Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 165 of 199
Found at i:48487633 original size:8 final size:8
Alignment explanation
Indices: 48487620--48487668 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
48487610 ATTTAGGTCT
48487620 TTTAAAAA
1 TTTAAAAA
48487628 TTTAAAAA
1 TTTAAAAA
*
48487636 TTT-TAAA
1 TTTAAAAA
* *
48487643 -TTGATAA
1 TTTAAAAA
48487650 TTTAAAAA
1 TTTAAAAA
48487658 TTTAAAAA
1 TTTAAAAA
48487666 TTT
1 TTT
48487669 TAAATTGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 2 0.06
7 5 0.15
8 27 0.79
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (8 bp):
TTTAAAAA
Found at i:48487654 original size:30 final size:30
Alignment explanation
Indices: 48487620--48487679 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
48487610 ATTTAGGTCT
48487620 TTTAAAAATTTAAAAATTTTAAATTGATAA
1 TTTAAAAATTTAAAAATTTTAAATTGATAA
48487650 TTTAAAAATTTAAAAATTTTAAATTGATAA
1 TTTAAAAATTTAAAAATTTTAAATTGATAA
48487680 ATATAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAAAAATTTAAAAATTTTAAATTGATAA
Found at i:48487689 original size:30 final size:30
Alignment explanation
Indices: 48487622--48487687 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
48487612 TTAGGTCTTT
*
48487622 TAAAAATTTAAAAATTTTAAATTGATAATT
1 TAAAAATTTAAAAATTTTAAATTGATAATA
48487652 TAAAAATTTAAAAATTTTAAATTGATAAATA
1 TAAAAATTTAAAAATTTTAAATTGAT-AATA
48487683 TAAAA
1 TAAAA
48487688 TTACACTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAAAATTTAAAAATTTTAAATTGATAATA
Found at i:48487719 original size:32 final size:28
Alignment explanation
Indices: 48487678--48487748 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 28
48487668 TTAAATTGAT
48487678 AAATATAAAA-TTACACTTTAATCCCTTCTAA
1 AAATATAAAATTTA-A-TTTAAT-CCTT-TAA
48487709 AAATGATAAAAATTTAATTTAATCCTTTAA
1 AAAT-AT-AAAATTTAATTTAATCCTTTAA
48487739 AAATTATAAA
1 AAA-TATAAA
48487749 GATATAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
29 3 0.08
30 8 0.22
31 9 0.25
32 8 0.22
33 5 0.14
34 3 0.08
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (28 bp):
AAATATAAAATTTAATTTAATCCTTTAA
Found at i:48488242 original size:21 final size:21
Alignment explanation
Indices: 48488198--48488242 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48488188 ACTGTTGGTG
* *
48488198 TGGCAAGTTAACTAGCTAATT
1 TGGCAAGTTAACTAGCCAAGT
* *
48488219 TGGCTAGTTAACTTGCCAAGT
1 TGGCAAGTTAACTAGCCAAGT
48488240 TGG
1 TGG
48488243 AATTGAGCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (21 bp):
TGGCAAGTTAACTAGCCAAGT
Found at i:48490410 original size:3 final size:3
Alignment explanation
Indices: 48490402--48490434 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
48490392 TAAAGTGGTA
*
48490402 TTC TTC TTC TTT TTC TTC TTC TTC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
48490435 ACATCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:48493495 original size:32 final size:31
Alignment explanation
Indices: 48493446--48493531 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 31
48493436 TGAAATATTT
48493446 AAAAGTTTTCATTTAAGTAACTAAACCATTC
1 AAAAGTTTTCATTTAAGTAACTAAACCATTC
* * * *
48493477 AAGAGTTTTCAATTTAAGTTATTAAACTATTC
1 AAAAGTTTTC-ATTTAAGTAACTAAACCATTC
* * *
48493509 AAAAGTTTTTATATAAGTCACTA
1 AAAAGTTTTCATTTAAGTAACTA
48493532 GGTTGCTAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 19 0.42
32 26 0.58
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (31 bp):
AAAAGTTTTCATTTAAGTAACTAAACCATTC
Found at i:48494133 original size:12 final size:12
Alignment explanation
Indices: 48494116--48494141 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48494106 TTTACAACAC
48494116 AAATTTGGGTGT
1 AAATTTGGGTGT
48494128 AAATTTGGGTGT
1 AAATTTGGGTGT
48494140 AA
1 AA
48494142 GTAATTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (12 bp):
AAATTTGGGTGT
Found at i:48495793 original size:32 final size:30
Alignment explanation
Indices: 48495745--48495811 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
48495735 TCACCCATAT
*
48495745 TATTTTTTAATTTTTAAAAATATTTATATTA
1 TATTTTTTAATATTTAAAAAT-TTTATATTA
*
48495776 TATTATTTTAATATTTAATAATTTTATA-TA
1 TATT-TTTTAATATTTAAAAATTTTATATTA
48495806 T-TTTTT
1 TATTTTT
48495812 ATTTATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 2 0.06
30 3 0.09
31 10 0.30
32 15 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTTTTAATATTTAAAAATTTTATATTA
Found at i:48495815 original size:32 final size:32
Alignment explanation
Indices: 48495745--48495804 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
48495735 TCACCCATAT
*
48495745 TATT-TTTTAATTTTTAAAAATATTTATATTA
1 TATTATTTTAATATTTAAAAATATTTATATTA
*
48495776 TATTATTTTAATATTTAATAAT-TTTATAT
1 TATTATTTTAATATTTAAAAATATTTATAT
48495805 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
TATTATTTTAATATTTAAAAATATTTATATTA
Found at i:48496149 original size:24 final size:24
Alignment explanation
Indices: 48496104--48496149 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
48496094 ACAAATTTAT
* *
48496104 TTATTAAAAATTAATTTCATAACA
1 TTATTAAAAAGTAATTTAATAACA
* *
48496128 TTATTACAAAGTAGTTTAATAA
1 TTATTAAAAAGTAATTTAATAA
48496150 TATATAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
TTATTAAAAAGTAATTTAATAACA
Found at i:48506658 original size:44 final size:45
Alignment explanation
Indices: 48506593--48506683 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
48506583 ACCTCTATTC
* * *
48506593 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
48506637 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
48506682 CA
1 CA
48506684 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:48506685 original size:16 final size:16
Alignment explanation
Indices: 48506664--48506699 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
48506654 GATTAGCTAT
48506664 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48506680 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48506696 TACA
1 TACA
48506700 GTGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48506863 original size:27 final size:27
Alignment explanation
Indices: 48506825--48506880 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48506815 ATGCATCACA
48506825 ACCATGGCACTTGAGAATACTTTCAGC
1 ACCATGGCACTTGAGAATACTTTCAGC
48506852 ACCATGGCACTTGAGAATACTTTCAGC
1 ACCATGGCACTTGAGAATACTTTCAGC
48506879 AC
1 AC
48506881 TCCACCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (27 bp):
ACCATGGCACTTGAGAATACTTTCAGC
Found at i:48512788 original size:19 final size:20
Alignment explanation
Indices: 48512748--48512791 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
48512738 GTCTCTTTTC
* *
48512748 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
48512767 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
48512786 GCATTA
1 GCATTA
48512792 AAAACCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:48517447 original size:132 final size:132
Alignment explanation
Indices: 48517044--48518077 Score: 1505
Period size: 132 Copynumber: 7.9 Consensus size: 132
48517034 TAGATAGCGA
* * * *
48517044 AGCAGAACAAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTA-ATTGTAA-CCAATAA
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTG-AAGCCAGTAA
* * * *
48517107 -T-T-CTTCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
48517169 TGG
130 TGG
* *
48517172 AGCGGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
48517237 TCTAGTTCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
48517301 GG
131 GG
48517303 AGCAGATCAAAGATGGTGGATTTTACCTCCCT-ATGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAA
* * *
48517367 TTTTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAG
65 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
48517432 TGG
130 TGG
* * *
48517435 AGCAGATCAAAGATTGTGAATTTTACCTCCCTG-TGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
48517499 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGT
66 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
48517564 GG
131 GG
* * *
48517566 AGCAGATCAAAGATGGTGAATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
48517631 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGTCTCCCCAAGCAGTAGT
66 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
48517696 GG
131 GG
* * * *
48517698 AGCAGATCACAGGTGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGAAAT
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
48517763 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
*
48517828 GA
131 GG
**
48517830 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
48517895 ACTA-TCTCCCTGGGC-GACAGTGGAATAGATTGGAGATTACAGATCTTGTCTCCCTAAGCAGTA
66 TCTACT-TCCCTGGGCAG-CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
48517958 GTGG
129 GTGG
* ** * *
48517962 AACAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * ***
48518027 TCTA-TTCCCTCGGTCGGCAGTGGAATCGATCGAAGAAAGCAGATCTTGTCT
66 TCTACTTCCCT-GGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCT
48518078 TCATGTATTG
Statistics
Matches: 834, Mismatches: 59, Indels: 22
0.91 0.06 0.02
Matches are distributed among these distances:
128 46 0.06
129 10 0.01
130 2 0.00
131 254 0.30
132 521 0.62
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
GG
Found at i:48517517 original size:263 final size:264
Alignment explanation
Indices: 48517044--48518077 Score: 1509
Period size: 263 Copynumber: 3.9 Consensus size: 264
48517034 TAGATAGCGA
* * *
48517044 AGCAGAACAAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTA-ATTGTAA-CCAATAA
1 AGCAGATCAAAGATGGTAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTG-AAGCCAGTAA
* * * * *
48517107 -T-T-CTTCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAG
* * *
48517169 TGGAGCGGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
130 TGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
* *
48517234 AATTCTAGTTCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
195 AATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
48517298 AGTGG
260 AGTGG
*
48517303 AGCAGATCAAAGATGGTGGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGTAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
48517368 TTTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGT
66 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGT
* *
48517433 GGAGCAGATCAAAGATTGTGAATTTTACCTCCCTG-TGTTACAGTGGAGTACATTGAAGCCAGTA
131 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
*
48517497 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTA
196 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
48517562 GTGG
261 GTGG
* *
48517566 AGCAGATCAAAGATGGT-GAATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGTAG-ATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAA
*
48517630 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGTCTCCCCAAGCAGTAG
65 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAG
* * *
48517695 TGGAGCAGATCACAGGTGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGA
130 TGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
* * *
48517760 AATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGT
195 AATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
*
48517825 AGTGA
260 AGTGG
*
48517830 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGTAGATTTTACCTCCCT-ATGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * *
48517894 TACTA-TCTCCCTGGGC-GACAGTGGAATAGATTGGAGATTACAGATCTTGTCTCCCTAAGCAGT
65 TTCTACT-TCCCTGGGCAG-CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGT
* * * *
48517957 AGTGGAACAGATCAAAGATGG-CAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCC
128 AGTGGAGCAGATCAAAGATGGTGA-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
* * * * ***
48518021 AGTAATTCTA-TTCCCTCGGTCGGCAGTGGAATCGATCGAAGAAAGCAGATCTTGTCT
192 AGTAATTCTACTTCCCT-GGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCT
48518078 TCATGTATTG
Statistics
Matches: 704, Mismatches: 57, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
