Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 63 of 175
Found at i:18657278 original size:47 final size:49
Alignment explanation
Indices: 18657154--18657279 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
18657144 TATTATCAAG
* * *
18657154 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATTATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* * * * * *
18657205 AATTATA-CAAATTCATAAAATATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
18657252 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
18657280 AAATATATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
47 32 0.55
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:18657376 original size:120 final size:118
Alignment explanation
Indices: 18657252--18657542 Score: 460
Period size: 120 Copynumber: 2.4 Consensus size: 118
18657242 AATTATTTTA
* * *
18657252 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
18657315 TTATAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCACATAAG-A-ATTAATTATTAAG
*
18657372 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
18657437 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATTAATTATTAAG
* *
18657490 AATTTTATTAAATTATATATTTTAATTTAAATATATTTAATAATATTTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
18657543 TAAATATGAT
Statistics
Matches: 160, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
118 63 0.39
119 6 0.04
120 89 0.56
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (118 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATTAATTATTAAG
Found at i:18657412 original size:15 final size:15
Alignment explanation
Indices: 18657377--18657428 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
18657367 TTAAGAATTT
*
18657377 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18657391 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18657405 TATTTAATAATAAT-
1 TATTTAATTATAATA
18657419 TATGTTAATT
1 TAT-TTAATT
18657429 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18657508 original size:59 final size:58
Alignment explanation
Indices: 18657325--18657510 Score: 171
Period size: 59 Copynumber: 3.1 Consensus size: 58
18657315 TTATAGTATC
18657325 ATATATTATGATTTGAGTAAATTCACATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCA-ATAAG-A-ATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * * *
18657386 ATATATTTTAATTAT-AATATATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCAATAAGAATTA-ATT-ATTAAGAATTTTATTA-AATT
18657445 ATATATTATGATTTGAGTAAATTCATATAAGAATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCA-ATAAGAATTAATTATTAAGAATTTTATTAAATT
18657504 ATATATT
1 ATATATT
18657511 TTAATTTAAA
Statistics
Matches: 93, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
58 10 0.11
59 46 0.49
60 18 0.19
61 18 0.19
62 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (58 bp):
ATATATTATGATTTGAGTAAATTCAATAAGAATTAATTATTAAGAATTTTATTAAATT
Found at i:18657555 original size:26 final size:25
Alignment explanation
Indices: 18657515--18657564 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
18657505 TATATTTTAA
18657515 TTTAAATATATTTAATAATATTTATG
1 TTTAAATATATTTAA-AATATTTATG
*
18657541 TTTAAATATGA-TTAAATTATTTAT
1 TTTAAATAT-ATTTAAAATATTTAT
18657565 TATTGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTAAATATATTTAAAATATTTATG
Found at i:18657676 original size:18 final size:17
Alignment explanation
Indices: 18657648--18657682 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18657638 ATTATTAAGA
*
18657648 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18657665 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18657683 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18657765 original size:157 final size:157
Alignment explanation
Indices: 18657479--18657795 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
18657469 ATATAAGAAT
* *
18657479 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTTAAATATATTTAATAATATTTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
18657544 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
* *
18657609 TAATAATTTACCAAAACAAATTTCTGC
131 TAACAATTTACCAAAACAAATTTATGC
18657636 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
18657701 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
*
18657766 TAACCATTTACCAAAACAAATTTATGC
131 TAACAATTTACCAAAACAAATTTATGC
18657793 TAA
1 TAA
