTTGTGTGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (22 bp):
CTGATTATGCCTTTGTCCCAAC
Found at i:19177567 original size:27 final size:27
Alignment explanation
Indices: 19177537--19177638 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
19177527 ATTCTGTTAA
* *
19177537 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
19177564 GTGGCTATGCCACAAATATCTG-TTCTA
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* * *
19177591 GTGGCTCTACCACAATATTTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
19177618 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
19177639 ATAACTGAGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 7 0.11
27 47 0.77
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:19177594 original size:54 final size:53
Alignment explanation
Indices: 19177536--19177638 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 53
19177526 TATTCTGTTA
* * * * *
19177536 AGTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTCTACCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCT
* * *
19177590 AGTGGCTCTACCACAATATTTGTATCTGGTGACTCTGTCACAATATCTG
1 AGTGGCTCTACCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
19177639 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (53 bp):
AGTGGCTCTACCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
Found at i:19177813 original size:6 final size:6
Alignment explanation
Indices: 19177798--19177906 Score: 98
Period size: 6 Copynumber: 17.8 Consensus size: 6
19177788 ATTCTATTAC
* * * *
19177798 CTGATA CTGATC CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
19177847 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
19177896 CT-AGTT CTGAT
1 CTGA-TT CTGAT
19177907 AATGTTTCTT
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.05
6 73 0.86
7 6 0.07
8 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:19177820 original size:31 final size:31
Alignment explanation
Indices: 19177786--19177886 Score: 148
Period size: 31 Copynumber: 3.3 Consensus size: 31
19177776 TTTTGATTTT
* * *
19177786 TGATTCTATTACCTGATACTGATCCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
19177817 TGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
19177848 TGATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
19177879 TGATTCTG
1 TGATTCTG
19177887 ATTCTGATTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:19181889 original size:48 final size:48
Alignment explanation
Indices: 19181837--19181931 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
19181827 TAAAATGAAT
*
19181837 TAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCC
1 TAAAAACAAAATTAAAAGCCAATTTTTCTCCATCTTCTTCATTAGGCC
19181885 TAAAAACAAAATTAAAAGCCAATTTTTCTCCATCTTCTTCATTAGGC
1 TAAAAACAAAATTAAAAGCCAATTTTTCTCCATCTTCTTCATTAGGC
19181932 AGAAATGTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (48 bp):
TAAAAACAAAATTAAAAGCCAATTTTTCTCCATCTTCTTCATTAGGCC
Found at i:19182374 original size:30 final size:30
Alignment explanation
Indices: 19182338--19182397 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19182328 TTCCCGAGCC
**
19182338 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAAAGTAATTATGCAAAAGTT
* *
19182368 TAGGGGCAAAAAAGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAAAGTAATTATGCAAAAGTT
19182398 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAAAGTAATTATGCAAAAGTT
Found at i:19190624 original size:13 final size:13
Alignment explanation
Indices: 19190606--19190634 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19190596 AAATATTGAC
19190606 CCACCCCAATAAT
1 CCACCCCAATAAT
19190619 CCACCCCAATAAT
1 CCACCCCAATAAT
19190632 CCA
1 CCA
19190635 ACCAATACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (13 bp):
CCACCCCAATAAT
Found at i:19191332 original size:29 final size:29
Alignment explanation
Indices: 19191269--19191364 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
19191259 AAGTCTACAT
* *
19191269 ACATGCATATGGCCCACTAGG-CCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
19191297 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
19191326 ACATTCATATGGCCCATTTGACCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
19191355 ACATTCATAT
1 ACATTCATAT
19191365 TCATACTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 18 0.30
29 43 0.70
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:19191596 original size:16 final size:17
Alignment explanation
Indices: 19191575--19191633 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 17
19191565 GTAGCTAAAC
19191575 TTTTGGCTTTTC-GTCA
1 TTTTGGCTTTTCAGTCA
19191591 TTTTGGCTTTTCAGT-A
1 TTTTGGCTTTTCAGTCA
* *
19191607 TTTTAGTTTTTCAG-CA
1 TTTTGGCTTTTCAGTCA
*
19191623 TTTTGACTTTT
1 TTTTGGCTTTT
19191634 ACCGATCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 34 0.94
17 2 0.06
ACGTcount: A:0.12, C:0.14, G:0.15, T:0.59
Consensus pattern (17 bp):
TTTTGGCTTTTCAGTCA
Found at i:19194634 original size:72 final size:72
Alignment explanation
Indices: 19194551--19194698 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
19194541 CATGGGAGAC
19194551 AAAATTGTTGAAAAGTAAAAATTAGGTGAAATTTGGTCACCAATTTTGACTAGTTTTATTATTAA
1 AAAATTGTTGAAAAGTAAAAATTAGGTGAAATTTGGTCACCAATTTTGACTAGTTTTATTATTAA
*
19194616 CAAATCN
66 CAAATCA
*
19194623 AAAATTGTTGAAAAGTCAAAATTAGGTGAAATTTGGTCACCAATTTTGACTAGTTTTATTATTAA
1 AAAATTGTTGAAAAGTAAAAATTAGGTGAAATTTGGTCACCAATTTTGACTAGTTTTATTATTAA
19194688 CAAATCA
66 CAAATCA
19194695 AAAA
1 AAAA
19194699 GAAAAAGCTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (72 bp):
AAAATTGTTGAAAAGTAAAAATTAGGTGAAATTTGGTCACCAATTTTGACTAGTTTTATTATTAA
CAAATCA
Found at i:19206235 original size:69 final size:70
Alignment explanation
Indices: 19206149--19206287 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 70
19206139 CTTAGTTGGT
19206149 CTAAGAGAACATTTCGGCATGTATAGGTTATTATG-TTTTGTTTGAACTTTAATATGTAAACTTT
1 CTAAGAGAACATTTCGGCATGTATAGGTTATTATGTTTTTGTTTGAACTTTAATATGTAAACTTT
19206213 TAGCC
66 TAGCC
* *
19206218 CTAAGAGAACATTTCGGCATGTATAGGTTATTATGTTTTTGTTTGAACTTTGATATGTATACTTT
1 CTAAGAGAACATTTCGGCATGTATAGGTTATTATGTTTTTGTTTGAACTTTAATATGTAAACTTT
19206283 TAGCC
66 TAGCC
19206288 ATGCGAATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 35 0.52
70 32 0.48
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (70 bp):
CTAAGAGAACATTTCGGCATGTATAGGTTATTATGTTTTTGTTTGAACTTTAATATGTAAACTTT
TAGCC
Found at i:19212069 original size:86 final size:86
Alignment explanation