259 48 0.07
260 10 0.01
261 1 0.00
262 42 0.06
263 303 0.43
264 299 0.42
265 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (264 bp):
AGCAGATCAAAGATGGTAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGT
GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
GTGG
Found at i:48519697 original size:24 final size:24
Alignment explanation
Indices: 48519653--48519698 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
48519643 AATTGAGTCC
*
48519653 ATTTTTTTTAGCTATTTTTATAAT
1 ATTTTTTTTAGCTATTATTATAAT
*
48519677 ATTTTTTATTATC-ATTATTATA
1 ATTTTTT-TTAGCTATTATTATA
48519699 CCTATCTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTTTTTTTAGCTATTATTATAAT
Found at i:48520788 original size:3 final size:3
Alignment explanation
Indices: 48520780--48520828 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
48520770 CGGTTTCGAC
* * * *
48520780 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAC AAT ATT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48520828 A
1 A
48520829 TTTGTACAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:48521334 original size:4 final size:4
Alignment explanation
Indices: 48521325--48521351 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48521315 ACGCAAAGGT
48521325 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
48521352 TCGAACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:48521812 original size:6 final size:6
Alignment explanation
Indices: 48521801--48521902 Score: 114
Period size: 6 Copynumber: 17.0 Consensus size: 6
48521791 AATTTAGTCC
* * * * * ** *
48521801 TATTCT TATTCT TATTCT TATTCT TATTCT TATTAT CCTTAC TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
*
48521849 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TGTTAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
*
48521897 CATTAT
1 TATTAT
48521903 ATTTCCATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 86 1.00
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (6 bp):
TATTAT
Found at i:48526042 original size:8 final size:8
Alignment explanation
Indices: 48526029--48526112 Score: 64
Period size: 8 Copynumber: 10.0 Consensus size: 8
48526019 AAAATTGTTA
48526029 AAAAAAAG
1 AAAAAAAG
48526037 AAAAAAAG
1 AAAAAAAG
48526045 AAGAAGAAAAG
1 -A-AA-AAAAG
48526056 AAAAAAAG
1 AAAAAAAG
48526064 AAGGAAAAAG
1 AA--AAAAAG
48526074 AAAAAAAG
1 AAAAAAAG
**
48526082 --AGGAAG
1 AAAAAAAG
*
48526088 AAGAAAAG
1 AAAAAAAG
*
48526096 AAAAAGAAA
1 AAAAA-AAG
48526105 AAAAAAAG
1 AAAAAAAG
48526113 GAGAGGCCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
6 4 0.07
8 30 0.50
9 10 0.17
10 11 0.18
11 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:48526042 original size:11 final size:11
Alignment explanation
Indices: 48526028--48526112 Score: 57
Period size: 11 Copynumber: 7.6 Consensus size: 11
48526018 AAAAATTGTT
*
48526028 AAAAAA-AAGA
1 AAAAAAGAAAA
*
48526038 AAAAAAGAAGA
1 AAAAAAGAAAA
*
48526049 AGAAAAGAAAA
1 AAAAAAGAAAA
*
48526060 AAAGAAGGAAAA
1 AAA-AAAGAAAA
*
48526072 AGAAAAA-AAGAG
1 A-AAAAAGAA-AA
* *
48526084 GAAGAAGAAAA
1 AAAAAAGAAAA
*
48526095 GAAAAAGAAAA
1 AAAAAAGAAAA
48526106 AAAAAAG
1 AAAAAAG
48526113 GAGAGGCCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
10 6 0.10
11 38 0.64
12 13 0.22
13 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:48526054 original size:19 final size:19
Alignment explanation
Indices: 48526032--48526100 Score: 95
Period size: 19 Copynumber: 3.5 Consensus size: 19
48526022 ATTGTTAAAA
48526032 AAAAGAAAAAAAGAAGAAG
1 AAAAGAAAAAAAGAAGAAG
*
48526051 AAAAGAAAAAAAGAAGGA-
1 AAAAGAAAAAAAGAAGAAG
48526069 AAAAGAAAAAAAGAGGAAGAAG
1 AAAAG-AAAAAA-A-GAAGAAG
48526091 AAAAGAAAAA
1 AAAAGAAAAA
48526101 GAAAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.11
19 23 0.52
20 1 0.02
21 10 0.23
22 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAGAAGAAG
Found at i:48526109 original size:37 final size:36
Alignment explanation
Indices: 48526028--48526109 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 36
48526018 AAAAATTGTT
48526028 AAAAAAAAGAAAAAAAGAAGAAGAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAGAAGAAGAAAAGAAAAAAAG
* *
48526064 AAGGAAAAAGAAAAAAAGAGGAAGAAGAA-AAGAAAAAG
1 AA-AAAAAAGAAAAAAAGAAGAAGAA-AAGAA-AAAAAG
48526102 AAAAAAAA
1 AAAAAAAA
48526110 AAGGAGAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 2 0.05
37 28 0.70
38 10 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (36 bp):
AAAAAAAAGAAAAAAAGAAGAAGAAAAGAAAAAAAG
Found at i:48527576 original size:132 final size:132
Alignment explanation
Indices: 48527334--48527646 Score: 376
Period size: 132 Copynumber: 2.4 Consensus size: 132
48527324 TGAAGCCATT
* * * * *
48527334 AGTCCTATCTCCCCAAGTAGCACTGGAGTAGGCCGAAGATTGTAGATCCTGTCTCCCTAAAAAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAAAAGT
* *** * *
48527399 AGAGGAGCAGATCAAAGGTGGTGAATCTTATCTTCCCAAGTTAGTAGGGAAGT-ATATTTAAACC
66 AGAGAAGCAGATCAAAAAAGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA-TCAGATTTAAACC
48527463 ACC
130 ACC
* * **
48527466 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGTAGATCCTGTCTGCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAAAAGT
* * *
48527531 AGTGAAGCAGATCAAAAAAGGTGAATCTTATCTTCCTAAGGTAGTAGGGAATCAGATTTAAGCCA
66 AGAGAAGCAGATCAAAAAAGGTGAATCTTATCTTCCCAAGGTAGTAGGGAATCAGATTTAAACCA
**
48527596 TT
131 CC
* * * * * *
48527598 AGTCCTATCTCTCTGAGCAATAGTAGAGTAGGTTGAAGATTGCAGATCC
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCC
48527647 CATATCCCTG
Statistics
Matches: 153, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
131 1 0.01
132 152 0.99
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAAAAGT
AGAGAAGCAGATCAAAAAAGGTGAATCTTATCTTCCCAAGGTAGTAGGGAATCAGATTTAAACCA
CC
Found at i:48527796 original size:99 final size:99
Alignment explanation
Indices: 48527659--48528817 Score: 1334
Period size: 99 Copynumber: 11.7 Consensus size: 99
48527649 TATCCCTGGC
* * * * *
48527659 GGTGTAGTGGAATAGATTGAAGCTACAACAGTAAATCTTGC-TCCCTGACATTGCAGTTGAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATT-AAAAG
* * *
48527723 ATTGAAGCCATAACGACGAATCTTACTTCCCACGT
65 ATTGAGGCCACAACGACGAATCTTACTTCCCAGGT
* * * *
48527758 AGTACAGTGGAACAGATTGAAGCTACAACGGTGAATCTTTCTTCCCTGACATTGTAATTAAAAGA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
**
48527823 TTGAGGCCACAACGGTGAATCTTACTTCCCTA-GT
66 TTGAGGCCACAACGACGAATCTTACTTCCC-AGGT
* *
48527857 GGTGCAATGGAACAGACTGAAGCTACAACGGTGAATCTTGCTTCTCC-GACATT-CAATTAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTC-CCTGACATTGCAATTAAAAG
* ** * * *
48527920 ATAGAGGCCACAACGGTGAATCTTACTTCTCTGGC
65 ATTGAGGCCACAACGACGAATCTTACTTCCCAGGT
* *
48527955 GGTGCAGTGGAACAGATTAAAGCTACAATGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
** *
48528020 TTGAGGCCACAACGACGAATCTTACTTTCTTA-GC
66 TTGAGGCCACAACGACGAATCTTAC-TTCCCAGGT
* * *
48528054 GGTGCAGTGGAATAGATTGAAGCTACAAC-GTCGAATCTTGCTTCCCCGACGTTGCAATTAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGT-GAATCTTGCTTCCCTGACATTGCAATTAAAAG
* * * *
48528118 ATTGATGCTACAACGGCGAATCTTACTTCCCTGGT
65 ATTGAGGCCACAACGACGAATCTTACTTCCCAGGT
* * * **
48528153 GGTGTAGTGGAATAGATTGAAGCTACAACGGTGAATTTTGCTTCCCCAACATTGCAATTAAAAGA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
* *
48528218 TTGAGGCCACAACGATGAATCTTACTTCCCTGGT
66 TTGAGGCCACAACGACGAATCTTACTTCCCAGGT
* *** *
48528252 GGTGCAGTGGAACAGGTTGAAGCTACAACGACAAATCTTGCTTCCCTGACATTACAATTAAAAGA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
** ** * *
48528317 TTGAGGCCACAACGGTGAATCTTACTTTTCTGGC
66 TTGAGGCCACAACGACGAATCTTACTTCCCAGGT
* * ** *
48528351 GGTGCAGTGGAACAAATTGAAGCTACAAAGGTGAATCTTGCTTCCCCAACTTTGCAATTAAAAGA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
* * *
48528416 TTGAGGCCACAACAACAAATCTTACTTTCCTA-GT
66 TTGAGGCCACAACGACGAATCTTAC-TTCCCAGGT
* *
48528450 GGTGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
48528515 TTGAGGCCACAACGACGAATCTTACTTCCCTA-GT
66 TTGAGGCCACAACGACGAATCTTACTTCCC-AGGT
* * * *
48528549 GGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTCT-CTTCCCTGACATTACAATTAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCT-TGCTTCCCTGACATTGCAATTAAAAG
* * * * ** *
48528613 ATTGAAGCTACAAC-AGCGAATCTTATTTTCTTGGC
65 ATTGAGGCCACAACGA-CGAATCTTACTTCCCAGGT
* * *
48528648 GGTGTAGTGGAATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATT-AAAAG
* * * * *
48528713 ATCGAAGCTACAAC-AGTGAATCTTACTTCCCAGGC
65 ATTGAGGCCACAACGA-CGAATCTTACTTCCCAGGT
* * ** * *
48528748 AGTGCAGTGGAACAGATTAAAGCTACAACAATGAATCTTGCTT-CTTCGACATTGTAATTAAATA
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCT-GACATTGCAATTAAA-A
48528812 GATTGA
64 GATTGA
48528818 AGCTACAATG
Statistics
Matches: 912, Mismatches: 129, Indels: 37
0.85 0.12 0.03
Matches are distributed among these distances:
97 2 0.00
98 96 0.11
99 700 0.77
100 114 0.12
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (99 bp):
GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGA
TTGAGGCCACAACGACGAATCTTACTTCCCAGGT
Found at i:48528304 original size:297 final size:297
Alignment explanation
Indices: 48527651--48528817 Score: 1474
Period size: 297 Copynumber: 3.9 Consensus size: 297
48527641 AGATCCCATA
* * * *
48527651 TCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACAAC-AGTAAATCTTGC-TCCCTGACATTGCA
1 TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGA-CAAATCTTGCTTCCCTGACATTACA
* * ** *
48527714 GTTGAAAAGATTGAAGCCATAACGACGAATCTTAC-TTCCCA-CGTAGTACAGTGGAACAGATTG
65 ATT-AAAAGATTGAAGCCACAACGACGAATCTTACTTTCTTAGCG--GTGCAGTGGAACAGATTG
* * * * *
48527777 AAGCTACAACGGTGAATCTTTCTTCCCTGACATTGTAATTAAAAGATTGAGGCCACAACGGTGAA
127 AAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACAGCGAA
* * *
48527842 TCTTACTTCCCTAGTGGTGCAATGGAACAGACTGAAGCTACAACGGTGAATCTTGCTTCTCCGAC
192 TCTTACTTCCCTAGTGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGAC
* *
48527907 ATT-CAATTAAAAGATAGAGGCCACAACGGTGAATCTTACT
257 ATTGCAATTAAAAGATTGAGGCCACAACGATGAATCTTACT
* * * *** *
48527947 TCTCTGGCGGTGCAGTGGAACAGATTAAAGCTACAATGGTGAATCTTGCTTCCCTGACATTGCAA
1 TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCCCTGACATTACAA
* *
48528012 TTAAAAGATTGAGGCCACAACGACGAATCTTACTTTCTTAGCGGTGCAGTGGAATAGATTGAAGC
66 TTAAAAGATTGAAGCCACAACGACGAATCTTACTTTCTTAGCGGTGCAGTGGAACAGATTGAAGC
* * * *
48528077 TACAAC-GTCGAATCTTGCTTCCCCGACGTTGCAATTAAAAGATTGATGCTACAACGGCGAATCT
131 TACAACGGT-GAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACAGCGAATCT
* * * * *
48528141 TACTTCCCTGGTGGTGTAGTGGAATAGATTGAAGCTACAACGGTGAATTTTGCTTCCCCAACATT
195 TACTTCCCTAGTGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATT
48528206 GCAATTAAAAGATTGAGGCCACAACGATGAATCTTACT
260 GCAATTAAAAGATTGAGGCCACAACGATGAATCTTACT
* *
48528244 TCCCTGGTGGTGCAGTGGAACAGGTTGAAGCTACAACGACAAATCTTGCTTCCCTGACATTACAA
1 TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCCCTGACATTACAA
* ** * *
48528309 TTAAAAGATTGAGGCCACAACGGTGAATCTTACTTT-TCTGGCGGTGCAGTGGAACAAATTGAAG
66 TTAAAAGATTGAAGCCACAACGACGAATCTTACTTTCT-TAGCGGTGCAGTGGAACAGATTGAAG
* * * * *
48528373 CTACAAAGGTGAATCTTGCTTCCCCAACTTTGCAATTAAAAGATTGAGGCCACAACAACAAATCT
130 CTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACAGCGAATCT
* *
48528438 TACTTTCCTAGTGGTGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATT
195 TACTTCCCTAGTGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATT
*
48528503 GCAATTAAAAGATTGAGGCCACAACGACGAATCTTACT
260 GCAATTAAAAGATTGAGGCCACAACGATGAATCTTACT
* * * * * *
48528541 TCCCTAGTGGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTCT-CTTCCCTGACATTACA
1 TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCT-TGCTTCCCTGACATTACA
* * * * *
48528605 ATTAAAAGATTGAAGCTACAAC-AGCGAATCTTATTTTCTTGGCGGTGTAGTGGAATAGATTGAA
65 ATTAAAAGATTGAAGCCACAACGA-CGAATCTTACTTTCTTAGCGGTGCAGTGGAACAGATTGAA
* * * * * *
48528669 GCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATCGAAGCTACAACAGTGAAT
129 GCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATT-AAAAGATTGAGGCCACAACAGCGAAT