18657796 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
TAACAATTTACCAAAACAAATTTATGC
Found at i:18657952 original size:17 final size:16
Alignment explanation
Indices: 18657918--18657970 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
18657908 GATTTGCTAT
18657918 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18657934 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
18657951 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18657967 TACA
1 TACA
18657971 GTGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18669900 original size:26 final size:26
Alignment explanation
Indices: 18669871--18669938 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
18669861 ACACACCAAT
*
18669871 ATCGTAGCAAAGCTGCCAGTAGT-AGC
1 ATCGCAGCAAAGCTGCCAGTA-TCAGC
* *
18669897 ATCGCAGTAGAGCTGCCAGTATCAGC
1 ATCGCAGCAAAGCTGCCAGTATCAGC
*
18669923 ATCGCAACAAAGCTGC
1 ATCGCAGCAAAGCTGC
18669939 TAGAAACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTATCAGC
Found at i:18670132 original size:27 final size:27
Alignment explanation
Indices: 18670102--18670471 Score: 293
Period size: 27 Copynumber: 13.7 Consensus size: 27
18670092 CCGACTCTTA
**
18670102 GGGGTATAACAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
18670129 GGGGTATTTCAATCATTTTACCCTTCAG
1 GGGGTATTTCAGTCATTTTACCCTTC-G
** *
18670157 GGGGTATTTTGGTCATTTTACCCTACGG
1 GGGGTATTTCAGTCATTTTACCCTTC-G
* * *
18670185 GGGGTATTTTAGTCGTTTTACCCTT-T
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
18670211 GGGGTATTT-AGGTCATTTTACCATTCA
1 GGGGTATTTCA-GTCATTTTACCCTTCG
* *
18670238 GAGGTATTTCAGTGATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
** * * *
18670265 AAGGTATTTCGGTCAGTTTACCTTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * **
18670292 GGTGTATTTC-GTTCATTTTACTCTTTA
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* *
18670319 GGGGTATTTC-GATCATTTTATCCATCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* * ** * *
18670346 AGGATATTTTTGGCATTTTATCCTAT-G
1 GGGGTATTTCAGTCATTTTACCCT-TCG
* * * *
18670373 GGGGTATTTCGGCCATTTTAACTTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * *
18670400 AGGGTAGTTCGGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
18670427 AGGGTATTTC-GATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
18670454 GGGGTATTTCAGTCATTT
1 GGGGTATTTCAGTCATTT
18670472 GCCCATGAAT
Statistics
Matches: 275, Mismatches: 58, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 200 0.73
28 50 0.18
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:18677390 original size:41 final size:40
Alignment explanation
Indices: 18677333--18677487 Score: 229
Period size: 41 Copynumber: 3.8 Consensus size: 40
18677323 CTATTCTCTG
*
18677333 AATTGCACTTACGTGCCCCCGTTTGTACTTCAGTACCCCTA
1 AATTGCACTTACGTGCCCCTGTTTGTACTTC-GTACCCCTA
*
18677374 AATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTT
1 AATTGCACTTACGTGCCCCTGTTTGTACTTC-GTACCCCTA
* *
18677415 AATTACACTTACATGCCCCTGTTTGTACTTCGATACCCCTA
1 AATTGCACTTACGTGCCCCTGTTTGTACTTCG-TACCCCTA
* *
18677456 AATTGAACTTACGTGCCCCTGTTTGTGCTTCG
1 AATTGCACTTACGTGCCCCTGTTTGTACTTCG
18677488 GTAACCTGAA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 102 0.99
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (40 bp):
AATTGCACTTACGTGCCCCTGTTTGTACTTCGTACCCCTA
Found at i:18677412 original size:20 final size:19
Alignment explanation
Indices: 18677348--18677487 Score: 57
Period size: 21 Copynumber: 6.9 Consensus size: 19
18677338 CACTTACGTG
*
18677348 CCCCCGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTC-GTA
** * *
18677368 CCCCTAAATTGCACTTACGTG
1 CCCCT-GTTTGTACTT-CGTA
18677389 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
** * *
18677409 CCCCT-TAATTACACTTACATG
1 CCCCTGT--TTGTACTT-CGTA
18677430 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCG-TA
** * *
18677450 CCCCTAAATTGAACTTACGTG
1 CCCCT-GTTTGTACTT-CGTA
*
18677471 CCCCTGTTTGTGCTTCG
1 CCCCTGTTTGTACTTCG
18677488 GTAACCTGAA
Statistics
Matches: 85, Mismatches: 25, Indels: 21
0.65 0.19 0.16
Matches are distributed among these distances:
19 5 0.06
20 36 0.42
21 39 0.46
22 5 0.06
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.35
Consensus pattern (19 bp):
CCCCTGTTTGTACTTCGTA
Found at i:18677475 original size:82 final size:82
Alignment explanation
Indices: 18677333--18677490 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
18677323 CTATTCTCTG
* * *