Indices: 19211967--19212138 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
19211957 CATAAATGGG
19211967 CATTTTGCACTTTAGCCCCTAACATTTCACATTTTCACAATTTAGTCCCTATTTCAAAAAAACAC
1 CATTTTGCACTTTAGCCCCTAACATTTCACATTTTCACAATTTAGTCCCTATTTCAAAAAAACAC
19212032 AAAATACACAAAATTTCATCA
66 AAAATACACAAAATTTCATCA
19212053 CATTTTGCACTTTAGCCCCTAACATTTCACATTTTCACAATTTAGTCCCTATTTCAAAAAAACAC
1 CATTTTGCACTTTAGCCCCTAACATTTCACATTTTCACAATTTAGTCCCTATTTCAAAAAAACAC
19212118 AAAATACACAAAATTTCATCA
66 AAAATACACAAAATTTCATCA
19212139 AACCCAAGCA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (86 bp):
CATTTTGCACTTTAGCCCCTAACATTTCACATTTTCACAATTTAGTCCCTATTTCAAAAAAACAC
AAAATACACAAAATTTCATCA
Found at i:19214086 original size:48 final size:48
Alignment explanation
Indices: 19213942--19214168 Score: 162
Period size: 48 Copynumber: 4.8 Consensus size: 48
19213932 TAGTAAGATT
* * * *
19213942 CCAATGCCATATACCAGATATGGTCTTACATGGGATCACAAATCGAAG
1 CCAATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCGATG
* * *
19213990 CCAATAGCC---T---AGCTATGGTCTTACACGATG-TCTCATATCGATG
1 CCAAT-GCCATATCCCAGATATGGTCTTACATGA-GATCACATATCGATG
* * *
19214033 TCAATGCCATATCCCAGATATGCTCTTACATGAGATCACATGTCGATG
1 CCAATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCGATG
* * * * * * * *
19214081 CCAATGCCATGTCCCAGACATGGTCTTATATGGGATCTCATAACAATT
1 CCAATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCGATG
* * * * * * *
19214129 CCAAAGCCATGTCCCAAACATAGTCTTACTTGGGATCACA
1 CCAATGCCATATCCCAGATATGGTCTTACATGAGATCACA
19214169 CATAACCCTA
Statistics
Matches: 141, Mismatches: 29, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
42 3 0.02
43 29 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.72
49 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
CCAATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCGATG
Found at i:19216634 original size:81 final size:81
Alignment explanation
Indices: 19216499--19216660 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
19216489 ACCATCATAG
19216499 GCTGAAGTAAGCCTAAACGTGCTTGGTGTTTGGCTTTTACTTGCTAACAAATCAGGCATCTCAAA
1 GCTGAAGTAAGCCTAAACGTGCTTGGTGTTTGGCTTTTACTTGCTAACAAATCAGGCATCTCAAA
19216564 ACAAACTCTGAAATAT
66 ACAAACTCTGAAATAT
*
19216580 GCTGAAGTAAGCCTAAACGTGCTTGGTGTTTGGCTTTTACTTGCTAACAAATCAGGCATTTCAAA
1 GCTGAAGTAAGCCTAAACGTGCTTGGTGTTTGGCTTTTACTTGCTAACAAATCAGGCATCTCAAA
19216645 ACAAACTCTGAAATAT
66 ACAAACTCTGAAATAT
19216661 ATCTTTTCAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (81 bp):
GCTGAAGTAAGCCTAAACGTGCTTGGTGTTTGGCTTTTACTTGCTAACAAATCAGGCATCTCAAA
ACAAACTCTGAAATAT
Found at i:19222021 original size:48 final size:48
Alignment explanation
Indices: 19221964--19222093 Score: 147
Period size: 48 Copynumber: 2.7 Consensus size: 48
19221954 GATGTCAATT
* * * * *
19221964 CCATATCCCAGATATTGTCTTACTTGGGATCACAT-GTCGATACCAATG
1 CCATGTCCCAGACATGGTCTTACTTGGGATCACATAAT-GATACCAAAG
* * *
19222012 TCATGTCCCAGACATGGTCTTA-TATGGGATCTCATAATGATTCCAAAG
1 CCATGTCCCAGACATGGTCTTACT-TGGGATCACATAATGATACCAAAG
*
19222060 CCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CCATGTCCCAGACATGGTCTTACTTGGGATCACA
19222094 CATAACCCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 66 0.97
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACTTGGGATCACATAATGATACCAAAG
Found at i:19222537 original size:73 final size:74
Alignment explanation
Indices: 19222415--19222559 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 74
19222405 CATTGTTCAA
*
19222415 ATCAATCCATAAACCATACTTTGGAAATTTTATAATTTTTCCCCTAAACTTTCACATAATTACAA
1 ATCAATCCATAAACCATACTTTGGAAATATTATAATTTTTCCCCTAAACTTTCACATAATTACAA
19222480 ATTAGCCTT
66 ATTAGCCTT
* *
19222489 ATCAGTCCATAAACCATTCTTTGGAAA-ATTATAATTTTTCCCCTAAACTTTCACATAATTACAA
1 ATCAATCCATAAACCATACTTTGGAAATATTATAATTTTTCCCCTAAACTTTCACATAATTACAA
19222553 ATTAGCC
66 ATTAGCC
19222560 CCTAGGCTCG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
73 43 0.63
74 25 0.37
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (74 bp):
ATCAATCCATAAACCATACTTTGGAAATATTATAATTTTTCCCCTAAACTTTCACATAATTACAA
ATTAGCCTT
Found at i:19228135 original size:281 final size:281
Alignment explanation
Indices: 19227632--19228144 Score: 1017
Period size: 281 Copynumber: 1.8 Consensus size: 281
19227622 AAATATTTAA
19227632 GGAGTGGCAATAAGATGATATTAAAGTTTCGTTGAAAAATTTTATTGTTTTGATAGTTAATTAAG
1 GGAGTGGCAATAAGATGATATTAAAGTTTCGTTGAAAAATTTTATTGTTTTGATAGTTAATTAAG
*
19227697 CAAAAAGGACTAAATTGCGCAAAGCGTAAAAGTTGTGTTCTATAAGTTAAAGATATTAAATAGCT
66 CAAAAAGGACTAAATCGCGCAAAGCGTAAAAGTTGTGTTCTATAAGTTAAAGATATTAAATAGCT
19227762 ATGGAATTAAATAGTGGGAGTCCTTAAGTGGTAATTATTCCATAATTGTTGGTAGTGGAATTCCA
131 ATGGAATTAAATAGTGGGAGTCCTTAAGTGGTAATTATTCCATAATTGTTGGTAGTGGAATTCCA
19227827 TGGCTTGGTATAATGGAAATTATTAATGTATATTAAGTGAAAAATTTTATTGTTTTGATAGTTAA
196 TGGCTTGGTATAATGGAAATTATTAATGTATATTAAGTGAAAAATTTTATTGTTTTGATAGTTAA
19227892 CTAAGCAAAAAGGACTAAATC
261 CTAAGCAAAAAGGACTAAATC
19227913 GGAGTGGCAATAAGATGATATTAAAGTTTCGTTGAAAAATTTTATTGTTTTGATAGTTAATTAAG
1 GGAGTGGCAATAAGATGATATTAAAGTTTCGTTGAAAAATTTTATTGTTTTGATAGTTAATTAAG
19227978 CAAAAAGGACTAAATCGCGCAAAGCGTAAAAGTTGTGTTCTATAAGTTAAAGATATTAAATAGCT
66 CAAAAAGGACTAAATCGCGCAAAGCGTAAAAGTTGTGTTCTATAAGTTAAAGATATTAAATAGCT
19228043 ATGGAATTAAATAGTGGGAGTCCTTAAGTGGTAATTATTCCATAATTGTTGGTAGTGGAATTCCA
131 ATGGAATTAAATAGTGGGAGTCCTTAAGTGGTAATTATTCCATAATTGTTGGTAGTGGAATTCCA
19228108 TGGCTTGGTATAATGGAAATTATTAATGTATATTAAG
196 TGGCTTGGTATAATGGAAATTATTAATGTATATTAAG
19228145 GTTAAATATG
Statistics
Matches: 231, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 231 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (281 bp):
GGAGTGGCAATAAGATGATATTAAAGTTTCGTTGAAAAATTTTATTGTTTTGATAGTTAATTAAG
CAAAAAGGACTAAATCGCGCAAAGCGTAAAAGTTGTGTTCTATAAGTTAAAGATATTAAATAGCT
ATGGAATTAAATAGTGGGAGTCCTTAAGTGGTAATTATTCCATAATTGTTGGTAGTGGAATTCCA
TGGCTTGGTATAATGGAAATTATTAATGTATATTAAGTGAAAAATTTTATTGTTTTGATAGTTAA
CTAAGCAAAAAGGACTAAATC
Found at i:19230275 original size:40 final size:40
Alignment explanation
Indices: 19230218--19230355 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
19230208 CGGATGATAA
*
19230218 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19230258 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19230298 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
19230338 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19230356 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.19
40 74 0.81
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19238417 original size:40 final size:40