* ** **
48528734 CTTACTTCCC-AG-GCAGTGCAGTGGAACAGATTAAAGCTACAACAATGAATCTTGCTTCTTCGA
193 CTTACTTCCCTAGTG--GTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGA
*
48528797 CATTGTAATTAAATAGATTGA
256 CATTGCAATTAAA-AGATTGA
48528818 AGCTACAATG
Statistics
Matches: 764, Mismatches: 92, Indels: 27
0.87 0.10 0.03
Matches are distributed among these distances:
295 2 0.00
296 203 0.27
297 463 0.61
298 89 0.12
299 7 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (297 bp):
TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCCCTGACATTACAA
TTAAAAGATTGAAGCCACAACGACGAATCTTACTTTCTTAGCGGTGCAGTGGAACAGATTGAAGC
TACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACAGCGAATCTT
ACTTCCCTAGTGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTG
CAATTAAAAGATTGAGGCCACAACGATGAATCTTACT
Found at i:48528815 original size:50 final size:50
Alignment explanation
Indices: 48527669--48528825 Score: 410
Period size: 50 Copynumber: 23.4 Consensus size: 50
48527659 GGTGTAGTGG
* *
48527669 AATAGATTGAAGCTACAACAGTAAATCTTGC-TCCCTGACATTGCAGTTGA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTT-A
* * * * * * * **
48527719 AA-AGATTGAAGCCATAAC-GACGAATCTTACTTCCCACG-TAGTACAGTGG
1 AATAGATTGAAGCTACAACAG-TGAATCTTGCTTCCCA-GACATTGCAGTTA
* * * * * *
48527768 AACAGATTGAAGCTACAACGGTGAATCTTTCTTCCCTGACATTGTAATTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * * * *** * **
48527818 AA-AGATTGAGGCCACAACGGTGAATCTTACTTCCCTAG-TGGTGCAATGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCC-AGACATTGCAGTTA
* * * *
48527867 AACAGACTGAAGCTACAACGGTGAATCTTGCTTCTCC-GACATT-CAATTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTC-CCAGACATTGCAGTTA
* * * * * * * * ** **
48527916 AA-AGATAGAGGCCACAACGGTGAATCTTACTTCTCTGGCGGTGCAGTGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * ** * *
48527965 AACAGATTAAAGCTACAATGGTGAATCTTGCTTCCCTGACATTGCAATTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * * * ** ** **
48528015 AA-AGATTGAGGCCACAAC-GACGAATCTTACTTTCTTAG-CGGTGCAGTGG
1 AATAGATTGAAGCTACAACAG-TGAATCTTGC-TTCCCAGACATTGCAGTTA
* * *
48528064 AATAGATTGAAGCTACAAC-GTCGAATCTTGCTTCCCCGACGTTGCAATTA
1 AATAGATTGAAGCTACAACAGT-GAATCTTGCTTCCCAGACATTGCAGTTA
* * * * * **** * **
48528114 AA-AGATTGATGCTACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * *
48528163 AATAGATTGAAGCTACAACGGTGAATTTTGCTTCCCCA-ACATTGCAATTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTT-CCCAGACATTGCAGTTA
* * * * **** **
48528213 AA-AGATTGAGGCCACAAC-GATGAATCTTACTTCCCTGGTGGTGCAGTGG
1 AATAGATTGAAGCTACAACAG-TGAATCTTGCTTCCCAGACATTGCAGTTA
* * ** * * *
48528262 AACAGGTTGAAGCTACAAC-GACAAATCTTGCTTCCCTGACATTACAATTA
1 AATAGATTGAAGCTACAACAG-TGAATCTTGCTTCCCAGACATTGCAGTTA
* * * * ** * * ** **
48528312 AA-AGATTGAGGCCACAACGGTGAATCTTACTTTTCTGGCGGTGCAGTGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * * *
48528361 AACAAATTGAAGCTACAA-AGGTGAATCTTGCTTCCCCA-ACTTTGCAATTA
1 AATAGATTGAAGCTACAACA-GTGAATCTTGCTT-CCCAGACATTGCAGTTA
* * *** * * *** * **
48528411 AA-AGATTGAGGCCACAACAACAAATCTTACTTTCCTAG-TGGTGTAGTGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGC-TTCCCAGACATTGCAGTTA
* * * *
48528460 AACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * * * *** **
48528510 AA-AGATTGAGGCCACAAC-GACGAATCTTACTTCCCTAG-TGGTGCAGTGG
1 AATAGATTGAAGCTACAACAG-TGAATCTTGCTTCCC-AGACATTGCAGTTA
* * ** * * * *
48528559 AACAGATTGAAGCTATAATGGCGAATCTCT-CTTCCCTGACATTACAATTA
1 AATAGATTGAAGCTACAACAGTGAATCT-TGCTTCCCAGACATTGCAGTTA
* ** * ** * ** * **
48528609 AA-AGATTGAAGCTACAACAGCGAATCTTATTTTCTTGGCGGTGTAGTGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* *
48528658 AATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * * * * **
48528708 AAAAGATCGAAGCTACAACAGTGAATCTTACTTCCCAGGCAGTGCAGTGG
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
* * * * * *
48528758 AACAGATTAAAGCTACAACAATGAATCTTGCTTCTTC-GACATTGTAATTA
1 AATAGATTGAAGCTACAACAGTGAATCTTGCTTC-CCAGACATTGCAGTTA
48528808 AATAGATTGAAGCTACAA
1 AATAGATTGAAGCTACAA
48528826 TGATCGAAAA
Statistics
Matches: 791, Mismatches: 274, Indels: 84
0.69 0.24 0.07
Matches are distributed among these distances:
47 1 0.00
48 37 0.05
49 305 0.39
50 437 0.55
51 11 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (50 bp):
AATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCAGACATTGCAGTTA
Found at i:48528915 original size:44 final size:44
Alignment explanation
Indices: 48528847--48529469 Score: 251
Period size: 44 Copynumber: 14.4 Consensus size: 44
48528837 GGCAAGTCTC
*
48528847 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCTT
* * * *
48528891 ATCTCTCTGAAGTTGCAGTAGAGCAAATCA-CAG---CCAGTCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAACCAATCTT
* * * * * * * *
48528932 ATCTCCCTAAAGTTGTAATGGGGCAGACAGAAGAAGCTAATCCT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCTT
* * * * *
48528976 ATCTC-CTTGAAGCTGCAATAGAGC-GA-ATTAA-AACCACAAATCTT
1 ATCTCTC-TGAAGTTGCAGTGGAGCAGACA-GAAGAA--ACCAATCTT
* * * * *
48529020 ATCTCTCTGAAGTTGTAGT--AG-AG-CAGATCGCATCCAGTCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCTT
* * ** * *
48529061 ATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGTCGATCCT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCTT
** ** *
48529105 ATCT-TCTTGAAGTTGCAGTGGAGTGGA-TTAA-AACCACAGATCTT
1 ATCTCTC-TGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCTT
* * * * * * *
48529149 ATCTCTCTAAAGTTGTAGT--AG-AG-CAGATCGCATCTAGTCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCTT
* * * *
48529190 ATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCTT
* * **
48529234 ATCTCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAACCATAGATCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC--A-ATCTT
* * * * *
48529278 ATCTCTCTAAAGTTGCAGT--AG-AG-CAGATCGCATCCAGTCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCTT
* * * *
48529319 ATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAGA-CTATCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAA-ACCAATCTT
* * ** * *
48529363 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAAATCAATCCT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCTT
* * * * * * *
48529407 ATCTTTCTGAAGTTGCAGTGAAGCGGATTAAAATGATA--GATCTT
1 ATCTCTCTGAAGTTGCAGTGGAGCAGA-CAGAA-GAAACCAATCTT
48529451 ATCTCTCTGAAGTTGCAGT
1 ATCTCTCTGAAGTTGCAGT
48529470 AGAGTAGATC
Statistics
Matches: 425, Mismatches: 111, Indels: 86
0.68 0.18 0.14
Matches are distributed among these distances:
40 2 0.00
41 97 0.23
42 19 0.04
43 21 0.05
44 263 0.62
45 20 0.05
46 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCTT
Found at i:48528987 original size:85 final size:85
Alignment explanation
Indices: 48528841--48528999 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
48528831 GAAAATGGCA
* * * *
48528841 AGTCTCATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTG
1 AGTCTCATCTCCCTAAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGCTG
*
48528906 CAGTAGAGCAAATCACAGCC
66 CAATAGAGCAAATCACAGCC
* * * * *
48528926 AGTCTTATCTCCCTAAAGTTGTAATGGGGCAGACAGAAGAAGCTAATCCTATCTC-CTTGAAGCT
1 AGTCTCATCTCCCTAAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTC-TGAAGCT
48528990 GCAATAGAGC
65 GCAATAGAGC
48529000 GAATTAAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 1 0.02
85 62 0.98
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (85 bp):
AGTCTCATCTCCCTAAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGCTG
CAATAGAGCAAATCACAGCC
Found at i:48529087 original size:129 final size:129
Alignment explanation
Indices: 48528885--48529385 Score: 691
Period size: 129 Copynumber: 3.9 Consensus size: 129
48528875 AGAAGAAACC
* * * * * * *
48528885 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAAATCACAGCCAGTCTTATCTCCCTAAAGTTGTAA
1 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAG
* * * * * *
48528950 TGGGGCAGACAGAAGAAGCTAATCCTATCTCCTTGAAGCTGCAATAGAGCGAATTAAAACCACA
66 TGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
* * * *
48529014 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTACAG
1 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAG
* * * *
48529079 TGGAGCAGACAGAAGAAG-TCGATCCTATCTTCTTGAAGTTGCAGTGGAGTGGATTAAAACCACA
66 TGGAGCAGACAGAAGAAGCT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
* * *
48529143 GATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAG
1 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAG
* *
48529208 TGGAGCAGACAGAAGAAGCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATA
66 TGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
* * *
48529272 GATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAG
1 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAG
* *
48529337 TAGAGCAGACAGAAGAAGACT-ATCTTATCTCCCTGAAGTTGCAGTGGAG
66 TGGAGCAGACAGAAGAAG-CTAATCCTATCTCCCTGAAGTTGCAGTGGAG
48529386 TAGATTGAAG
Statistics
Matches: 336, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
128 1 0.00
129 332 0.99
130 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (129 bp):
AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAG
TGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
Found at i:48529367 original size:85 final size:86
Alignment explanation
Indices: 48529015--48529478 Score: 279
Period size: 85 Copynumber: 5.4 Consensus size: 86
48529005 AAAACCACAA
* * * *
48529015 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTACAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCTCCCTGAAGTTGCAGT
* *
48529080 GGAGCAGA-CAGAAGAAGTCG
66 AGAGCAGATCAGAAGAAGACG
* * ** * * * *
48529100 ATCCTATCT-TCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 ATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGA-TAGAATC-CAG-TCTTATCTCCCTGAAGTTG
* * ***
48529164 TAGTAGAGCAGATC-GCA-TCTA-G
62 CAGTAGAGCAGATCAGAAGAAGACG
* * * * *
48529186 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGA-AGAAGCTAATCTTATCTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGT--AG-AG-CAGATAGAATCCAGTCTTATCTCCCTGAAGTTG
* * * * ** *
48529249 CAGTGGAGCGGATTAAAACCATA-G
62 CAGTAGAGCAGATCAGAAGAAGACG
* * * *
48529273 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCTCCCTGAAGTTGCAGT
*
48529338 AGAGCAGA-CAGAAGAAGACT
66 AGAGCAGATCAGAAGAAGACG
* * * * * **
48529358 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAAAT-CAATCCTATCTTTCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T--AG-AATCCAGTCTTATCTCCCTGAAGTTG
* * * *
48529422 CAGT-GAAGCGGATTA-AA-ATGATAG
62 CAGTAG-AGCAGATCAGAAGAAGA-CG
*
48529446 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
48529479 CGCATCAGAC
Statistics
Matches: 285, Mismatches: 72, Indels: 42
0.71 0.18 0.11
Matches are distributed among these distances:
84 11 0.04
85 131 0.46
86 10 0.04
87 16 0.06
88 111 0.39
89 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (86 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCTCCCTGAAGTTGCAGT
AGAGCAGATCAGAAGAAGACG
Found at i:48529410 original size:129 final size:127
Alignment explanation
Indices: 48528847--48529425 Score: 664
Period size: 129 Copynumber: 4.5 Consensus size: 127
48528837 GGCAAGTCTC
* * * *
48528847 ATCTCTCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGTA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACA-CAATCTTATCTCTCTGAAGTTGCAGTA
* * * * * *
48528911 GAGCAAATCACAGCCAGTCTTATCTCCCTAAAGTTGTAATGGGGCAGACAGAAGAAGCTAATCCT
63 GAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCT
* * * * *
48528976 ATCTCCTTGAAGCTGCAATAGAGC-GAATTAAAACCACAAATCTTATCTCTCTGAAGTTGTAGTA
1 ATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAA-CAC-AATCTTATCTCTCTGAAGTTGCAGTA
* * *
48529040 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAG-TCGATCC
63 GAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGCT-AATCC
48529104 T
127 T
* * ** * *
48529105 ATCTTCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGTAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CACA-ATCTTATCTCTCTGAAGTTGCAGTAG
* *