18677333 AATTGCACTTACGTGCCCCCGTTTGTACTTCAGTACCCCTAAATTGCACTTACGTGCCCCTGTTT
1 AATTACACTTACATGCCCCCGTTTGTACTTCAGTACCCCTAAATTGAACTTACGTGCCCCTGTTT
18677398 GTACTTCGGTACCCCTT
66 GTACTTCGGTACCCCTT
*
18677415 AATTACACTTACATGCCCCTGTTTGTACTTC-GATACCCCTAAATTGAACTTACGTGCCCCTGTT
1 AATTACACTTACATGCCCCCGTTTGTACTTCAG-TACCCCTAAATTGAACTTACGTGCCCCTGTT
*
18677479 TGTGCTTCGGTA
65 TGTACTTCGGTA
18677491 ACCTGAATAC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
81 1 0.01
82 69 0.99
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (82 bp):
AATTACACTTACATGCCCCCGTTTGTACTTCAGTACCCCTAAATTGAACTTACGTGCCCCTGTTT
GTACTTCGGTACCCCTT
Found at i:18679498 original size:25 final size:25
Alignment explanation
Indices: 18679463--18679582 Score: 177
Period size: 25 Copynumber: 4.8 Consensus size: 25
18679453 TTATCAATAC
*
18679463 GCCATAAAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
*
18679488 GCCACAGAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
* *
18679513 GCCACAAAGGCTTCATTTCAAATAC
1 GCCACAAAGGCTTCATTTCAGATAT
* *
18679538 ACCACAAATGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
*
18679563 GCCACAAAGGATTCATTTCA
1 GCCACAAAGGCTTCATTTCA
18679583 AATACAATAC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 83 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (25 bp):
GCCACAAAGGCTTCATTTCAGATAT
Found at i:18679543 original size:50 final size:50
Alignment explanation
Indices: 18679463--18679606 Score: 189
Period size: 50 Copynumber: 2.9 Consensus size: 50
18679453 TTATCAATAC
* * ** *
18679463 GCCATAAAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAAATACACCACAAAGGCTTCATTTCAGATAT
*
18679513 GCCACAAAGGCTTCATTTCAAATACACCACAAATGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAAATACACCACAAAGGCTTCATTTCAGATAT
* ** *
18679563 GCCACAAAGGATTCATTTCAAATACAATACACAGGCTTCCATTT
1 GCCACAAAGGCTTCATTTCAAATACACCACAAAGGCTT-CATTT
18679607 ATTGATGTGT
Statistics
Matches: 82, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 77 0.94
51 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (50 bp):
GCCACAAAGGCTTCATTTCAAATACACCACAAAGGCTTCATTTCAGATAT
Found at i:18679599 original size:75 final size:76
Alignment explanation
Indices: 18679458--18679606 Score: 192
Period size: 75 Copynumber: 2.0 Consensus size: 76
18679448 AAGAGTTATC
* * * * * ***
18679458 AATACGCCATAAAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCAGATATGCCACAAAGG
1 AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGATTCATTTCAAATACAACACAAAGG
18679523 CTT-CATTTCA
66 CTTCCATTTCA
* * *
18679533 AATACACCACAAATGCTTCATTTCAGATATGCCACAAAGGATTCATTTCAAATACAATACACAGG
1 AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGATTCATTTCAAATACAACACAAAGG
18679598 CTTCCATTT
66 CTTCCATTT
18679607 ATTGATGTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
75 57 0.92
76 5 0.08
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (76 bp):
AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGATTCATTTCAAATACAACACAAAGG
CTTCCATTTCA
Found at i:18685099 original size:20 final size:20
Alignment explanation
Indices: 18685068--18685119 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
18685058 TGAACCACTT
18685068 CAAGCACATATAAATAAGTCA
1 CAAGC-CATATAAATAAGTCA
18685089 CAAGCCATATAAATAAGTCA
1 CAAGCCATATAAATAAGTCA
*
18685109 TAAGCCATATA
1 CAAGCCATATA
18685120 TTTATAGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (20 bp):
CAAGCCATATAAATAAGTCA
Found at i:18686124 original size:20 final size:20
Alignment explanation
Indices: 18686101--18686139 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18686091 GAAGTGTAAG
18686101 CAGAGACACCAATGTGCAAA
1 CAGAGACACCAATGTGCAAA
*
18686121 CAGAGGCACCAATGTGCAA
1 CAGAGACACCAATGTGCAA
18686140 TCTTGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.26, G:0.23, T:0.10
Consensus pattern (20 bp):
CAGAGACACCAATGTGCAAA
Found at i:18691893 original size:26 final size:27
Alignment explanation
Indices: 18691864--18691947 Score: 102
Period size: 26 Copynumber: 3.2 Consensus size: 27
18691854 ACATAGTTGC
*
18691864 TCACATGAGTTGTGAAATAGGTATG-T
1 TCACACGAGTTGTGAAATAGGTATGCT
* *
18691890 TCACACGAGCTATGAAATAGGTATGCT
1 TCACACGAGTTGTGAAATAGGTATGCT
* *
18691917 T-ACACGAGTTGTGAAATGGGTCTGC-
1 TCACACGAGTTGTGAAATAGGTATGCT
18691942 TCACAC
1 TCACAC
18691948 AAGCTATGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.02
26 46 0.94
27 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (27 bp):