Alignment explanation
Indices: 19238322--19238537 Score: 319
Period size: 40 Copynumber: 5.3 Consensus size: 40
19238312 GATAATCAGA
19238322 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGATAACCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT--CCGGG
* *
19238365 CTAAGTCCCGAAGGCATTAGTGCGAGTTACTATACCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
*
19238405 CTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
19238445 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
* * *
19238485 TTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATCC-GG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGG
*
19238524 CTAAATCCCGAAGG
1 CTAAGTCCCGAAGG
19238538 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 112 0.70
42 1 0.01
43 32 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
Found at i:19240214 original size:39 final size:39
Alignment explanation
Indices: 19240160--19240352 Score: 305
Period size: 39 Copynumber: 4.9 Consensus size: 39
19240150 AAGACACTGA
*
19240160 AAATGTATCCGGGCTAAAGTCCCGCACGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
**
19240199 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTTT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
19240238 AAATGTATCCGGACCAAAGTCCTGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
19240277 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
19240316 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCT
19240353 AATAATATAA
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 141 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:19245910 original size:12 final size:12
Alignment explanation
Indices: 19245893--19245927 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
19245883 TAAATTGCTA
19245893 ATGTGAAATGTT
1 ATGTGAAATGTT
19245905 ATGTGAAATGTT
1 ATGTGAAATGTT
19245917 ATGTGAAATGT
1 ATGTGAAATGT
19245928 GTTAACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGAAATGTT
Found at i:19246014 original size:39 final size:39
Alignment explanation
Indices: 19245960--19246231 Score: 438
Period size: 39 Copynumber: 7.0 Consensus size: 39
19245950 AAGACACTGA
19245960 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
19245999 AAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
19246038 AAATGTATCCGGGAC-AAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGG-CTAAAGTCCCGCAGGCTTCGTGCTGG
*
19246077 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
19246116 AAATGTATCTGGGCCAAAGTCCCGCAGGCTTTGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
19246155 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
19246194 AAATGTATCTGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
19246232 ATAATATAAT
Statistics
Matches: 216, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.00
39 214 0.99
40 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:19255539 original size:93 final size:93
Alignment explanation
Indices: 19255367--19255539 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 93
19255357 CGCCCATAAG
* * * * * **
19255367 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGGGTGAACTCAGACTCAACTCA
1 CGAACTCGAACTCAACCCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
19255432 ATGAGATCGTATGCCTAGTTACATCTCA
66 ACGAGATCGGATGCCTAGTTACATCTCA
* *
19255460 CGAACTCGAACTCAACCCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACCCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
19255525 ACGAGTTCGGATGCC
66 ACGAGATCGGATGCC
19255540 CAAACATCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACCCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGATCGGATGCCTAGTTACATCTCA
Found at i:19255991 original size:30 final size:30
Alignment explanation
Indices: 19255957--19256016 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19255947 ATTTAATACG
19255957 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
19255987 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19256017 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19259063 original size:37 final size:37
Alignment explanation
Indices: 19259013--19259086 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
19259003 TATACTCCTC
* * *
19259013 ATTCCTGTTATGAATCTTATCAATATAAGGTTTTATG
1 ATTCCTGCTATGAATCCTATCAAAATAAGGTTTTATG
19259050 ATTCCTGCTATGAATCCTATCAAAATAAGGTTTTATG
1 ATTCCTGCTATGAATCCTATCAAAATAAGGTTTTATG
19259087 CGGGTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATTCCTGCTATGAATCCTATCAAAATAAGGTTTTATG
Found at i:19263262 original size:46 final size:46
Alignment explanation
Indices: 19263092--19263360 Score: 196
Period size: 46 Copynumber: 5.7 Consensus size: 46
19263082 CCTTATGAGA
* *
19263092 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGGC-ATTGAGACGAGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGAC--GT
*
19263140 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCA-G-GACGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT-ATGAGACGT
* *
19263184 AAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGT
1 --GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGT
* * * * *
19263230 GTCAGTGTAAGACCATGTTTGGGACATGGCATCAGCACAAATATGTGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-GC---TATGAGACGT
* * * * *
19263280 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCCT-CGAAGATGAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTATG-AGACG-T
19263328 AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 -GCCAGTGTAAGACCATGTCTGGGACATGGCAT
19263361 TGGCACCTTA
Statistics
Matches: 181, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
44 13 0.07
45 17 0.09
46 52 0.29
47 17 0.09
48 12 0.07
49 32 0.18
50 32 0.18
51 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGT
Found at i:19272112 original size:47 final size:48
Alignment explanation
Indices: 19271996--19272306 Score: 321
Period size: 46 Copynumber: 6.7 Consensus size: 48
19271986 TGTAACCCGC
* * *
19271996 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG-GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCAGTTCACAT
*
19272042 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-AGTTCACAT
* *
19272092 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CA-TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCAGTTCACAT
* *
19272135 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GC-GTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCAGTTCACAT
* *