48529170 AGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCTT
64 AGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCT
* * *
48529234 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CACA-ATCTTATCTCTCTGAAGTTGCAGTAG
* * * *
48529299 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAGACT-ATCTT
64 AGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAG-CTAATCCT
* * *
48529363 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAA-ATCAATCCTATCTTTCTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AACA-CAATCTTATCTCTCTGAAGTTGCAGT
48529426 GAAGCGGATT
Statistics
Matches: 394, Mismatches: 44, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
128 5 0.01
129 379 0.96
130 8 0.02
131 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (127 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACAATCTTATCTCTCTGAAGTTGCAGTAGAG
CAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCT
Found at i:48529538 original size:173 final size:174
Alignment explanation
Indices: 48529184--48529569 Score: 444
Period size: 173 Copynumber: 2.2 Consensus size: 174
48529174 GATCGCATCT
* * *
48529184 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAG-AAGCTAATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCTAATCCTATCTCCCTGAAGTT
*
48529248 GCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
66 GCAGTGAAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
* * * * *
48529313 AGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAGACT
131 AGACTTATCTCCCTAAAGATGCAGTAGA-CAGACAGAAGAAGACA
* * * **
48529358 A-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAAATC-AATCCTATCTTTCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCTAATCCTATCTCCCTGAAGTT
** * *
48529421 GCAGTGAAGCGGATTAAAATGATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT-C
66 GCAGTGAAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
* * * **
48529485 AGACTTTATTTTCTTAAAGATGCAGTA-A-A-ACAAGTTGAAGCTACA
131 AGAC-TTATCTCCCTAAAGATGCAGTAGACAGAC-AGAAGAAG--ACA
* * *
48529530 AGTCTTATCTCACTGAGGTTGCAGTGTAGCAGACTGAAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
48529570 TAGCAAATGT
Statistics
Matches: 178, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
169 2 0.01
170 7 0.04
172 8 0.04
173 157 0.88
174 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (174 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCTAATCCTATCTCCCTGAAGTT
GCAGTGAAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
AGACTTATCTCCCTAAAGATGCAGTAGACAGACAGAAGAAGACA
Found at i:48531072 original size:6 final size:6
Alignment explanation
Indices: 48531061--48531104 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
48531051 AATTTAGTCC
* * * *
48531061 TAATAT TAATAT TAATAA TAATAT TATTAT TATTAT TATTAT TA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TA
48531105 TTATCCTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TAATAT
Found at i:48531088 original size:3 final size:3
Alignment explanation
Indices: 48531082--48531159 Score: 84
Period size: 3 Copynumber: 26.0 Consensus size: 3
48531072 TTAATAATAA
** * *
48531082 TAT TAT TAT TAT TAT TAT TAT TAT TAT CCT TAC TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
48531130 TAT TAT TAA TCT TAT TGT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48531160 ATTTCCATTT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:48531346 original size:14 final size:14
Alignment explanation
Indices: 48531327--48531356 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48531317 ATTTATATAC
48531327 ATATCTATACATAT
1 ATATCTATACATAT
*
48531341 ATATCTATATATAT
1 ATATCTATACATAT
48531355 AT
1 AT
48531357 TTTCTCACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATCTATACATAT
Found at i:48531392 original size:22 final size:20
Alignment explanation
Indices: 48531366--48531416 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
48531356 TTTTCTCACG
48531366 AATATGTATATACATACTTATA
1 AATATGTATATACATA-TTA-A
*
48531388 TATATGT-T-TACATATTAA
1 AATATGTATATACATATTAA
48531406 AATATGTATAT
1 AATATGTATAT
48531417 TTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.28
19 4 0.16
20 7 0.28
21 1 0.04
22 6 0.24
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (20 bp):
AATATGTATATACATATTAA
Found at i:48534223 original size:44 final size:44
Alignment explanation
Indices: 48534168--48534268 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
48534158 TTCATTCTAA
*
48534168 TCCACAACAACTTCAGATGTATAGGATTTGTTGCTTCAATCGAC
1 TCCACTACAACTTCAGATGTATAGGATTTGTTGCTTCAATCGAC
* * * * *
48534212 TCCACTGCAACTTCAGATGTATAGGATTTTTTGTTTTAATCTAC
1 TCCACTACAACTTCAGATGTATAGGATTTGTTGCTTCAATCGAC
48534256 TCCACTACAACTT
1 TCCACTACAACTT
48534269 TAGGGAGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (44 bp):
TCCACTACAACTTCAGATGTATAGGATTTGTTGCTTCAATCGAC
Found at i:48534294 original size:44 final size:44
Alignment explanation
Indices: 48534249--48534634 Score: 342
Period size: 44 Copynumber: 8.8 Consensus size: 44
48534239 TTTTTGTTTT
* * * *
48534249 AATCTACTCCACTACAACTTTAGGGAGATTAGACTTGTAGCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
* * * * *
48534293 AATTTGCTCCACTACAACTTCAGGGAGATGAGACTCGTATCTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
* * * * *
48534337 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
** * *
48534381 AATCTGTTCGACTACAACTTCAGGGAGATAAGATTTGTAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
* * *
48534425 TATCTACTCCACTGCAACTTCTGGGAGATAAGACTTGTAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
* * * *
48534469 AATCTACTCCATTGCAACTTCAGGGAGATAAGATTTGTAACCTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
* * * * * * *
48534513 AATTTGCTCTACTGA-AACTTCAGAGAGATAAGATTTTCTATCTTC
1 AATCTACTCCACT-ACAACTTCAGGGAGATAAGA-CTTGTAACTTC
* * ** * * ** *
48534558 AATATGCTCCACTGTAACTTCAGGGAGATAATATTTGTGGCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
* ** *
48534602 AATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 AATCTACTCCACTACAACTTCAGGGAGATAAGA
48534635 TTTACTATCT
Statistics
Matches: 284, Mismatches: 55, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
44 249 0.88
45 35 0.12
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
Found at i:48534395 original size:132 final size:132
Alignment explanation
Indices: 48534201--48534684 Score: 447
Period size: 132 Copynumber: 3.7 Consensus size: 132
48534191 GGATTTGTTG
* * * *** * * *
48534201 CTTCAATCGACTCCACTGCAACTTCA--GATGTATAGGATTTTTTGTTTTAATCTACTCCACTAC
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-G-ATAAGATTTATAACTTCAATCTGCTCGACTAC
* * * * * * * *
48534264 AACTTTAGGGAGATTAGACTTGTAGCTTTAATTTGCTCCACTACAACTTCAGGGAGATGAGACTC
64 AACTTCAGGGAGATAAGATTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGACTT
*
48534329 GTAT
129 GTAA
* * *
48534333 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATAACTTCAATCTGTTCGACTACAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCGACTACAA
* * *
48534398 CTTCAGGGAGATAAGATTTGTAACTTCT-ATCTACTCCACTGCAACTTCTGGGAGATAAGACTTG
66 CTTCAGGGAGATAAGATTTGTAACTT-TAATATGCTCCACTGCAACTTCAGGGAGATAAGACTTG
48534462 TAA
130 TAA
* * * * *
48534465 CTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATTTGTAACCTCAATTTGCTCTACTGA-A
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCGACT-ACA
* * * * * * *
48534529 ACTTCAGAGAGATAAGATTTTCTATCTTCAATATGCTCCACTGTAACTTCAGGGAGATAATATTT
65 ACTTCAGGGAGATAAGA-TTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGACTT
**
48534594 GTGG
129 GTAA
* * * * * * *
48534598 CTTTAATCTACTCTACTGTAACTTCAGAGAGATAAGATTTACTATCTTCAATCTGC-CTTACTGC
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTA-TAACTTCAATCTGCTC-GACTAC
* *
48534662 AACTTCAGAGAGATAAAATTTGT
64 AACTTCAGGGAGATAAGATTTGT
48534685 CACGATAACT
Statistics
Matches: 288, Mismatches: 55, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
132 172 0.60
133 82 0.28
134 34 0.12
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (132 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCGACTACAA
CTTCAGGGAGATAAGATTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
AA
Found at i:48534612 original size:89 final size:88
Alignment explanation
Indices: 48534246--48534684 Score: 414
Period size: 88 Copynumber: 5.0 Consensus size: 88
48534236 GATTTTTTGT
* * * * * * * * * *
48534246 TTTAATCTACTCCACTACAACTTTAGGGAGATTAGACTTGTAGCTTTAATTTGCTCCACTACAAC
1 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGCTCCACTGCAAC
* * * *
48534311 TTCAGGGAGATGAGACTCGTATC
66 TTCAGGGAGATAAGATTTGTAAC
* * * * * * * *
48534334 TTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATAACTTCAATCTGTTCGACTACAAC
1 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGCTCCACTGCAAC
48534399 TTCAGGGAGATAAGATTTGTAAC
66 TTCAGGGAGATAAGATTTGTAAC
* * * * * *
48534422 TTCT-ATCTACTCCACTGCAACTTCTGGGAGATAAGACTTGTAACTTCAATCTACTCCATTGCAA
1 TT-TAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGCTCCACTGCAA
48534486 CTTCAGGGAGATAAGATTTGTAAC
65 CTTCAGGGAGATAAGATTTGTAAC
* * * * * * * * *
48534510 CTCAATTTGCTCTACTGAAACTTCAGAGAGATAAGATTTTCTATCTTCAATATGCTCCACTGTAA
1 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA-TTTCTAACTTCAATCTGCTCCACTGCAA
* **
48534575 CTTCAGGGAGATAATATTTGTGGC
65 CTTCAGGGAGATAAGATTTGTAAC
* * * *
48534599 TTTAATCTACTCTACTGTAACTTCAGAGAGATAAGATTTACTATCTTCAATCTGC-CTTACTGCA
1 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTT-CTAACTTCAATCTGCTC-CACTGCA
* *
48534663 ACTTCAGAGAGATAAAATTTGT
64 ACTTCAGGGAGATAAGATTTGT
48534685 CACGATAACT
Statistics
Matches: 290, Mismatches: 56, Indels: 9
0.82 0.16 0.03
Matches are distributed among these distances:
88 178 0.61
89 112 0.39
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (88 bp):
TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTGTAAC
Found at i:48541501 original size:41 final size:41
Alignment explanation
Indices: 48541412--48541525 Score: 203
Period size: 41 Copynumber: 2.8 Consensus size: 41
48541402 ACTGGCACTT
*
48541412 AGCCTGCTAGACATAAAGTCTGAAATGTTTCA-CGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCGTCA
*
48541452 AGCCTGCTAGATGTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCGTCA
48541493 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
48541526 TGGCAATAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 30 0.43
41 40 0.57
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:48541910 original size:75 final size:75
Alignment explanation
Indices: 48541823--48541976 Score: 184
Period size: 75 Copynumber: 2.1 Consensus size: 75
48541813 AATATACATA
* * ** * * *
48541823 CATAATCGAACCTCCCT-TACACATATATAAATTTCATACTTATACTCATTACAAGAACATATAC
1 CATAATCGAACCT-CATATAAACATATATAAATGGCATACCTAAACTCAATACAAGAACATATAC
*
48541887 ATGCATGTTTG
65 ATGCATATTTG
* * *
48541898 CATAATCGAACCTCATATAAACTTGTATAAATGGCATACCTAAATTCAATACAAGAACATATACA
1 CATAATCGAACCTCATATAAACATATATAAATGGCATACCTAAACTCAATACAAGAACATATACA
*
48541963 TGTATATTTG
66 TGCATATTTG
48541973 CATA
1 CATA
48541977 TTATAGATCC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 2 0.03
75 64 0.97
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (75 bp):
CATAATCGAACCTCATATAAACATATATAAATGGCATACCTAAACTCAATACAAGAACATATACA
TGCATATTTG
Found at i:48549895 original size:21 final size:21
Alignment explanation
Indices: 48549866--48549912 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
48549856 TTCGGCATCT
48549866 GCCGCAGCTAAGAAACCGGCC
1 GCCGCAGCTAAGAAACCGGCC
* * *
48549887 GCCGTAGCTAAGAAGCCTGCC
1 GCCGCAGCTAAGAAACCGGCC
48549908 GCCGC
1 GCCGC
48549913 GAAGCCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.09
Consensus pattern (21 bp):
GCCGCAGCTAAGAAACCGGCC
Found at i:48556554 original size:20 final size:20
Alignment explanation
Indices: 48556525--48556564 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48556515 TTTATGTCAC
* * *
48556525 TTTAATAATATTTTAAAATT
1 TTTAAAAATAATTAAAAATT
48556545 TTTAAAAATAATTAAAAATT
1 TTTAAAAATAATTAAAAATT