TCACACGAGTTGTGAAATAGGTATGCT
Found at i:18693990 original size:15 final size:15
Alignment explanation
Indices: 18693972--18694003 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18693962 TAAACTTGTA
*
18693972 TAAATTAAATTAAAC
1 TAAATTAAATAAAAC
18693987 TAAATTAAATAAAAC
1 TAAATTAAATAAAAC
18694002 TA
1 TA
18694004 CTAAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAATTAAATAAAAC
Found at i:18717578 original size:22 final size:22
Alignment explanation
Indices: 18717553--18717627 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
18717543 TGAACAAGCC
* * *
18717553 ACCACTGATTTGCATATGAACT
1 ACCACTAATTTACAGATGAACT
18717575 ACCACTAATTTACAGATGAACT
1 ACCACTAATTTACAGATGAACT
* * **
18717597 GCCACTAGTTTGTAGAT-AAGCT
1 ACCACTAATTTACAGATGAA-CT
18717619 ACCACTAAT
1 ACCACTAAT
18717628 AACACTTTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
21 2 0.05
22 41 0.95
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (22 bp):
ACCACTAATTTACAGATGAACT
Found at i:18725827 original size:14 final size:15
Alignment explanation
Indices: 18725799--18725828 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18725789 GCAAAGGAGC
18725799 AAAAAGAAAAGATAG
1 AAAAAGAAAAGATAG
18725814 AAAAAGAAAA-ATAG
1 AAAAAGAAAAGATAG
18725828 A
1 A
18725829 GTGAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AAAAAGAAAAGATAG
Found at i:18729057 original size:28 final size:28
Alignment explanation
Indices: 18729025--18729079 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18729015 TTAAATGTGT
* *
18729025 TTTTATTATATGTTATTAATG-TGTCTAC
1 TTTTATTACATGCT-TTAATGATGTCTAC
18729053 TTTTATTACATGCTTTAATGATGTCTA
1 TTTTATTACATGCTTTAATGATGTCTA
18729080 AGTCAAGCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (28 bp):
TTTTATTACATGCTTTAATGATGTCTAC
Found at i:18737871 original size:15 final size:16
Alignment explanation
Indices: 18737851--18737880 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18737841 GTTGAAACTT
18737851 TTTAAAATAA-AATTA
1 TTTAAAATAATAATTA
18737866 TTTAAAATAATAATT
1 TTTAAAATAATAATT
18737881 TAATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAAATAATAATTA
Found at i:18739063 original size:27 final size:27
Alignment explanation
Indices: 18739026--18739088 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
18739016 AAAAATTACT
18739026 AAAATATTATAACTTTTTTATTTACCAA
1 AAAATA-TATAACTTTTTTATTTACCAA
*
18739054 AAAATATATAATTTTTTTATTTACCAA
1 AAAATATATAACTTTTTTATTTACCAA
*
18739081 AATATATA
1 AAAATATA
18739089 AAAAACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATATATAACTTTTTTATTTACCAA
Found at i:18739099 original size:1 final size:1
Alignment explanation
Indices: 18739088--18739139 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
18739078 CAAAATATAT
* * * * *
18739088 AAAAAACAAAAAAAAACAAAAAAACAAAAAAAAATAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18739140 CCTGAACTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.06, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:18739101 original size:10 final size:10
Alignment explanation
Indices: 18739088--18739139 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
18739078 CAAAATATAT
18739088 AAAAAACAAA
1 AAAAAACAAA
18739098 AAAAAAC--A
1 AAAAAACAAA
18739106 AAAAAACAAA
1 AAAAAACAAA
*
18739116 AAAAAATAAA
1 AAAAAACAAA
*
18739126 AAAAGA-AAA
1 AAAAAACAAA
18739135 AAAAA
1 AAAAA
18739140 CCTGAACTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 8 0.22
9 7 0.19
10 22 0.59
ACGTcount: A:0.90, C:0.06, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:18739109 original size:18 final size:18
Alignment explanation
Indices: 18739088--18739140 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
18739078 CAAAATATAT
18739088 AAAAAACAAAAAAAAACA
1 AAAAAACAAAAAAAAACA
*
18739106 AAAAAACAAAAAAAAATA
1 AAAAAACAAAAAAAAACA
*
18739124 AAAAAAGAAAAAAAAAC
1 AAAAAACAAAAAAAAAC
18739141 CTGAACTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.89, C:0.08, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAACAAAAAAAAACA
Found at i:18739540 original size:3 final size:3
Alignment explanation
Indices: 18739532--18739575 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18739522 AATGTTATAG
18739532 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18739576 AGATGTTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18744568 original size:29 final size:30