19272181 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-AGTTCACAT
* * **
19272231 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CA-TTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCAGTTCACAT
*
19272274 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
19272307 TGGATGCTCA
Statistics
Matches: 224, Mismatches: 21, Indels: 40
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 3 0.01
45 4 0.02
46 126 0.56
47 57 0.25
48 6 0.03
49 3 0.01
50 7 0.03
51 6 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCAGTTCACAT
Found at i:19272165 original size:139 final size:139
Alignment explanation
Indices: 19271996--19272304 Score: 564
Period size: 139 Copynumber: 2.2 Consensus size: 139
19271986 TGTAACCCGC
* * * *
19271996 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACT
19272061 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
19272126 CATTCGCAT
131 CATTCGCAT
19272135 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACT
*
19272200 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
*
19272265 CATTTGCAT
131 CATTCGCAT
19272274 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
19272305 TTTGGATGCT
Statistics
Matches: 164, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 164 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (139 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACT
CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
CATTCGCAT
Found at i:19272240 original size:93 final size:93
Alignment explanation
Indices: 19272143--19272313 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
19272133 ATCCATAAGT
* *
19272143 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
19272208 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* ** *
19272236 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
19272301 CGAGTTTGGATGC
66 CGAGTTCGGATGC
19272314 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:19280006 original size:28 final size:28
Alignment explanation
Indices: 19279966--19280058 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
19279956 ATTGCATGAC
*
19279966 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATTAGGGCCGATGGGCCA
*
19279994 TATGAATGTGATTAGGGCTGATGGGCCA
1 TATGAATGTGATTAGGGCCGATGGGCCA
* * * * *
19280022 TATGAATGTGTTTTGGGCCTAATAGGTCA
1 TATGAATGTGATTAGGGCC-GATGGGCCA
19280051 TATGAATG
1 TATGAATG
19280059 AGAGTGGGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 42 0.75
29 14 0.25
ACGTcount: A:0.25, C:0.11, G:0.33, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTAGGGCCGATGGGCCA
Found at i:19281827 original size:12 final size:12
Alignment explanation
Indices: 19281812--19281842 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
19281802 AGAGGTGCAA
19281812 GAGGCCGTGGCC
1 GAGGCCGTGGCC
19281824 GAGGCCGTGGCC
1 GAGGCCGTGGCC
19281836 GAGGCCG
1 GAGGCCG
19281843 CAGAAGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.32, G:0.52, T:0.06
Consensus pattern (12 bp):
GAGGCCGTGGCC
Found at i:19282244 original size:30 final size:30
Alignment explanation
Indices: 19282210--19282271 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
19282200 GGACAAGGTG
19282210 TGATGGGCAAAACATGTCATAGACATGTTT
1 TGATGGGCAAAACATGTCATAGACATGTTT
19282240 TGATGGGCAAAACATGTCATAGACATGTTT
1 TGATGGGCAAAACATGTCATAGACATGTTT
19282270 TG
1 TG
19282272 TTGGTGCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (30 bp):
TGATGGGCAAAACATGTCATAGACATGTTT
Found at i:19283723 original size:28 final size:28
Alignment explanation
Indices: 19283685--19283838 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
19283675 TAAATTGTAC
*
19283685 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19283713 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
19283741 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19283769 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19283797 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19283824 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19283839 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.20
28 97 0.80
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:19288209 original size:28 final size:27
Alignment explanation
Indices: 19288169--19288268 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 27
19288159 TGCATGACTC
19288169 TGAATGTGATTGGAGCCAATGGGCCATA
1 TGAATGTGATTGG-GCCAATGGGCCATA
* *
19288197 TGAATATGATTGGGGCCGATGGGCCATA
1 TGAATGTGATT-GGGCCAATGGGCCATA
19288225 T-AATGTGATTTGGGCCTAATGGGCCATA
1 TGAATGTGA-TTGGGCC-AATGGGCCATA
* *
19288253 TGAATGAGAGTGGGCC
1 TGAATGTGATTGGGCC
19288269 TAGTGGGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
27 11 0.18
28 43 0.69
29 8 0.13
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (27 bp):
TGAATGTGATTGGGCCAATGGGCCATA
Found at i:19292934 original size:28 final size:29
Alignment explanation
Indices: 19292894--19292982 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 29
19292884 ATTGCATGAC
* *
19292894 TATGAATGTGATTGGGGCC-GATGGGTCA
1 TATGAATGTGATTGGGGCCTAATGGGCCA
*
19292922 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGGCCTAATGGGCCA
* * * * *
19292951 TACGAATGAGAGT-AGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGGCCTAATGGGCCA
19292979 TATG
1 TATG
19292983 CATATATACA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 34 0.67
29 17 0.33
ACGTcount: A:0.25, C:0.13, G:0.35, T:0.27
Consensus pattern (29 bp):
TATGAATGTGATTGGGGCCTAATGGGCCA
Found at i:19300060 original size:29 final size:28
Alignment explanation
Indices: 19299995--19300080 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
19299985 TACATGTATC
* * *
19299995 TGGCCCATTAAGCCCATTCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
19300023 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
19300052 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
19300080 T
1 T
19300081 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:19300161 original size:17 final size:18
Alignment explanation
Indices: 19300139--19300172 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19300129 TGCCTATTAT
19300139 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
19300156 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
19300173 TCTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:19300304 original size:8 final size:8
Alignment explanation
Indices: 19300291--19300334 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
19300281 GTAGCCAAAC
*