48556565 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAAAATAATTAAAAATT
Found at i:48556579 original size:17 final size:17
Alignment explanation
Indices: 48556546--48556580 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48556536 TTTAAAATTT
*
48556546 TTAAAAATAATTAAAAA
1 TTAAAAATAAATAAAAA
48556563 TTAAAAATAAATGAAAAA
1 TTAAAAATAAAT-AAAAA
48556581 ATCCCACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
TTAAAAATAAATAAAAA
Found at i:48560185 original size:90 final size:88
Alignment explanation
Indices: 48560057--48560219 Score: 208
Period size: 89 Copynumber: 1.8 Consensus size: 88
48560047 TTAATATTTT
* * *
48560057 TTTCTTAATTTGGTATTTGAATTTCTTTTGTTCAATTTGATACTT-AGACTTGACAT-GTTTTCT
1 TTTCTTAATTTGATATTTGAATTTCTTTTATTCAATTTGATACTTGA-ACTTGAC-TCTTTTTC-
48560120 TAATTTGGTACATGAACTTAACACAA
63 TAATTTGGTACATGAACTTAACACAA
*
48560146 TTTCTTAATTTGATACTTT-ATATTT-TTTTATTCTAATTTGGTACTTGAACTTGACTCTTTTTC
1 TTTCTTAATTTGATA-TTTGA-ATTTCTTTTATTC-AATTTGATACTTGAACTTGACTCTTTTTC
48560209 TAATTTGGTAC
63 TAATTTGGTAC
48560220 TATTTTTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
89 34 0.52
90 30 0.46
91 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (88 bp):
TTTCTTAATTTGATATTTGAATTTCTTTTATTCAATTTGATACTTGAACTTGACTCTTTTTCTAA
TTTGGTACATGAACTTAACACAA
Found at i:48560404 original size:19 final size:18
Alignment explanation
Indices: 48560376--48560416 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48560366 TTAAATGTTC
*
48560376 AATTACTTTTAGTTTAATT
1 AATTAATTTTA-TTTAATT
*
48560395 AATTAATTTTATTTTATT
1 AATTAATTTTATTTAATT
48560413 AATT
1 AATT
48560417 TAAAATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTAATTTTATTTAATT
Found at i:48562004 original size:20 final size:20
Alignment explanation
Indices: 48561957--48562006 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
48561947 CATGTTCAAA
*
48561957 GTTTAAGGTTCGAGTTTGGG
1 GTTTAAGGTTCGAGTTTGAG
* *
48561977 GTTCAAGGTTCGAGTTTGAT
1 GTTTAAGGTTCGAGTTTGAG
48561997 GTTTAAGGTT
1 GTTTAAGGTT
48562007 TGAGATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.06, G:0.34, T:0.42
Consensus pattern (20 bp):
GTTTAAGGTTCGAGTTTGAG
Found at i:48563037 original size:127 final size:127
Alignment explanation
Indices: 48562799--48563037 Score: 268
Period size: 127 Copynumber: 1.9 Consensus size: 127
48562789 TTATTTCAAT
* * *
48562799 TTTAAAAGGATATTCGGTTATTTAGGATCACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
1 TTTAAAAGGATATTCGGCTATTTAGGATAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACAA
* * * ** * ***
48562864 TTTCTCGAATTTTCTAAATATAGGATATTACCTTTATTTTTGAAATTTTATGTGTTTGGAAA
66 TTTCTCGAATTTCCAAAATACAAAATATTACCTTCATTTACAAAATTTTATGTGTTTGGAAA
** * *
48562926 TTTAAAAGGATATTTTGCTATTTAGGTTTAACGAG-AAAATCG-AGACCCAGTAAGTTAGGGTAC
1 TTTAAAAGGATATTCGGCTATTTAGG-ATAACGAGAAAAATCGAAG-CCCAGTAAGTTAGGGCAC
* *
48562989 AATTTCTCGAATTTCCAAAATGCAAAATATTGCC-TCATTTAACAAAATT
64 AATTTCTCGAATTTCCAAAATACAAAATATTACCTTCATTT-ACAAAATT
48563038 CCATCCTGAA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
126 7 0.08
127 78 0.86
128 6 0.07
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (127 bp):
TTTAAAAGGATATTCGGCTATTTAGGATAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACAA
TTTCTCGAATTTCCAAAATACAAAATATTACCTTCATTTACAAAATTTTATGTGTTTGGAAA
Found at i:48563749 original size:18 final size:19
Alignment explanation
Indices: 48563704--48563753 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
48563694 ATAATACGTA
*
48563704 AAAATGAAATAAAACTATTT
1 AAAA-GAAATAAAACTATAT
* *
48563724 AAATGAAATAATA-TATAT
1 AAAAGAAATAAAACTATAT
48563742 AAAAGAAA-AAAA
1 AAAAGAAATAAAA
48563754 TTACACAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 8 0.32
20 3 0.12
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAAGAAATAAAACTATAT
Found at i:48564759 original size:53 final size:53
Alignment explanation
Indices: 48564696--48564807 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
48564686 TTCGTGGCTT
*
48564696 TTTATAGCCGACTTACAGAACTGTTCGCTTTTTTTTTGTCTATTTGCTATTTG
1 TTTATTGCCGACTTACAGAACTGTTCGCTTTTTTTTTGTCTATTTGCTATTTG
48564749 TTTATTGCCGACTTACAGAACTGTTCGCTTTTTTTTTGTCTATTTGCTATTTG
1 TTTATTGCCGACTTACAGAACTGTTCGCTTTTTTTTTGTCTATTTGCTATTTG
48564802 TTTATT
1 TTTATT
48564808 CTATTGGTTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (53 bp):
TTTATTGCCGACTTACAGAACTGTTCGCTTTTTTTTTGTCTATTTGCTATTTG
Found at i:48564898 original size:56 final size:56
Alignment explanation
Indices: 48564838--48564953 Score: 232
Period size: 56 Copynumber: 2.1 Consensus size: 56
48564828 TTGCTGAAAA
48564838 TTTTTAGTTTTGGGCTAGGGTTTAGTTTGGGCTGTGGGCTACATTGGGCCTGTTAT
1 TTTTTAGTTTTGGGCTAGGGTTTAGTTTGGGCTGTGGGCTACATTGGGCCTGTTAT
48564894 TTTTTAGTTTTGGGCTAGGGTTTAGTTTGGGCTGTGGGCTACATTGGGCCTGTTAT
1 TTTTTAGTTTTGGGCTAGGGTTTAGTTTGGGCTGTGGGCTACATTGGGCCTGTTAT
48564950 TTTT
1 TTTT
48564954 CCTTTGTAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.10, C:0.10, G:0.33, T:0.47
Consensus pattern (56 bp):
TTTTTAGTTTTGGGCTAGGGTTTAGTTTGGGCTGTGGGCTACATTGGGCCTGTTAT
Found at i:48565310 original size:41 final size:41
Alignment explanation
Indices: 48565256--48565407 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
48565246 GTTTTAGTCT
* *
48565256 GCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCC
* * * * ***
48565297 GCTCTACTGCAACTTCAGAGAGATAAAATCTGTGGTTTTTATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGA-C--TAGATGCGATCC
*
48565341 ACTCCACTGCAACTTCA-AGGAGATAAGACTAGATGCGATCC
1 GCTCCACTGCAACTTCAGA-GAGATAAGACTAGATGCGATCC
*
48565382 GCTCTACTGCAACTTCAGAGAGATAA
1 GCTCCACTGCAACTTCAGAGAGATAA
48565408 AATCTGTGGT
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 53 0.61
42 2 0.02
43 2 0.02
44 30 0.34
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
GCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCC
Found at i:48565346 original size:85 final size:85
Alignment explanation
Indices: 48565257--48565450 Score: 354
Period size: 85 Copynumber: 2.3 Consensus size: 85
48565247 TTTTAGTCTG
48565257 CTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
48565322 AAATCTGTGGTTTTTATCCA
66 AAATCTGTGGTTTTTATCCA
* *
48565342 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
48565407 AAATCTGTGGTTTTTATCCA
66 AAATCTGTGGTTTTTATCCA
48565427 CTCCACTGA-AACTTCAGGGAGATA
1 CTCCACT-ACAACTTCAGGGAGATA
48565451 GGATTGGTTT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
85 104 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (85 bp):
CTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
AAATCTGTGGTTTTTATCCA
Found at i:48565355 original size:44 final size:44
Alignment explanation
Indices: 48565293--48565450 Score: 171
Period size: 44 Copynumber: 3.7 Consensus size: 44
48565283 ACTAGATGCG
* *
48565293 ATCCGCTCTACTGCAACTTCAGAGAGATAAAATCTGTGGTTTTT
1 ATCCACTCCACTGCAACTTCAGAGAGATAAAATCTGTGGTTTTT
* * * ***
48565337 ATCCACTCCACTGCAACTTCA-AGGAGATAAGA-C--TAGATGCG
1 ATCCACTCCACTGCAACTTCAGA-GAGATAAAATCTGTGGTTTTT
* *
48565378 ATCCGCTCTACTGCAACTTCAGAGAGATAAAATCTGTGGTTTTT
1 ATCCACTCCACTGCAACTTCAGAGAGATAAAATCTGTGGTTTTT
* *
48565422 ATCCACTCCACTGAAACTTCAGGGAGATA
1 ATCCACTCCACTGCAACTTCAGAGAGATA
48565451 GGATTGGTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 30 0.34
42 2 0.02
43 2 0.02
44 55 0.62
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCCACTCCACTGCAACTTCAGAGAGATAAAATCTGTGGTTTTT
Found at i:48565564 original size:45 final size:44
Alignment explanation
Indices: 48565511--48565919 Score: 475
Period size: 45 Copynumber: 9.1 Consensus size: 44
48565501 TGGTTTTCGA
* *
48565511 TCTACTTCGTTGCCAATACAGGAAGACAATATCTGCTATCTTCAG
1 TCTACTTCGCTGCCAATACAGGAAGACAAGA-CTGCTATCTTCAG
* * *
48565556 TGTACTTCGCTGCAAATACAGGAAAACAAGACTTGCTATCTTC-G
1 TCTACTTCGCTGCCAATACAGGAAGACAAGAC-TGCTATCTTCAG
* * *
48565600 ATCTACTTCACTGCCAATACAGGAAGACAAAAACTGATATCTTCAG
1 -TCTACTTCGCTGCCAATACAGGAAGAC-AAGACTGCTATCTTCAG
*
48565646 TCTACTTCGCTGCCAATACAGGAAGACAAGACTTTCTATCTTC-G
1 TCTACTTCGCTGCCAATACAGGAAGACAAGAC-TGCTATCTTCAG
* * * *
48565690 ATCTACTTCACTGCCAATATAGGAAGACAATATCTACTATCTTCAG
1 -TCTACTTCGCTGCCAATACAGGAAGACAAGA-CTGCTATCTTCAG
*
48565736 TCTACTTCGTTGCCAATACAGGAAGACAAGACTTGCTATCTTC-G
1 TCTACTTCGCTGCCAATACAGGAAGACAAGAC-TGCTATCTTCAG
* * *
48565780 ATCTATTTCACTGTCAATACAGGAAGACAAGATCTGCTATCTTCAG
1 -TCTACTTCGCTGCCAATACAGGAAGACAAGA-CTGCTATCTTCAG
*
48565826 TCTACTTCGCTGCCAATACAGGAAGACAAGACTAGCGATCTTC-G
1 TCTACTTCGCTGCCAATACAGGAAGACAAGACT-GCTATCTTCAG
* * * *
48565870 ATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCTTCAG
1 -TCTACTTCGCTGCCAATACAGGAAGACAAGA-CTGCTATCTTCAG
48565916 TCTA
1 TCTA
48565920 ACTAACTGCA
Statistics
Matches: 311, Mismatches: 37, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
44 12 0.04
45 287 0.92
46 12 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
TCTACTTCGCTGCCAATACAGGAAGACAAGACTGCTATCTTCAG
Found at i:48565664 original size:90 final size:90
Alignment explanation
Indices: 48565506--48565919 Score: 639
Period size: 90 Copynumber: 4.6 Consensus size: 90
48565496 ATCTGTGGTT
** * * *
48565506 TTCGATCTACTTCGTTGCCAATACAGGAAGACAATATCTGCTATCTTCAGTGTACTTCGCTGCAA
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCA
*
48565571 ATACAGGAAAACAAGACTTGCTATC
66 ATACAGGAAGACAAGACTTGCTATC
* * *
48565596 TTCGATCTACTTCACTGCCAATACAGGAAGACAAAAACTGATATCTTCAGTCTACTTCGCTGCCA
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCA
*
48565661 ATACAGGAAGACAAGACTTTCTATC
66 ATACAGGAAGACAAGACTTGCTATC
* * * *
48565686 TTCGATCTACTTCACTGCCAATATAGGAAGACAATATCTACTATCTTCAGTCTACTTCGTTGCCA
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCA
48565751 ATACAGGAAGACAAGACTTGCTATC
66 ATACAGGAAGACAAGACTTGCTATC
* *
48565776 TTCGATCTATTTCACTGTCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCA
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCA
* *
48565841 ATACAGGAAGACAAGACTAGCGATC
66 ATACAGGAAGACAAGACTTGCTATC
* * *
48565866 TTCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCTTCAGTCTA
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTA
48565920 ACTAACTGCA
Statistics
Matches: 295, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 295 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (90 bp):
TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCA
ATACAGGAAGACAAGACTTGCTATC
Found at i:48566099 original size:50 final size:50
Alignment explanation
Indices: 48566037--48566592 Score: 196
Period size: 50 Copynumber: 11.2 Consensus size: 50
48566027 GTAATGTCAG
48566037 GGAA-TAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* * ** ** * * * **
48566086 GGAAGTAATATTCGTCGTTGCGGCTTCAATCT-TTTAATTGCGA-TGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ACCGCCAA
* ** * *
48566135 GGAAGCAAGATTCGCCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
** ** *** * ** * ** * *
48566185 AAAAGTAAGATTCGTTGTTACGGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* * *
48566235 GGAA-TAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCACCAA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* ** * ** * * * **
48566284 AGAAGTAAGATTCGCCGTTGCGGTTTCAATCT-TTTAATTGCGA-TGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ACCGCCAA
* * * * * *
48566333 GGAAGCATGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCC-A
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* * ** * ** * ** * *
48566382 GGAAAGTAAGATTCGACATTGCGGCTTCAATAT-TTTAATTGCAATGTCAG
1 GG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* * * * * *
48566432 GGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTACATCACC-A
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* *** * ** * ** * **
48566480 GAGAAGTAAGATTCACCGTTACGGCTTCAATCTTTTTAATTGCAATGTCGG
1 G-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
* * * * * * * *
48566531 GGAAGCAAGATTCACCGTCGTAGCTTTATTCTGCTCCACTGCATCGCCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
48566581 GGAAGTAAGATT
1 GGAAGTAAGATT
48566593 TACCGTTGCG
Statistics