Alignment explanation
Indices: 18744529--18744586 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18744519 TACAAACTCT
* *
18744529 TTTTTCATTTT-CATCACTCGTTTCTTTTTC
1 TTTTTCATTTTGAATCACTC-TCTCTTTTTC
18744559 TTTTTC-TTTTGAATCACTCTCTCTTTTT
1 TTTTTCATTTTGAATCACTCTCTCTTTTT
18744587 TTTATCACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.10, C:0.22, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTTCATTTTGAATCACTCTCTCTTTTTC
Found at i:18746807 original size:11 final size:11
Alignment explanation
Indices: 18746791--18746823 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18746781 ATATATATCC
18746791 TTTTTTTTGAA
1 TTTTTTTTGAA
18746802 TTTTTTTTCG-A
1 TTTTTTTT-GAA
18746813 TTTTTTTTGAA
1 TTTTTTTTGAA
18746824 ACTACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:18748364 original size:18 final size:18
Alignment explanation
Indices: 18748336--18748380 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
18748326 CTCACATCAT
* * *
18748336 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAAAAGG
*
18748354 TGGTTGCGAAGAAAAAGG
1 TGGTGGCGAAGAAAAAGG
18748372 TGGTGGCGA
1 TGGTGGCGA
18748381 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAAAAGG
Found at i:18751760 original size:17 final size:17
Alignment explanation
Indices: 18751738--18751771 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18751728 AAGATGTCAA
18751738 GAATATTAGAATAGCAT
1 GAATATTAGAATAGCAT
*
18751755 GAATATTAGATTAGCAT
1 GAATATTAGAATAGCAT
18751772 CTTACCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (17 bp):
GAATATTAGAATAGCAT
Found at i:18752781 original size:70 final size:70
Alignment explanation
Indices: 18752685--18752825 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
18752675 AAAAATTACA
18752685 TAAAATATTTTTTGGGTGGAAAAAATAGTTTTTGTTTTTTAGTGGAATGAGATTATTTTTTTTAT
1 TAAAATATTTTTTGGGTGGAAAAAATAGTTTTTGTTTTTTAGTGGAATGAGATTATTTTTTTTAT
18752750 GTTTT
66 GTTTT
18752755 TAAAATATTTTTTGGGTGGAAAAAATAGTTTTTGTTTTTTAGTGGAATGAGATTATTTTTTTTAT
1 TAAAATATTTTTTGGGTGGAAAAAATAGTTTTTGTTTTTTAGTGGAATGAGATTATTTTTTTTAT
18752820 GTTTT
66 GTTTT
18752825 T
1 T
18752826 CAATTTTTGG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (70 bp):
TAAAATATTTTTTGGGTGGAAAAAATAGTTTTTGTTTTTTAGTGGAATGAGATTATTTTTTTTAT
GTTTT
Found at i:18753478 original size:13 final size:13
Alignment explanation
Indices: 18753460--18753487 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18753450 CAGAAATTAT
18753460 ACCTATTGCTACA
1 ACCTATTGCTACA
18753473 ACCTATTGCTACA
1 ACCTATTGCTACA
18753486 AC
1 AC
18753488 GTCGATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (13 bp):
ACCTATTGCTACA
Found at i:18753582 original size:49 final size:49
Alignment explanation
Indices: 18753529--18753627 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
18753519 CATTGAATCA
* *
18753529 ATGAGAAAATTGGTTTCTTATGGATAAGAATTTTGTTTGCTGCATATTG
1 ATGAGAAAATTGGTTTCTTATGGAGAAGAAATTTGTTTGCTGCATATTG
*
18753578 ATGAGAAAATTGGTTTCTTATGGAGAAGAAATTTGTTTGCTGCATGTTG
1 ATGAGAAAATTGGTTTCTTATGGAGAAGAAATTTGTTTGCTGCATATTG
18753627 A
1 A
18753628 GGGGAGATAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (49 bp):
ATGAGAAAATTGGTTTCTTATGGAGAAGAAATTTGTTTGCTGCATATTG
Found at i:18753608 original size:23 final size:23
Alignment explanation
Indices: 18753532--18753608 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
18753522 TGAATCAATG
*
18753532 AGAAAATTGGTTTCTTATGGATA
1 AGAAAATTGGTTTCTTATGGAGA
* * *
18753555 AG-AATTTTGTTTGCTGCATATTGATG-
1 AGAAAATTGGTTT-CT---TATGGA-GA
18753581 AGAAAATTGGTTTCTTATGGAGA
1 AGAAAATTGGTTTCTTATGGAGA
18753604 AGAAA
1 AGAAA
18753609 TTTGTTTGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 14 0.35
26 9 0.22
27 8 0.20
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
AGAAAATTGGTTTCTTATGGAGA
Found at i:18753610 original size:22 final size:22
Alignment explanation
Indices: 18753535--18753615 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 22
18753525 ATCAATGAGA
*
18753535 AAATTGGTTTCTTATGGATAAG
1 AAATTGGTTTCTTATGGAGAAG
* * *
18753557 AATTTTGTTTGCTGCATATTGATG-AG
1 AAATTGGTTT-CT---TATGGA-GAAG
18753583 AAAATTGGTTTCTTATGGAGAAG
1 -AAATTGGTTTCTTATGGAGAAG
*
18753606 AAATTTGTTT
1 AAATTGGTTT
18753616 GCTGCATGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
22 18 0.41
23 9 0.20
26 9 0.20
27 8 0.18
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (22 bp):
AAATTGGTTTCTTATGGAGAAG