19300291 TTTCGGCT
1 TTTCGGCA
19300299 TTTCGGCA
1 TTTCGGCA
* **
19300307 TTTCAGTT
1 TTTCGGCA
19300315 TTTCGGCA
1 TTTCGGCA
19300323 TTTCGGCA
1 TTTCGGCA
19300331 TTTC
1 TTTC
19300335 AGCTTTTGCC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.48
Consensus pattern (8 bp):
TTTCGGCA
Found at i:19300326 original size:24 final size:24
Alignment explanation
Indices: 19300291--19300341 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
19300281 GTAGCCAAAC
* *
19300291 TTTCGGCTTTTCGGCATTTCAGTT
1 TTTCGGCATTTCGGCATTTCAGCT
19300315 TTTCGGCATTTCGGCATTTCAGCT
1 TTTCGGCATTTCGGCATTTCAGCT
19300339 TTT
1 TTT
19300342 GCCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.49
Consensus pattern (24 bp):
TTTCGGCATTTCGGCATTTCAGCT
Found at i:19300334 original size:16 final size:16
Alignment explanation
Indices: 19300291--19300334 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
19300281 GTAGCCAAAC
19300291 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
* *
19300307 TTTCAGTTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
19300323 TTTCGGCATTTC
1 TTTCGGCTTTTC
19300335 AGCTTTTGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.48
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:19308181 original size:40 final size:40
Alignment explanation
Indices: 19308125--19308234 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
19308115 NNNNNNNNNN
19308125 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
19308165 TGAAGGCATTTGTGCGAGTTACTATATCCGGGCTATGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
19308205 CGAAGGCATTCGAGCGAG-TAGCTATATCCG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCG
19308235 ATTAAATCCC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.03
40 62 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:19321041 original size:54 final size:54
Alignment explanation
Indices: 19320846--19321050 Score: 223
Period size: 55 Copynumber: 3.8 Consensus size: 54
19320836 TTTCCTTTTT
* * * * * * *
19320846 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA-C
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCTTTGCCTTATA
* * ** * *
19320899 GAACTCACCAATGCCACGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCTTTGCCTTATA
* * *
19320953 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCTTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCTTTGCCTTATA
* * *
19321008 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATC
19321051 CTTATCTTAC
Statistics
Matches: 126, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 42 0.33
54 39 0.31
55 45 0.36
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCTTTGCCTTATA
Found at i:19321087 original size:47 final size:47
Alignment explanation
Indices: 19321032--19321153 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
19321022 CATGCCTTGG
*
19321032 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
19321079 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCTAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
19321126 CATGGTTTTACATGATATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
19321154 GTGCCAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:19321341 original size:44 final size:44
Alignment explanation
Indices: 19321292--19321376 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
19321282 ATCCTTAACC
* *
19321292 GTCAATTCCTCCTTAGA-TGCCATGTTATGAA-CATGGACTTTTCT
1 GTCAATTCCTCCTTA-ATTGCCATGGTA-CAACCATGGACTTTTCT
*
19321336 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAATTGCCATGGTACAACCATGGACTTT
19321377 GAGATATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAATTGCCATGGTACAACCATGGACTTTTCT
Found at i:19324951 original size:16 final size:16
Alignment explanation
Indices: 19324932--19324962 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19324922 CTTCTTCACT
19324932 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19324948 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19324963 TCATATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19325289 original size:53 final size:53
Alignment explanation
Indices: 19325211--19325413 Score: 237
Period size: 53 Copynumber: 3.8 Consensus size: 53
19325201 TTTTGAAACC
* * *
19325211 TACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
* * * *
19325264 CACCAATGCCATGCCTTGGCATGGTCTTGCATGGGA-CCTTTGCCTTATAGAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACT
* * * * **
19325319 TATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTTCCTTAAAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
*
19325372 TACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
19325414 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 47 0.38
54 33 0.27
55 40 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (53 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
Found at i:19332600 original size:16 final size:16
Alignment explanation
Indices: 19332579--19332613 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
19332569 GTCATAGACA
19332579 TAAATACTCACTTACT
1 TAAATACTCACTTACT
*
19332595 TAAATACTTACTTACT
1 TAAATACTCACTTACT
19332611 TAA
1 TAA
19332614 TCAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATACTCACTTACT
Found at i:19332948 original size:53 final size:53
Alignment explanation
Indices: 19332827--19333065 Score: 220
Period size: 55 Copynumber: 4.5 Consensus size: 53
19332817 ATTGCCTTGA
* * *
19332827 CTTGTCATGGTCTTACATGGTATCCTT---TT-GAAACTTACCATTGTCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGTCATGC
* * *
19332876 CTCGACATGGTCTTACATGGTATCCTTGCTTTATG-AACTCACCAATGTCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACTTACCAATGTCATGC
* * * * *
19332929 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAATGTCATGC
* * *
19332984 CTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTAACAATTTCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAATGT-CATGC
* * * *
19333039 CTTGGCATAGTCTTAAATGGTACCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
19333066 AAACCCTAAT
Statistics
Matches: 153, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 25 0.16
52 4 0.03
53 44 0.29
54 12 0.08
55 66 0.43
56 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGTCATGC
Found at i:19340812 original size:22 final size:22
Alignment explanation
Indices: 19340793--19340835 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19340783 ATACTTTACA
19340793 GATTTAAAATTT-TGAATTTAAT
1 GATTTAAAATTTATG-ATTTAAT
*