Matches: 333, Mismatches: 160, Indels: 27
0.64 0.31 0.05
Matches are distributed among these distances:
48 21 0.06
49 121 0.36
50 190 0.57
51 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAA
Found at i:48566173 original size:99 final size:98
Alignment explanation
Indices: 48565926--48566630 Score: 777
Period size: 99 Copynumber: 7.1 Consensus size: 98
48565916 TCTAACTAAC
* * * * ** * **
48565926 TGCAATGTCGGGGAACAAGATTCACTGTTGTAGCTTCAATCTGTTTTACTACACTACC-AGAGAA
1 TGCAATGTCAGGGAACAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAG-GAA
*
48565990 GTAAGATTCGCCGTTGCGGCTTCAATTTTTTTAAAT
65 GTAAGATTCGCCGTTGCGGCTTCAA-TCTTTT-AAT
* * * * *
48566026 TGTAATGTCAGGGAATAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAAGGAAG
1 TGCAATGTCAGGGAACAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAAG
* *
48566091 TAATATTCGTCGTTGCGGCTTCAATCTTTTAAT
66 TAAGATTCGCCGTTGCGGCTTCAATCTTTTAAT
* * * * * **
48566124 TGCGATGTCGGGGAAGCAAGATTCGCCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAAAAAA
1 TGCAATGTCAGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAA
** *
48566189 GTAAGATTCGTTGTTACGGCTTCAATCTTTTTAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATC-TTTTAAT
* * * * * *
48566224 TGCAATGTCAGGGAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCACCAAAGAAG
1 TGCAATGTCAGGGAACAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAAG
*
48566289 TAAGATTCGCCGTTGCGGTTTCAATCTTTTAAT
66 TAAGATTCGCCGTTGCGGCTTCAATCTTTTAAT
* * * *
48566322 TGCGATGTCGGGGAAGCATGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCC-AGGAA
1 TGCAATGTCAGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGG-A
* * *
48566386 AGTAAGATTCGACATTGCGGCTTCAATATTTTAAT
64 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAT
* * * * *
48566421 TGCAATGTCAGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTACATCACC-AGAGAA
1 TGCAATGTCAGGGAACAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAG-GAA
* *
48566485 GTAAGATTCACCGTTACGGCTTCAATCTTTTTAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATC-TTTTAAT
* * * * *
48566520 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTATTCTGCTCCACTGCATCGCCAGGGAA
1 TGCAATGTCAGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAA
** *
48566585 GTAAGATTTACCGTTGCGGCTTCAACCTTTTTAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATC-TTTTAAT
*
48566620 TGCAATCTCAG
1 TGCAATGTCAG
48566631 AGGTATGAAT
Statistics
Matches: 514, Mismatches: 82, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
98 99 0.19
99 237 0.46
100 175 0.34
101 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (98 bp):
TGCAATGTCAGGGAACAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAAG
TAAGATTCGCCGTTGCGGCTTCAATCTTTTAAT
Found at i:48566268 original size:198 final size:198
Alignment explanation
Indices: 48565930--48566630 Score: 951
Period size: 198 Copynumber: 3.5 Consensus size: 198
48565920 ACTAACTGCA
* * * * ** * **
48565930 ATGTCGGGGAA-CAAGATTCACTGTTGTAGCTTCAATCTGTTTTACTACACTACCA-GAGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGA-AAGTA
* * *
48565993 AGATTCGCCGTTGCGGCTTCAATTTTTTTAAATTGTAATGTCAGGGAATAAGATTCGCCGTTGTA
65 AGATTCGCCGTTGCGGCTTCAATCTTTTT-AATTGCAATGTCAGGGAATAAGATTCACCGTTGTA
* * *
48566058 GCTTCAATCTGTTCCACTGCACCGCCAAGGAAGTAATATTCGTCGTTGCGGCTTCAATCTTTTAA
129 GCTTCAATCTGTTCCACTGCACCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAA
48566123 TTGCG
194 TTGCG
* * **
48566128 ATGTCGGGGAAGCAAGATTCGCCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAAAAAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAA
** * *
48566193 GATTCGTTGTTACGGCTTCAATCTTTTTAATTGCAATGTCAGGGAATAAGATTCACCATTGTAGC
66 GATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAATAAGATTCACCGTTGTAGC
* *
48566258 TTCAATCTGTTCCACTGCACCACCAAAGAAGTAAGATTCGCCGTTGCGGTTTCAATCTTTTAATT
131 TTCAATCTGTTCCACTGCACCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAATT
48566323 GCG
196 GCG
*
48566326 ATGTCGGGGAAGCATGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAA
* * * *
48566391 GATTCGACATTGCGGCTTCAAT-ATTTTAATTGCAATGTCAGGGAACAAGATTCACCGTTGTAGC
66 GATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAATAAGATTCACCGTTGTAGC
* * * * *
48566455 TTCAATCTGATCCACTACATCACC-AGAGAAGTAAGATTCACCGTTACGGCTTCAATCTTTTTAA
131 TTCAATCTGTTCCACTGCACCACCAAG-GAAGTAAGATTCGCCGTTGCGGCTTCAATC-TTTTAA
*
48566519 TTGCA
194 TTGCG
* * *
48566524 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTATTCTGCTCCACTGCATCGCCAGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAA
** * *
48566589 GATTTACCGTTGCGGCTTCAACCTTTTTAATTGCAATCTCAG
66 GATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAG
48566631 AGGTATGAAT
Statistics
Matches: 443, Mismatches: 55, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
196 1 0.00
197 87 0.20
198 274 0.62
199 80 0.18
200 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (198 bp):
ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAA
GATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAATAAGATTCACCGTTGTAGC
TTCAATCTGTTCCACTGCACCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAATT
GCG
Found at i:48567540 original size:18 final size:18
Alignment explanation
Indices: 48567487--48567544 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
48567477 TGGCCTCTCA
48567487 TTTTTCTTTTTTGTTATTC
1 TTTTTCTTTTTTGTT-TTC
*
48567506 -TTTTCTTTTCTTTTTTTC
1 TTTTTCTTTT-TTGTTTTC
48567524 TTTTTCTTTTTTGTTTT-
1 TTTTTCTTTTTTGTTTTC
48567541 TTTT
1 TTTT
48567545 CAAGTGAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.11
18 18 0.51
19 13 0.37
ACGTcount: A:0.02, C:0.10, G:0.03, T:0.84
Consensus pattern (18 bp):
TTTTTCTTTTTTGTTTTC
Found at i:48567542 original size:14 final size:14
Alignment explanation
Indices: 48567506--48567535 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48567496 TTTGTTATTC
48567506 TTTTC-TTTTCTTT
1 TTTTCTTTTTCTTT
48567519 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
48567533 TTT
1 TTT
48567536 GTTTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:48573152 original size:18 final size:19
Alignment explanation
Indices: 48573107--48573156 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
48573097 ATAATACGTA
*
48573107 AAAATGAAATAAAACTATTT
1 AAAA-GAAATAAAACTATAT
* *
48573127 AAATGAAATAATA-TATAT
1 AAAAGAAATAAAACTATAT
48573145 AAAAGAAA-AAAA
1 AAAAGAAATAAAA
48573157 TTACACAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 8 0.32
20 3 0.12
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAAGAAATAAAACTATAT
Found at i:48578433 original size:19 final size:18
Alignment explanation
Indices: 48578409--48578444 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48578399 TAATAAATTA
*
48578409 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
48578428 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
48578445 AATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:48578459 original size:13 final size:14
Alignment explanation
Indices: 48578426--48578478 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
48578416 TTAAAATTTT
48578426 ATTTT-AATAATAA
1 ATTTTAAATAATAA
48578439 ATTTTAAATAAT-A
1 ATTTTAAATAATAA
**
48578452 ATTTTAAATTTTAA
1 ATTTTAAATAATAA
*
48578466 ATTTCAAATAATA
1 ATTTTAAATAATA
48578479 TTATTCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 16 0.48
14 17 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:48580069 original size:20 final size:19
Alignment explanation
Indices: 48580044--48580100 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
48580034 TATATTAAAT
48580044 ATATATTTATTTTTAATCAA
1 ATATA-TTATTTTTAATCAA
*
48580064 ATATA-TATTTTATATATTAA
1 ATATATTATTTT-TA-ATCAA
*
48580084 ATATATATATATTTAAT
1 ATATAT-TATTTTTAAT
48580101 ATGGGTTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 16 0.52
21 2 0.06
22 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATTATTTTTAATCAA
Found at i:48580083 original size:24 final size:24
Alignment explanation
Indices: 48580039--48580102 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
48580029 AATTATATAT
*
48580039 TAAATATATA-TTTAT-T-TTTAA
1 TAAATATATATTTTATATATTAAA
48580060 TCAAATATATATTTTATATATTAAA
1 T-AAATATATATTTTATATATTAAA
* *
48580085 TATATATATATTTAATAT
1 TAAATATATATTTTATAT
48580103 GGGTTGGGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.03
22 9 0.25
23 5 0.14
24 16 0.44
25 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAATATATATTTTATATATTAAA
Found at i:48580089 original size:22 final size:22
Alignment explanation
Indices: 48580031--48580102 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
48580021 CGGGCCCAAA
48580031 TTATATATTAAATATATATTTATT
1 TTATATATTAAATATATA--TATT
*
48580055 TT-TA-A-TCAA-ATATATATT
1 TTATATATTAAATATATATATT
48580073 TTATATATTAAATATATATATAT
1 TTATATATTAAATATATATAT-T
48580096 TTA-ATAT
1 TTATATAT
48580103 GGGTTGGGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
18 6 0.15
19 2 0.05
20 6 0.15
21 6 0.15
22 13 0.32
23 6 0.15
24 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATATATTAAATATATATATT
Found at i:48581490 original size:31 final size:29
Alignment explanation
Indices: 48581421--48581494 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
48581411 ACAAAATAAT
**
48581421 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
48581450 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
48581481 AACAAAAGTGACTA
1 AACATAAGTGACTA
48581495 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:48585298 original size:14 final size:14
Alignment explanation
Indices: 48585253--48585299 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
48585243 AAGAATTCGA
*
48585253 AAAATATAAAAACT
1 AAAATATATAAACT
*
48585267 AAAAT-TGATTAAATT
1 AAAATAT-A-TAAACT
48585282 AAAATATATAAACT
1 AAAATATATAAACT
48585296 AAAA
1 AAAA
48585300 GAAAAAGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.04
14 15 0.56
15 10 0.37
16 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAATATATAAACT
Found at i:48585883 original size:81 final size:81
Alignment explanation
Indices: 48585743--48585908 Score: 323
Period size: 81 Copynumber: 2.0 Consensus size: 81
48585733 AAAAGAAGGA
*
48585743 GAAATGATTTTATGAAACTGTGATTCCACGTCATCCTTATCTCTTTCCAATAAGAGAATGACAAA
1 GAAAGGATTTTATGAAACTGTGATTCCACGTCATCCTTATCTCTTTCCAATAAGAGAATGACAAA
48585808 TCAACTTTTTCCTCTT
66 TCAACTTTTTCCTCTT
48585824 GAAAGGATTTTATGAAACTGTGATTCCACGTCATCCTTATCTCTTTCCAATAAGAGAATGACAAA
1 GAAAGGATTTTATGAAACTGTGATTCCACGTCATCCTTATCTCTTTCCAATAAGAGAATGACAAA
48585889 TCAACTTTTTCCTCTT
66 TCAACTTTTTCCTCTT
48585905 GAAA
1 GAAA
48585909 AAATTCAAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (81 bp):
GAAAGGATTTTATGAAACTGTGATTCCACGTCATCCTTATCTCTTTCCAATAAGAGAATGACAAA
TCAACTTTTTCCTCTT
Found at i:48586700 original size:15 final size:15
Alignment explanation
Indices: 48586682--48586710 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48586672 GATTATTTTT
48586682 AAAAATAATTTAATA
1 AAAAATAATTTAATA
48586697 AAAAATAATTTAAT
1 AAAAATAATTTAAT
48586711 CATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATAATTTAATA
Found at i:48586708 original size:26 final size:26
Alignment explanation
Indices: 48586679--48586749 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
48586669 TAGGATTATT
48586679 TTTAAAAATAATTTAATAAAAAATAA
1 TTTAAAAATAATTTAATAAAAAATAA
** * * * *
48586705 TTTAATCATATTTTAAT-ATAATTAT
1 TTTAAAAATAATTTAATAAAAAATAA
*
48586730 TATTAAATATAATTTAATAA
1 T-TTAAAAATAATTTAATAA
48586750 TATTTCAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
25 6 0.18
26 27 0.79
27 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAAAAATAATTTAATAAAAAATAA
Found at i:48591978 original size:34 final size:34
Alignment explanation
Indices: 48591933--48591997 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
48591923 ACTGTATACG
* * * *
48591933 TGAACAGTACCGTCTACGTGAATAGTGTCGTGGA
1 TGAACAATACCGTATACGTAAATAGTATCGTGGA
48591967 TGAACAATACCGTATACGTAAATAGTATCGT