Found at i:18754842 original size:25 final size:26
Alignment explanation
Indices: 18754783--18754843 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
18754773 ATTTACTCTA
*
18754783 ATAATTTATATAATAATATATTAATT
1 ATAATTTATATAATAATATAATAATT
* * *
18754809 GT-TTGTTATATGA-AATATAATAATT
1 ATAAT-TTATATAATAATATAATAATT
18754834 ATAATTTATA
1 ATAATTTATA
18754844 AATTTATTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (26 bp):
ATAATTTATATAATAATATAATAATT
Found at i:18757003 original size:17 final size:17
Alignment explanation
Indices: 18756981--18757022 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18756971 AAATATTGAC
*
18756981 ATAAAAAA-ATTAAAAT
1 ATAAAAAAGATAAAAAT
18756997 ATGAAAAAAGATAAAAAT
1 AT-AAAAAAGATAAAAAT
18757015 ATAAAAAA
1 ATAAAAAA
18757023 TATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
ATAAAAAAGATAAAAAT
Found at i:18757004 original size:18 final size:17
Alignment explanation
Indices: 18756983--18757022 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
18756973 ATATTGACAT
*
18756983 AAAAAAATTAAAATATGA
1 AAAAAAATAAAAATAT-A
*
18757001 AAAAAGATAAAAATATA
1 AAAAAAATAAAAATATA
18757018 AAAAA
1 AAAAA
18757023 TATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAAATATA
Found at i:18757151 original size:18 final size:17
Alignment explanation
Indices: 18757121--18757173 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
18757111 ATGAGTTCAT
18757121 AATTTTTATGAATTTTATA
1 AATTTTTA-GAATTTTA-A
18757140 AATTTTTAGAATTATTAA
1 AATTTTTAGAATT-TTAA
* *
18757158 TATTTTTATAATTTTA
1 AATTTTTAGAATTTTA
18757174 CACTCATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.10
18 17 0.55
19 11 0.35
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
AATTTTTAGAATTTTAA
Found at i:18768065 original size:21 final size:20
Alignment explanation
Indices: 18768036--18768077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
18768026 GTGTCTTGAT
18768036 GGTGTGGTGCGA-TAAGCAAG
1 GGTGTGGTGCGAGT-AGCAAG
18768056 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
18768077 G
1 G
18768078 CGCGGTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 15 0.75
22 1 0.05
ACGTcount: A:0.21, C:0.10, G:0.48, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:18768749 original size:30 final size:30
Alignment explanation
Indices: 18768692--18768749 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
18768682 GCCTTTTGAA
* *
18768692 AATATTTACAAAAAGAGACATCTAATTTCT
1 AATATTTACAAAAAGAGACACCAAATTTCT
18768722 AATATTTACAAAAAGAG-CAACCAAATTT
1 AATATTTACAAAAAGAGAC-ACCAAATTT
18768750 TGAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTCT
Found at i:18780511 original size:48 final size:48
Alignment explanation
Indices: 18780410--18780560 Score: 160
Period size: 48 Copynumber: 3.1 Consensus size: 48
18780400 ATACCGATAT
* * ***
18780410 TCTGTTACGATACAAGGGTGGCACGGACTGTGTGCAGGCCAAC-ATTG
1 TCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAGAA
*
18780457 TCCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCGAGAA
1 T-CTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAGAA
** * * * * *
18780506 TCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGACCACCGCGAAA
1 TCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAG-AA
18780555 TCTGTT
1 TCTGTT
18780561 TTTTTATTCC
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 76 0.87
49 10 0.11
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (48 bp):
TCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAGAA
Found at i:18787748 original size:48 final size:48
Alignment explanation
Indices: 18787677--18787869 Score: 160
Period size: 48 Copynumber: 4.0 Consensus size: 48
18787667 TTTGCGTACA
*
18787677 GATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTACAGGCCACC
1 GATATTCTGTTACGATACAAGGGTGGCACAGACTGTGTACAGGCCACC
* *
18787725 GATATTCTGTTACGATTA-AAGGGTGGCACGGACTGTGTGCAGGCCACC
1 GATATTCTGTTACGA-TACAAGGGTGGCACAGACTGTGTACAGGCCACC
* * * * *
18787773 -AT-TGACCTGTTAAGATACAAGGGTGGCAC-GAACTATGTGCAGGCCACT
1 GATAT--TCTGTTACGATACAAGGGTGGCACAG-ACTGTGTACAGGCCACC
* * * ** * * * * *
18787821 GAGAATCTATTATTACACAAAGGTGGCACAGATTGTGTGCAGACCACC
1 GATATTCTGTTACGATACAAGGGTGGCACAGACTGTGTACAGGCCACC
18787869 G
1 G
18787870 CAAAATCTAT
Statistics
Matches: 118, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
46 1 0.01
47 5 0.04
48 108 0.92
49 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