19340815 GATTTACAATTTATGATTTAA
1 GATTTAAAATTTATGATTTAA
19340836 GCTTTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
GATTTAAAATTTATGATTTAAT
Found at i:19340914 original size:26 final size:26
Alignment explanation
Indices: 19340843--19340933 Score: 116
Period size: 26 Copynumber: 3.5 Consensus size: 26
19340833 TAAGCTTTAG
* *
19340843 TATTTATTTATAATTAATTATTATTCAA
1 TATTTATTTATAAATAA-AATTATT-AA
*
19340871 T-TCTA-TT-TAAATAAAATTATTAA
1 TATTTATTTATAAATAAAATTATTAA
19340894 TATTTATTTATAAATAAAATTATTAA
1 TATTTATTTATAAATAAAATTATTAA
19340920 TATTTATTTATAAA
1 TATTTATTTATAAA
19340934 CATTTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.05
24 9 0.16
25 8 0.14
26 32 0.57
27 3 0.05
28 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTTATTTATAAATAAAATTATTAA
Found at i:19341444 original size:34 final size:32
Alignment explanation
Indices: 19341403--19341523 Score: 82
Period size: 41 Copynumber: 3.4 Consensus size: 32
19341393 AAATAAATCA
19341403 AGGTTTAGATTTTTTTTAAAAAATAATTAAATT
1 AGGTTTAG-TTTTTTTTAAAAAATAATTAAATT
***
19341436 AGGTTTTAG-GGGTTTTAAATAAATAAATTAAATT
1 AGG-TTTAGTTTTTTTTAAA-AAAT-AATTAAATT
19341470 AGAGTTTAGAGTTTAGAGTTTTTAAGAAAATTAATTAAATT
1 AG-GTTT--AGTTT----TTTTTAA-AAAA-TAATTAAATT
19341511 AGGGTTTAGTTTT
1 A-GGTTTAGTTTT
19341524 AAAAAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
32 7 0.10
33 7 0.10
34 19 0.28
35 2 0.03
36 2 0.03
39 5 0.07
41 23 0.34
42 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.45
Consensus pattern (32 bp):
AGGTTTAGTTTTTTTTAAAAAATAATTAAATT
Found at i:19341485 original size:41 final size:41
Alignment explanation
Indices: 19341440--19341519 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
19341430 TAAATTAGGT
*
19341440 TTTAGGGGTTTTAA-ATAAATAAATTAAATTAGAGTTTAGAG
1 TTTAGAGGTTTTAAGA-AAATAAATTAAATTAGAGTTTAGAG
* * *
19341481 TTTAGAGTTTTTAAGAAAATTAATTAAATTAGGGTTTAG
1 TTTAGAGGTTTTAAGAAAATAAATTAAATTAGAGTTTAG
19341520 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.41
Consensus pattern (41 bp):
TTTAGAGGTTTTAAGAAAATAAATTAAATTAGAGTTTAGAG
Found at i:19341949 original size:127 final size:126
Alignment explanation
Indices: 19341595--19341988 Score: 440
Period size: 126 Copynumber: 3.1 Consensus size: 126
19341585 TTATTTTATT
* * * * * *
19341595 TTTTTCTACAGTAGTT-GTAGAAAAATTAATTTTAAGAAGATGG-TCGTGAAAAGATAATATCAA
1 TTTTTCTACAGTAGTTCCT-GAAAAAATAATTTTGAGAAGACGGTTC-T-AAAAAATAGTATCAA
* * * * *
19341658 AAACACTTCAAGTAGGATGCACTATCAGCAAAATTATTG-AAAAAAGGTCTCACATGGACACTC
63 AAATACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACATGGACACTC
* * * *
19341721 TTTTTCTACCA-TAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAGAGTTTCAAAA
1 TTTTTCTA-CAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTATCAAAA
* * * * *
19341785 ATACTTCAAGCAGGATGCATTGTCAACAAAATTACTGAAAAAAAGCTCCCACATTGACGCTC
65 ATACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACATGGACACTC
* *
19341847 TTTTTCTACTGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTATCAAAA
* * * * ** *
19341912 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTG--AAAAATCTTCCACGTGGATGCCC
65 ATACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACATGGACACTC
19341972 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
19341989 TTGTTTGGCC
Statistics
Matches: 226, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
125 77 0.34
126 97 0.43
127 52 0.23
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTATCAAAAA
TACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACATGGACACTC
Found at i:19344500 original size:40 final size:40
Alignment explanation
Indices: 19344348--19344493 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
19344338 TTGAATGATG
* * * * *
19344348 TCCGGGATAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
19344388 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19344428 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19344469 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19344494 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19344500 original size:80 final size:80
Alignment explanation
Indices: 19344348--19344526 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
19344338 TTGAATGATG
* * *
19344348 TCCGGGATAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
19344413 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
19344428 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
19344491 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
19344508 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19344527 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:19347293 original size:18 final size:18
Alignment explanation
Indices: 19347267--19347309 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19347257 GACTGGGAAA
* **
19347267 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGACT
19347285 AGGATACATATAAGGACT
1 AGGATACATATAAGGACT
19347303 AGGATAC
1 AGGATAC
19347310 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:19351771 original size:21 final size:22
Alignment explanation
Indices: 19351740--19351781 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
19351730 TGTTTACTTT
19351740 TATTAAAGTTAAAAGTCAAAAC
1 TATTAAAGTTAAAAGTCAAAAC
*
19351762 TATT-AAGTTAAAAGTTAAAA
1 TATTAAAGTTAAAAGTCAAAA
19351782 TTATGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
TATTAAAGTTAAAAGTCAAAAC
Found at i:19354411 original size:18 final size:18
Alignment explanation
Indices: 19354352--19354404 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
19354342 ACTTTTCCTT
19354352 TTCTTTT-TTTTTTTCCA
1 TTCTTTTCTTTTTTTCCA
*
19354369 TTCTTTTCTTTTTATCCA
1 TTCTTTTCTTTTTTTCCA
*
19354387 TTGTTTTCCTTTCTTTTC
1 TTCTTTT-CTTT-TTTTC
19354405 TTTTTTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.23
18 15 0.50
19 4 0.13
20 4 0.13
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.72
Consensus pattern (18 bp):
TTCTTTTCTTTTTTTCCA
Found at i:19356814 original size:5 final size:5
Alignment explanation
Indices: 19356804--19356829 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19356794 GAGATGGGAT
19356804 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
19356830 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:19359697 original size:40 final size:40
Alignment explanation
Indices: 19359638--19359785 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
19359628 GAGCATTGGA
*
19359638 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