1 TGAACAATACCGTATACGTAAATAGTATCGT
48591998 AAACGGTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (34 bp):
TGAACAATACCGTATACGTAAATAGTATCGTGGA
Found at i:48595177 original size:20 final size:20
Alignment explanation
Indices: 48595154--48595196 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
48595144 TTTAGAATCC
48595154 TTTT-TAAATTTTATATAATTT
1 TTTTATAAATTTTA-AT-ATTT
48595175 TTTTATAAATTTTAATATTT
1 TTTTATAAATTTTAATATTT
48595195 TT
1 TT
48595197 AGACTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATAAATTTTAATATTT
Found at i:48595262 original size:19 final size:19
Alignment explanation
Indices: 48595235--48595276 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
48595225 AATGAGTAAC
*
48595235 TTTTTAAATATTTTTTAAA
1 TTTTAAAATATTTTTTAAA
48595254 TTTTAAAATATTTTTTAAA
1 TTTTAAAATATTTTTTAAA
48595273 TTTT
1 TTTT
48595277 TATTTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAAAATATTTTTTAAA
Found at i:48606243 original size:17 final size:17
Alignment explanation
Indices: 48606218--48606252 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
48606208 ATTGTAATTC
48606218 TTTTTATTAA-AAAATA
1 TTTTTATTAATAAAATA
48606234 TTTTTAATTAATAAAATA
1 TTTTT-ATTAATAAAATA
48606252 T
1 T
48606253 GAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTATTAATAAAATA
Found at i:48608159 original size:26 final size:24
Alignment explanation
Indices: 48608121--48608169 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
48608111 TTGTCATTTG
*
48608121 AAAAGGATTGAAATTTTAAAATTTAA
1 AAAAGGATAGAAA--TTAAAATTTAA
*
48608147 AAAAGTATAGAAATTAAAATTTA
1 AAAAGGATAGAAATTAAAATTTA
48608170 CCAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (24 bp):
AAAAGGATAGAAATTAAAATTTAA
Found at i:48608487 original size:24 final size:24
Alignment explanation
Indices: 48608456--48608504 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
48608446 AATTTTTTTA
48608456 AAAAATATCAT-ATAAAACAAATTT
1 AAAAATAT-ATAATAAAACAAATTT
* *
48608480 AAAAATATATAATACATCAAATTT
1 AAAAATATATAATAAAACAAATTT
48608504 A
1 A
48608505 CTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATATATAATAAAACAAATTT
Found at i:48609146 original size:16 final size:16
Alignment explanation
Indices: 48609125--48609158 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48609115 GACTTAAAAG
*
48609125 TTAAAACTAATTATTA
1 TTAAAACTAAATATTA
*
48609141 TTAAAATTAAATATTA
1 TTAAAACTAAATATTA
48609157 TT
1 TT
48609159 GAATTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAACTAAATATTA
Found at i:48609536 original size:20 final size:20
Alignment explanation
Indices: 48609508--48609573 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
48609498 AATTATACAG
*
48609508 CAAATGAAAAATAATCCAAC
1 CAAAAGAAAAATAATCCAAC
* * *
48609528 CAAAAG--AAATTATAC-AT
1 CAAAAGAAAAATAATCCAAC
*
48609545 CAAATGAAAAATAATCCAAC
1 CAAAAGAAAAATAATCCAAC
48609565 CAAAAGAAA
1 CAAAAGAAA
48609574 TTATACATCA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
19 7 0.21
20 14 0.41
ACGTcount: A:0.62, C:0.17, G:0.06, T:0.15
Consensus pattern (20 bp):
CAAAAGAAAAATAATCCAAC
Found at i:48609538 original size:37 final size:37
Alignment explanation
Indices: 48609496--48609590 Score: 172
Period size: 37 Copynumber: 2.6 Consensus size: 37
48609486 ACAAATATCT
*
48609496 GAAATTATACAGCAAATGAAAAATAATCCAACCAAAA
1 GAAATTATACATCAAATGAAAAATAATCCAACCAAAA
48609533 GAAATTATACATCAAATGAAAAATAATCCAACCAAAA
1 GAAATTATACATCAAATGAAAAATAATCCAACCAAAA
*
48609570 GAAATTATACATCAAACGAAA
1 GAAATTATACATCAAATGAAA
48609591 TTATACATCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (37 bp):
GAAATTATACATCAAATGAAAAATAATCCAACCAAAA
Found at i:48609553 original size:17 final size:17
Alignment explanation
Indices: 48609495--48609599 Score: 66
Period size: 17 Copynumber: 5.8 Consensus size: 17
48609485 AACAAATATC
*
48609495 TGAAATTATACAGCAAA
1 TGAAATTATACATCAAA
* * *
48609512 TGAAAAATAATCCAACCAAA
1 TG--AAATTATAC-ATCAAA
*
48609532 AGAAATTATACATCAAA
1 TGAAATTATACATCAAA
* * *
48609549 TGAAAAATAATCCAACCAAA
1 TG--AAATTATAC-ATCAAA
*
48609569 AGAAATTATACATCAAA
1 TGAAATTATACATCAAA
*
48609586 CGAAATTATACATC
1 TGAAATTATACATC
48609600 TACTGTTTGT
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
17 26 0.39
18 14 0.21
19 14 0.21
20 12 0.18
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (17 bp):
TGAAATTATACATCAAA
Found at i:48609772 original size:8 final size:8
Alignment explanation
Indices: 48609761--48609800 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
48609751 AAGCACTGTC
48609761 GAGTCGTG
1 GAGTCGTG
48609769 GAGTCGTG
1 GAGTCGTG
48609777 GAGTCGT-
1 GAGTCGTG
48609784 G-GTCGTG
1 GAGTCGTG
48609791 GAGTCGTG
1 GAGTCGTG
48609799 GA
1 GA
48609801 TTGGTGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 5 0.17
7 2 0.07
8 23 0.77
ACGTcount: A:0.12, C:0.12, G:0.50, T:0.25
Consensus pattern (8 bp):
GAGTCGTG
Found at i:48609790 original size:14 final size:14
Alignment explanation
Indices: 48609761--48609799 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 14
48609751 AAGCACTGTC
48609761 GAGTCGTGGAGTCGTG
1 GAGTCGT-G-GTCGTG
48609777 GAGTCGTGGTCGTG
1 GAGTCGTGGTCGTG
48609791 GAGTCGTGG
1 GAGTCGTGG
48609800 ATTGGTGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.65
15 1 0.04
16 7 0.30
ACGTcount: A:0.10, C:0.13, G:0.51, T:0.26
Consensus pattern (14 bp):
GAGTCGTGGTCGTG
Found at i:48609813 original size:22 final size:22
Alignment explanation
Indices: 48609765--48609822 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
48609755 ACTGTCGAGT
* *
48609765 CGTGGAGTCGTGGAGTCGTGGT
1 CGTGGAGTCGTGGATTCGTGGA
*
48609787 CGTGGAGTCGTGGATTGGTGGA
1 CGTGGAGTCGTGGATTCGTGGA
*
48609809 GGTGGAG--GTGGATT
1 CGTGGAGTCGTGGATT
48609823 TCCGATTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.22
22 25 0.78
ACGTcount: A:0.12, C:0.09, G:0.52, T:0.28
Consensus pattern (22 bp):
CGTGGAGTCGTGGATTCGTGGA
Found at i:48610783 original size:27 final size:27
Alignment explanation
Indices: 48610744--48610819 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
48610734 TAGTATTGGC
*
48610744 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
* *
48610771 GCCTATCTAGGAGGCGCCAACGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
48610798 GCCTATCTGGGAGGCGCCAATG
1 GCCTATCTGGGAGGCGCCAATG
48610820 CTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.17, C:0.24, G:0.38, T:0.21
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:48610860 original size:19 final size:19
Alignment explanation
Indices: 48610836--48610876 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
48610826 TTTTTTCGGG
*
48610836 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
48610855 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
48610874 TTT
1 TTT
48610877 TTGTGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:48611277 original size:241 final size:245
Alignment explanation
Indices: 48610843--48611324 Score: 909
Period size: 241 Copynumber: 2.0 Consensus size: 245
48610833 GGGTTTAGGG
48610843 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
1 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
48610908 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
48610973 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
*
48611038 CGACATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAA
*
48611088 TTAT-TTA-AAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTTAATTTA
1 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
48611151 TTAGTAATAAATTACAAAATTACTAATAAG-T-TACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
*
48611214 CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
48611279 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
48611325 TAAAATTGCA
Statistics
Matches: 234, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
241 141 0.60
242 1 0.00
243 85 0.36
244 3 0.01
245 4 0.02
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (245 bp):
TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAA
Found at i:48611319 original size:27 final size:27
Alignment explanation
Indices: 48611283--48611339 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
48611273 ATATCCCGAC
48611283 ATTACAATATTCACACAAAATTACAAT
1 ATTACAATATTCACACAAAATTACAAT
* * *
48611310 ATTACAATATTCATATAAAATTGCAAT
1 ATTACAATATTCACACAAAATTACAAT
48611337 ATT
1 ATT
48611340 TTTTTGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCACACAAAATTACAAT
Found at i:48611405 original size:22 final size:22
Alignment explanation
Indices: 48611380--48611466 Score: 120
Period size: 22 Copynumber: 3.7 Consensus size: 22
48611370 TCTATATTTA
48611380 GTATGAATATTGTAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
48611402 GTATGAATATTGTAATATTATAATTTT
1 GTATGAATATTGT-A-ATT-T--TTTT
*
48611429 GTATGAATATTGCAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
48611451 GTATGAATATTGTAAT
1 GTATGAATATTGTAAT
48611467 ATTGTAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 32 0.55
23 1 0.02
24 4 0.07
25 4 0.07
26 1 0.02
27 16 0.28
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (22 bp):
GTATGAATATTGTAATTTTTTT
Found at i:48611434 original size:49 final size:49
Alignment explanation
Indices: 48611375--48611474 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
48611365 GATTATCTAT
*
48611375 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
* *
48611424 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
48611473 AT
1 AT
48611475 ATTATAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:48611469 original size:8 final size:8
Alignment explanation
Indices: 48611456--48611527 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
48611446 TTTTTGTATG
48611456 AATATTGT
1 AATATTGT
48611464 AATATTGT
1 AATATTGT
*
48611472 AATATTAT
1 AATATTGT
*
48611480 AATTTTGTAT
1 AATATTG--T
48611490 GAATATTGT
1 -AATATTGT
* * *
48611499 AATGTCGGG
1 AATAT-TGT
48611508 ATATATTGT
1 A-ATATTGT
48611517 AATATTGT
1 AATATTGT
48611525 AAT
1 AAT
48611528 TTTTTGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 34 0.69
9 5 0.10
10 4 0.08
11 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (8 bp):
AATATTGT
Found at i:48611701 original size:28 final size:27
Alignment explanation
Indices: 48611670--48611727 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
48611660 CACAAAAATT
*
48611670 TATAACATAAATTTCATTGGCGCCTCTC
1 TATAACAT-AACTTCATTGGCGCCTCTC
** *
48611698 TATAAGGTACCTTCATTGGCGCCTCTC
1 TATAACATAACTTCATTGGCGCCTCTC
48611725 TAT
1 TAT
48611728 GAGGCACCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (27 bp):
TATAACATAACTTCATTGGCGCCTCTC
Found at i:48611759 original size:27 final size:27
Alignment explanation
Indices: 48611682--48611748 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
48611672 TAACATAAAT
*
48611682 TTCATTGGCGCCTCTCTATAAGGTACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
*
48611709 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
48611736 TTCATTGGCGCCT
1 TTCATTGGCGCCT
48611749 ACCTGATAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATAAGGCACC
Found at i:48613712 original size:4 final size:4
Alignment explanation
Indices: 48613703--48613743 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
48613693 TGTTTTTTTA
48613703 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
48613744 CATGGAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:48620152 original size:31 final size:30
Alignment explanation
Indices: 48620100--48620158 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
48620090 TCACCAAAGG
* *
48620100 TTTTATTTTTTCTTTCTTTTTAATATATAA
1 TTTTATTTTTTCTTTCATTTTAACATATAA
48620130 TTTTATTATTTTCTCTT-ATTTTAACATAT
1 TTTTATT-TTTTCT-TTCATTTTAACATAT
48620159 TTCTTGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 16 0.64
32 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTTATTTTTTCTTTCATTTTAACATATAA
Found at i:48623558 original size:15 final size:15
Alignment explanation