GATATTCTGTTACGATACAAGGGTGGCACAGACTGTGTACAGGCCACC
Found at i:18796786 original size:20 final size:20
Alignment explanation
Indices: 18796747--18796789 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18796737 CCCTGTAGTT
* *
18796747 TGAAAATTTCCATCTTTTTC
1 TGAAAATTTCCATATGTTTC
*
18796767 TGAAAATTTCTATATGTTTC
1 TGAAAATTTCCATATGTTTC
18796787 TGA
1 TGA
18796790 TTTAGTCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (20 bp):
TGAAAATTTCCATATGTTTC
Found at i:18798994 original size:27 final size:27
Alignment explanation
Indices: 18798963--18799140 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
18798953 TAAATTGTAC
18798963 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
18798990 TGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18799016 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18799044 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18799072 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18799099 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18799126 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18799141 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18799077 original size:82 final size:81
Alignment explanation
Indices: 18798964--18799119 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18798954 AAATTGTACA
* * *
18798964 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18799028 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18799045 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18799110 TGCGAGTTGA
65 TGCGAATTGA
18799120 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18799131 original size:82 final size:81
Alignment explanation
Indices: 18798960--18799140 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18798950 GATTAAATTG
* * *
18798960 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18799025 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18799041 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18799105 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18799123 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18799141 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18807173 original size:27 final size:27
Alignment explanation
Indices: 18807143--18807234 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
18807133 AAATTGTACA
*
18807143 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
18807170 GCACTAAGTGTGTGAAATGAATATG-T
1 GCACTAAGTGTGCGAATTGACTATGTT
*
18807196 GCACTAAGTGTGCGAATTGAC-A--TC
1 GCACTAAGTGTGCGAATTGACTATGTT
18807220 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
18807235 GTTTGACTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 15 0.27
25 1 0.02
26 19 0.34
27 21 0.38
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:18807223 original size:24 final size:24
Alignment explanation
Indices: 18807143--18807234 Score: 94
Period size: 26 Copynumber: 3.6 Consensus size: 24
18807133 AAATTGTACA
*
18807143 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGAC-A--TT
* * *
18807170 GCACTAAGTGTGTGAAATGAATATGT
1 GCACTAAGTGTGCGAATTG-ACAT-T
*
18807196 GCACTAAGTGTGCGAATTGACATC
1 GCACTAAGTGTGCGAATTGACATT
18807220 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
18807235 GTTTGACTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
24 15 0.27
25 4 0.07
26 18 0.33
27 17 0.31
28 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (24 bp):
GCACTAAGTGTGCGAATTGACATT
Found at i:18818699 original size:27 final size:27
Alignment explanation
Indices: 18818668--18818845 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
18818658 TAAATTGTAC
18818668 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
18818695 TGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18818721 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18818749 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18818777 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18818804 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18818831 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18818846 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18818782 original size:82 final size:81
Alignment explanation
Indices: 18818669--18818824 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18818659 AAATTGTACA
* * *