19359678 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
19359718 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
19359758 ATATGTCTGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
19359786 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:19361385 original size:9 final size:9
Alignment explanation
Indices: 19361373--19361405 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
19361363 TAGAGTTGAT
*
19361373 TCGATTAAT
1 TCGATTAAC
19361382 TCGATTAAC
1 TCGATTAAC
19361391 TCGATTAAC
1 TCGATTAAC
19361400 TCGATT
1 TCGATT
19361406 TGAATAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (9 bp):
TCGATTAAC
Found at i:19371123 original size:40 final size:40
Alignment explanation
Indices: 19371040--19371382 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
19371030 TTGAATGCTG
* * * * * *
19371040 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
19371080 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
19371120 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
19371160 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
19371200 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
19371240 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
19371280 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19371320 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19371359 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19371383 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:19378826 original size:39 final size:39
Alignment explanation
Indices: 19378662--19378844 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
19378652 TTGAATGCTG
* * * * * * *
19378662 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
19378702 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
19378742 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
19378782 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
19378821 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
19378845 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:19378864 original size:79 final size:80
Alignment explanation
Indices: 19378698--19378879 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
19378688 GCTAAGTGAA
* * * *
19378698 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
19378762 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
19378778 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
19378842 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
19378857 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
19378880 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:19381594 original size:49 final size:48
Alignment explanation
Indices: 19381517--19381651 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 48
19381507 AGAAATTTCA
* * *
19381517 GCACTATGTATGCGAGGTTATACGGCACTATGTGTGCAA-AAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAA--ACATG
* * *
19381566 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGCAAGGAAACGTG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAAACATG
* *
19381614 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
19381652 GGACCTTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 3 0.04
48 20 0.27
49 50 0.67
50 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAAACATG
Found at i:19381598 original size:24 final size:24
Alignment explanation
Indices: 19381516--19381602 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
19381506 AAGAAATTTC
* * *
19381516 AGCACTATGTATGCGAGGTTATAC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
19381540 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
19381565 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
19381589 AGCACTATGTGTGC
1 AGCACTATGTGTGC
19381603 AAGGAAACGT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 31 0.63
25 18 0.37
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:19384706 original size:13 final size:13
Alignment explanation
Indices: 19384688--19384712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19384678 CATTATCAAC
19384688 TCAAAATTCAAAA
1 TCAAAATTCAAAA
19384701 TCAAAATTCAAA
1 TCAAAATTCAAA
19384713 TCACATTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TCAAAATTCAAAA
Found at i:19389125 original size:40 final size:40
Alignment explanation
Indices: 19389059--19389242 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
19389049 TCGAATGATA
* * * *
19389059 TCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAGTGACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
19389099 TCCGGGCTAAGTCCCGTAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
19389139 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * **
19389178 ATCCAGGATAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
19389220 T-CGGGCTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19389243 CAATGTGAAG
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 121 0.96
41 1 0.01
42 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:19392274 original size:42 final size:43
Alignment explanation
Indices: 19392165--19392321 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
19392155 AGCTCGTACA
* * * *
19392165 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAA-GTCG
* * *
19392208 ATG-CTACTGTCCCAGATAGGGTCTTACACG-AAATC-AAGTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAGT-CG
* * *
19392250 ATGCCGATGTCCTAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AAGTCG
**
19392294 ATGCCAACGTCCCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
19392322 TGATAACACA
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 32 0.36
44 25 0.28
45 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAGTCG
Found at i:19394319 original size:27 final size:27
Alignment explanation
Indices: 19394289--19394343 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
19394279 AATATGCCAT
* *
19394289 ATAGGTACCTCAATCACAATCAAACTA
1 ATAGGCACCTCAATCAAAATCAAACTA
19394316 ATAGGCACCTCAATCAAAATCAAACTA
1 ATAGGCACCTCAATCAAAATCAAACTA
19394343 A
1 A
19394344 CATGCCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.20
Consensus pattern (27 bp):
ATAGGCACCTCAATCAAAATCAAACTA
Found at i:19395121 original size:30 final size:30
Alignment explanation
Indices: 19395065--19395121 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
19395055 GTATCGGGGA
* *
19395065 ACACACAGCTATGTCACCTAGCCGTGTGTG
1 ACACACAGCTAAGTCACATAGCCGTGTGTG
*
19395095 ACACACGGCTAAGTCACAT-GCGCGTGT