Indices: 48623538--48623576 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
48623528 GCACCGCCCG
*
48623538 AAACCGTTACTGCCA
1 AAACCGCTACTGCCA
*
48623553 AAACCGCTACTGCCG
1 AAACCGCTACTGCCA
48623568 AAACCGCTA
1 AAACCGCTA
48623577 TTATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.15
Consensus pattern (15 bp):
AAACCGCTACTGCCA
Found at i:48625655 original size:21 final size:22
Alignment explanation
Indices: 48625631--48625672 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
48625621 ACCCCAAATT
* *
48625631 AAAAATCCCTAAAA-CGAAAAC
1 AAAAACCCCCAAAACCGAAAAC
48625652 AAAAACCCCCAAAACCGAAAA
1 AAAAACCCCCAAAACCGAAAA
48625673 AGAAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.62, C:0.29, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAACCCCCAAAACCGAAAAC
Found at i:48629472 original size:2 final size:2
Alignment explanation
Indices: 48629465--48629491 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48629455 AATGAAATAC
48629465 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48629492 TTGAACTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48632856 original size:19 final size:21
Alignment explanation
Indices: 48632820--48632869 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
48632810 AATTTAACAT
*
48632820 AAATATTTATTATGAATTATA
1 AAATATTTAATATGAATTATA
48632841 AAAT-TTTAATAT-AATTATA
1 AAATATTTAATATGAATTATA
*
48632860 TAATATTTAA
1 AAATATTTAA
48632870 AATACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATTTAATATGAATTATA
Found at i:48632927 original size:3 final size:3
Alignment explanation
Indices: 48632919--48632961 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
48632909 ATATTTTAAA
* *
48632919 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
48632962 CTTAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:48635577 original size:63 final size:65
Alignment explanation
Indices: 48635472--48635594 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 65
48635462 ATATATAATA
*
48635472 TATAATTTATTAACAAACTAAACAATCAAACTATAAACATATA-TGAAAAATATTTAAATGTACG
1 TATAATTTAGTAACAAACTAAACAATCAAACTATAAACATATAGTGAAAAATATTTAAATGTACG
* * * * * *
48635536 TATAATTTAGTAAGAAATTAAA-AATGAGACTATAAATATATATGTGAAAGATATTTAAA
1 TATAATTTAGTAACAAACTAAACAATCAAACTATAAACATATA-GTGAAAAATATTTAAA
48635595 AAATGATGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 17 0.34
64 19 0.38
65 14 0.28
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.33
Consensus pattern (65 bp):
TATAATTTAGTAACAAACTAAACAATCAAACTATAAACATATAGTGAAAAATATTTAAATGTACG
Found at i:48645382 original size:30 final size:30
Alignment explanation
Indices: 48645349--48645517 Score: 159
Period size: 30 Copynumber: 5.7 Consensus size: 30
48645339 AATTTTTTTG
* *
48645349 CATTTTGACCCTTAAACTTTTCTAAAATTG
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
48645379 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* ** * *
48645409 CAGTTCAACCCTTAAAAATTTT-T-AAATTA
1 CATTTTGACCCCT-AAACTTTTCTAAAATTA
* *
48645438 CATTTTAACCCCTAAACTTTT-AAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
48645467 CATTTTGACCCCTAAAC-TTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTTTC-TAAAATTA
* * * *
48645497 CGTTTTGGCCCCAAAAGTTTT
1 CATTTTGACCCCTAAACTTTT
48645518 GCTGCCATTA
Statistics
Matches: 114, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
28 10 0.09
29 43 0.38
30 51 0.45
31 7 0.06
32 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:48645420 original size:29 final size:27
Alignment explanation
Indices: 48645356--48645497 Score: 86
Period size: 29 Copynumber: 4.8 Consensus size: 27
48645346 TTGCATTTTG
* *
48645356 ACCCTTAAACTTTTCTAAAATTGCATTTTGA
1 ACCC-TAAAC-TTT-TAAAATTACA-TTTCA
* *
48645387 CCCCTAAACTTTCTCAAAATTACAGTTCA
1 ACCCTAAACTTT-T-AAAATTACATTTCA
* * *
48645416 ACCCTTAAAAATTTTTAAATTACATTTTA
1 ACCC-T-AAACTTTTAAAATTACATTTCA
*
48645445 ACCCCTAAACTTTTAAAAATTACATTTTGA
1 A-CCCTAAACTTTT-AAAATTACA-TTTCA
*
48645475 CCCCTAAACTTTCTTAAAATTAC
1 ACCCTAAAC-TT-TTAAAATTAC
48645498 GTTTTGGCCC
Statistics
Matches: 90, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
28 7 0.08
29 40 0.44
30 32 0.36
31 11 0.12
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.38
Consensus pattern (27 bp):
ACCCTAAACTTTTAAAATTACATTTCA
Found at i:48645449 original size:59 final size:59
Alignment explanation
Indices: 48645356--48645468 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
48645346 TTGCATTTTG
* * * *
48645356 ACCCTTAAACTTTTCTAAAATTGCATTTTGACCCCTAAACTTTCTCAAAATTACAGTTCA
1 ACCCTTAAAATTTTCTAAAATTACATTTTAACCCCTAAACTTT-TAAAAATTACAGTTCA
48645416 ACCCTTAAAAATTTT-T-AAATTACATTTTAACCCCTAAACTTTTAAAAATTACA
1 ACCCTT-AAAATTTTCTAAAATTACATTTTAACCCCTAAACTTTTAAAAATTACA
48645469 TTTTGACCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 10 0.21
59 24 0.50
60 7 0.15
61 7 0.15
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (59 bp):
ACCCTTAAAATTTTCTAAAATTACATTTTAACCCCTAAACTTTTAAAAATTACAGTTCA
Found at i:48646001 original size:4 final size:4
Alignment explanation
Indices: 48645992--48646052 Score: 71
Period size: 4 Copynumber: 16.5 Consensus size: 4
48645982 GCTGATCGGA
48645992 AAAG AAAG AAAG AAAG -AA- AAAG AGAAG AAAG AAAG AAAG -AAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG
48646037 -AAG AAAG -AAG AAAG AA
1 AAAG AAAG AAAG AAAG AA
48646053 GAGGGAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
3 16 0.31
4 32 0.62
5 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:48646019 original size:23 final size:22
Alignment explanation
Indices: 48645993--48646052 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 22
48645983 CTGATCGGAA
48645993 AAGAAAGAAAGAAAGAAAAAGAG
1 AAGAAAGAAAGAAAGAAAAA-AG
*
48646016 AAGAAAGAAAGAAAG-AAGAAG
1 AAGAAAGAAAGAAAGAAAAAAG
48646037 AAGAAAG-AAGAAAGAA
1 AAGAAAGAAAGAAAGAA
48646053 GAGGGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
22 3 0.09
23 15 0.43
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
AAGAAAGAAAGAAAGAAAAAAG
Found at i:48646034 original size:7 final size:7
Alignment explanation
Indices: 48645993--48646054 Score: 81
Period size: 7 Copynumber: 8.6 Consensus size: 7
48645983 CTGATCGGAA
48645993 AAGAAAG
1 AAGAAAG
48646000 AAAGAAAG
1 -AAGAAAG
*
48646008 AAAAAGAG
1 AAGAA-AG
48646016 AAGAAAG
1 AAGAAAG
48646023 AAAGAAAG
1 -AAGAAAG
48646031 AAG-AAG
1 AAGAAAG
48646037 AAGAAAG
1 AAGAAAG
48646044 AAGAAAG
1 AAGAAAG
48646051 AAGA
1 AAGA
48646055 GGGAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
6 6 0.12
7 23 0.47
8 20 0.41
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:48646396 original size:22 final size:22
Alignment explanation
Indices: 48646365--48646409 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
48646355 CCAGCCCAGC
*
48646365 AGAAAAAAAAGAGAAAGGAAAAA
1 AGAAAAAAAAAAG-AAGGAAAAA
48646388 AGAAAAAAAAAAGAAGGAAAAA
1 AGAAAAAAAAAAGAAGGAAAAA
48646410 TGGTTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAAAAGAAGGAAAAA
Found at i:48646592 original size:5 final size:5
Alignment explanation
Indices: 48646574--48646611 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
48646564 CTTTTTCGTA
* *
48646574 TTTAT ATTA- TTTAT ATTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
48646612 ATCAATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 3 0.11
5 25 0.89
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:48646892 original size:17 final size:17
Alignment explanation
Indices: 48646872--48647061 Score: 89
Period size: 17 Copynumber: 10.7 Consensus size: 17
48646862 AAAAAAAATT
48646872 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTTC
*
48646889 GTGTTTAAAAAAATTTCTC
1 GTGTTT-CAAAAATTT-TC
*
48646908 GTGTTTCAAAAATTTCCTT
1 GTGTTTCAAAAATTT--TC
* * **
48646927 GTTTTTTTAAAAAAAAATTC
1 G--TGTTT-CAAAAATTTTC
* * *
48646947 CTATTTTAAAAAATTCTT-
1 GT-GTTTCAAAAATT-TTC
* *
48646965 ATGTTTCAAAAATCTTC
1 GTGTTTCAAAAATTTTC
* *
48646982 GTGTTTTC-AAAATTCTA
1 GTG-TTTCAAAAATTTTC
*
48646999 GTGTTTCAAAAATTTAC
1 GTGTTTCAAAAATTTTC
* *
48647016 GTGTTTTCAACAATTCTC
1 GTG-TTTCAAAAATTTTC
* *
48647034 GTTTTTCACAAATTTTC
1 GTGTTTCAAAAATTTTC
*
48647051 GCGTTT-AAAAA
1 GTGTTTCAAAAA
48647062 AAAATCTGGT
Statistics
Matches: 129, Mismatches: 32, Indels: 25
0.69 0.17 0.13
Matches are distributed among these distances:
16 10 0.08
17 50 0.39
18 41 0.32
19 17 0.13
20 1 0.01
21 4 0.03
22 6 0.05
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (17 bp):
GTGTTTCAAAAATTTTC
Found at i:48646920 original size:18 final size:18
Alignment explanation
Indices: 48646872--48647182 Score: 89
Period size: 18 Copynumber: 17.3 Consensus size: 18
48646862 AAAAAAAATT
48646872 GTGTTTCAAAAATTT-TC
1 GTGTTTCAAAAATTTCTC
*
48646889 GTGTTTAAAAAAATTTCTC
1 GTGTTT-CAAAAATTTCTC
*
48646908 GTGTTTCAAAAATTTCCTT
1 GTGTTTCAAAAATTT-CTC
* * *
48646927 GTTTTTTTAAAAAAAAATTC-C
1 G--TGTTT--CAAAAATTTCTC
* * * *
48646948 -TATTTTAAAAAATTCTT
1 GTGTTTCAAAAATTTCTC
* *
48646965 ATGTTTCAAAAATCT-TC
1 GTGTTTCAAAAATTTCTC
*
48646982 GTGTTTTC-AAAA-TTCTA
1 GTG-TTTCAAAAATTTCTC
*
48646999 GTGTTTCAAAAATTT-AC
1 GTGTTTCAAAAATTTCTC
*
48647016 GTGTTTTCAACAA-TTCTC
1 GTG-TTTCAAAAATTTCTC
* *
48647034 GTTTTTCACAAATTT-TC
1 GTGTTTCAAAAATTTCTC
* * ** *
48647051 GCGTTTAAAAAAAAATCTG
1 GTGTTT-CAAAAATTTCTC
** *
48647070 GT-TTTCAAAAAAAAAATCGC
1 GTGTTTC---AAAAATTTCTC
*
48647090 GTGTTTC-AAAATTGTCTT
1 GTGTTTCAAAAATT-TCTC
48647108 GT-TTTCAAAAATTT-TC
1 GTGTTTCAAAAATTTCTC
* *
48647124 GTGTTTTTAAGAATTAT-T-
1 GTG-TTTCAAAAATT-TCTC
*
48647142 GTGTCTT--TAAATTTCTC
1 GTGT-TTCAAAAATTTCTC
* *
48647159 GTGTTTTAAAAATTTTTC
1 GTGTTTCAAAAATTTCTC
48647177 GTGTTT
1 GTGTTT
48647183 TTCAAAGAAA
Statistics
Matches: 215, Mismatches: 47, Indels: 63
0.66 0.14 0.19
Matches are distributed among these distances:
15 1 0.00
16 24 0.11
17 53 0.25
18 95 0.44
19 15 0.07
20 11 0.05
21 8 0.04
22 1 0.00
23 7 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
GTGTTTCAAAAATTTCTC
Found at i:48646959 original size:16 final size:17
Alignment explanation
Indices: 48646938--48646977 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
48646928 TTTTTTTAAA
48646938 AAAAAATTCCTAT-TTT
1 AAAAAATTCCTATGTTT
*
48646954 AAAAAATTCTTATGTTT
1 AAAAAATTCCTATGTTT
*
48646971 CAAAAAT
1 AAAAAAT
48646978 CTTCGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAAAATTCCTATGTTT
Found at i:48646980 original size:16 final size:16
Alignment explanation
Indices: 48646955--48647011 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
48646945 TCCTATTTTA
48646955 AAAAATTCTTATGTTTC
1 AAAAA-TCTTATGTTTC
*
48646972 AAAAATCTTCGTGTTTTC
1 AAAAATCTT-ATG-TTTC
*
48646990 AAAATTC-TAGTGTTTC
1 AAAAATCTTA-TGTTTC
48647006 AAAAAT
1 AAAAAT
48647012 TTACGTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 13 0.39
17 10 0.30
18 10 0.30
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAAATCTTATGTTTC
Found at i:48647019 original size:34 final size:33
Alignment explanation
Indices: 48646956--48647048 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 33
48646946 CCTATTTTAA
48646956 AAAATTCTTA-TGTTTCAAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTGTTTCAAAAAT-TTCGTGTTTTC
48646990 AAAATTCTAGTGTTTCAAAAATTTACGTGTTTTC
1 AAAATTCTAGTGTTTCAAAAATTT-CGTGTTTTC
* * *
48647024 AACAATTCTCGTTTTTCACAAATTT
1 AA-AATTCTAGTGTTTCAAAAATTT
48647049 TCGCGTTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
33 4 0.08
34 30 0.57
35 19 0.36
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (33 bp):
AAAATTCTAGTGTTTCAAAAATTTCGTGTTTTC
Found at i:48647080 original size:20 final size:21
Alignment explanation
Indices: 48647057--48647100 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
48647047 TTTCGCGTTT
48647057 AAAAAAAAATCTG-GT-TTTCA
1 AAAAAAAAATC-GCGTGTTTCA
48647077 AAAAAAAAATCGCGTGTTTCA
1 AAAAAAAAATCGCGTGTTTCA
48647098 AAA
1 AAA
48647101 TTGTCTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.59
21 8 0.36
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (21 bp):
AAAAAAAAATCGCGTGTTTCA
Done.