1 ACACACAGCTAAGTCACATAGC-CGTGT
19395122 CTCTGCCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (30 bp):
ACACACAGCTAAGTCACATAGCCGTGTGTG
Found at i:19399689 original size:93 final size:93
Alignment explanation
Indices: 19399577--19399748 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19399567 CGCCCATAAG
* *
19399577 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19399642 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
19399670 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19399735 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
19399749 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:19399745 original size:46 final size:46
Alignment explanation
Indices: 19399570--19399745 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19399560 TGTAACCCGC
* * *
19399570 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
19399616 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
19399666 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
19399709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
19399746 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:19407214 original size:46 final size:46
Alignment explanation
Indices: 19407147--19407367 Score: 363
Period size: 46 Copynumber: 4.8 Consensus size: 46
19407137 TGTAACCCGC
* *
19407147 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
19407193 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19407239 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19407285 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19407331 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
19407368 TGCTCAACCA
Statistics
Matches: 170, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
45 2 0.01
46 168 0.99
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:19413434 original size:16 final size:16
Alignment explanation
Indices: 19413413--19413444 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19413403 AAATTTGAGA
19413413 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
19413429 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
19413445 GCGTTTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:19423526 original size:17 final size:17
Alignment explanation
Indices: 19423504--19423536 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19423494 TACATTGTAG
19423504 TGTTTTAGTGAAAACCT
1 TGTTTTAGTGAAAACCT
*
19423521 TGTTTTATTGAAAACC
1 TGTTTTAGTGAAAACC
19423537 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (17 bp):
TGTTTTAGTGAAAACCT
Found at i:19424702 original size:29 final size:29
Alignment explanation
Indices: 19424642--19424725 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 29
19424632 ACGTACCTTT
* * *
19424642 ATATGACCCACTAGGCCC-AATCTCTTTC
1 ATATGGCCCACTAGGCCCAAATCACATTC
*
19424670 ATATGGCCCAGTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCCAAATCACATTC
* * *
19424699 ATATGG-CCATTAAGCCCAAATTACATT
1 ATATGGCCCACTAGGCCCAAATCACATT
19424726 TATAGTCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 34 0.71
29 14 0.29
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAAATCACATTC
Found at i:19426660 original size:47 final size:47
Alignment explanation
Indices: 19426609--19426748 Score: 210
Period size: 47 Copynumber: 3.0 Consensus size: 47
19426599 CTGTACTAGC
* * * *
19426609 TAAAACATATTAAATTAACTTAGGACATATTAAATAGCTGAACTAAT
1 TAAAACATATTAAATAAACTTAAGACAAATTAAATAGCTAAACTAAT
*
19426656 TAAAACATATTAAATAAACTTAAGACAAATTAAATTGCTAAACTAAT
1 TAAAACATATTAAATAAACTTAAGACAAATTAAATAGCTAAACTAAT
*
19426703 TAGAACATATTAAATAAACTTAAGACAAATTAAATA-CTTAAACTAA
1 TAAAACATATTAAATAAACTTAAGACAAATTAAATAGC-TAAACTAA
19426749 AATAACTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 1 0.01
47 84 0.99
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (47 bp):
TAAAACATATTAAATAAACTTAAGACAAATTAAATAGCTAAACTAAT
Found at i:19426675 original size:23 final size:23
Alignment explanation
Indices: 19426649--19426722 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 23
19426639 TAAATAGCTG
19426649 AACTAATTAAAACATATTAAATA
1 AACTAATTAAAACATATTAAATA
* *
19426672 AAC---TTAAGACAAATTAAATTGCTA
1 AACTAATTAAAACATATTAAA----TA
*
19426696 AACTAATTAGAACATATTAAATA
1 AACTAATTAAAACATATTAAATA
19426719 AACT
1 AACT
19426723 TAAGACAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
20 13 0.33
23 9 0.23
24 5 0.13
27 12 0.31
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (23 bp):
AACTAATTAAAACATATTAAATA
Found at i:19426687 original size:20 final size:20
Alignment explanation
Indices: 19426664--19426738 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 20
19426654 ATTAAAACAT
19426664 ATTAAATAAACTTAAGACAA
1 ATTAAATAAACTTAAGACAA
* *
19426684 ATTAAATTGCTAAACTAATTAGAACAT
1 ATTAAA----TAAACT--TAAG-ACAA
19426711 ATTAAATAAACTTAAGACAA
1 ATTAAATAAACTTAAGACAA
19426731 ATTAAATA
1 ATTAAATA
19426739 CTTAAACTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
20 17 0.39
21 3 0.07
23 6 0.14
24 6 0.14
26 3 0.07
27 9 0.20
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.29
Consensus pattern (20 bp):
ATTAAATAAACTTAAGACAA
Found at i:19428887 original size:47 final size:47
Alignment explanation
Indices: 19428836--19428975 Score: 210
Period size: 47 Copynumber: 3.0 Consensus size: 47
19428826 CTGTACTAGC
* * * *
19428836 TAAAACATATTAAATTAACTTAGGACATATTAAATAGCTGAACTAAT
1 TAAAACATATTAAATAAACTTAAGACAAATTAAATAGCTAAACTAAT
*
19428883 TAAAACATATTAAATAAACTTAAGACAAATTAAATTGCTAAACTAAT
1 TAAAACATATTAAATAAACTTAAGACAAATTAAATAGCTAAACTAAT
*
19428930 TAGAACATATTAAATAAACTTAAGACAAATTAAATA-CTTAAACTAA
1 TAAAACATATTAAATAAACTTAAGACAAATTAAATAGC-TAAACTAA
19428976 AATAACTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 1 0.01
47 84 0.99
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (47 bp):
TAAAACATATTAAATAAACTTAAGACAAATTAAATAGCTAAACTAAT
Found at i:19428902 original size:23 final size:23
Alignment explanation
Indices: 19428876--19428949 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 23
19428866 TAAATAGCTG
19428876 AACTAATTAAAACATATTAAATA
1 AACTAATTAAAACATATTAAATA
* *
19428899 AAC---TTAAGACAAATTAAATTGCTA
1 AACTAATTAAAACATATTAAA----TA
*
19428923 AACTAATTAGAACATATTAAATA
1 AACTAATTAAAACATATTAAATA
19428946 AACT
1 AACT
19428950 TAAGACAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
20 13 0.33
23 9 0.23
24 5 0.13
27 12 0.31
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (23 bp):
AACTAATTAAAACATATTAAATA
Done.