18818669 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18818733 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18818750 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18818815 TGCGAGTTGA
65 TGCGAATTGA
18818825 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18818836 original size:82 final size:81
Alignment explanation
Indices: 18818665--18818845 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18818655 GATTAAATTG
* * *
18818665 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18818730 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18818746 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18818810 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18818828 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18818846 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18824901 original size:32 final size:32
Alignment explanation
Indices: 18824860--18824923 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
18824850 TTATTAAGAC
18824860 CATGATACATGGAAACATTTGAGTACACTAAG
1 CATGATACATGGAAACATTTGAGTACACTAAG
18824892 CATGATACATGGAAACATTTGAGTACACTAAG
1 CATGATACATGGAAACATTTGAGTACACTAAG
18824924 TATTTGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (32 bp):
CATGATACATGGAAACATTTGAGTACACTAAG
Found at i:18840524 original size:20 final size:21
Alignment explanation
Indices: 18840496--18840534 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18840486 TAAATTCCAA
18840496 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
18840516 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
18840535 AAAGCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:18847265 original size:84 final size:83
Alignment explanation
Indices: 18847108--18847286 Score: 261
Period size: 84 Copynumber: 2.1 Consensus size: 83
18847098 AATTTGTTCG
* * * *
18847108 GTAATACTTTGTAACCCTATTCTGGTTATGGATACGGGTTAGGGGTGTTACACGTGGCCTCTCTA
1 GTAA-ACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTA
*
18847173 GTTCGGGGCACTCTAACTGT-
65 CTTCGGGGCACTCTAA-T-TC
18847193 GTAAACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTAC
1 GTAAACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTAC
* *
18847258 TTTGGGGCTCTCTAATTC
66 TTCGGGGCACTCTAATTC
18847276 GTAAACTCTGT
1 GTAAACTCTGT
18847287 CTGGACCTCC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
82 1 0.01
83 12 0.14
84 69 0.80
85 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (83 bp):
GTAAACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTAC
TTCGGGGCACTCTAATTC
Found at i:18850364 original size:13 final size:13
Alignment explanation
Indices: 18850346--18850370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18850336 CAAATACTAT
18850346 AGCTAACATCTAC
1 AGCTAACATCTAC
18850359 AGCTAACATCTA
1 AGCTAACATCTA
18850371 ATTTATTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
AGCTAACATCTAC
Found at i:18853066 original size:42 final size:42
Alignment explanation
Indices: 18852958--18853066 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
18852948 ACGGCCTAAC
* *
18852958 ACACGGCCTCA-CACACGACTGTGTGAGATTATTTTGAAGGGT
1 ACACGGCCT-AGCACACGAGTGTGTGAGATTATTTCGAAGGGT
* * *
18853000 ACACGGCCTAGCACACGGGCGTGTGAGGTTATTTCGAAGGGT
1 ACACGGCCTAGCACACGAGTGTGTGAGATTATTTCGAAGGGT
* * *
18853042 ACATGGCTTGGCACACGAGTGTGTG
1 ACACGGCCTAGCACACGAGTGTGTG
18853067 GCTTGGCCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (42 bp):
ACACGGCCTAGCACACGAGTGTGTGAGATTATTTCGAAGGGT
Found at i:18858484 original size:14 final size:15
Alignment explanation
Indices: 18858465--18858493 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18858455 CTCTTTCGTT
18858465 CTCTTTTCC-TCTTC
1 CTCTTTTCCTTCTTC
18858479 CTCTTTTCCTTCTTC
1 CTCTTTTCCTTCTTC
18858494 TTGCCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
CTCTTTTCCTTCTTC
Found at i:18867222 original size:27 final size:27
Alignment explanation
Indices: 18867192--18867280 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
18867182 TGAAGACCAA
* *
18867192 CTCGCCAAGCCTACTTGCGAACACCTG
1 CTCGCCAAGCCTACTGGTGAACACCTG
18867219 CTCGCCAAGCCTACTGGTGAACA-CTG
1 CTCGCCAAGCCTACTGGTGAACACCTG
*
18867245 ACTCACCAAGCCTACTGGTGAAC-CCTTG
1 -CTCGCCAAGCCTACTGGTGAACACC-TG
18867273 CTCGCCAA
1 CTCGCCAA
18867281 TTCCATTGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.05
27 50 0.91
28 2 0.04
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (27 bp):
CTCGCCAAGCCTACTGGTGAACACCTG
Found at i:18867330 original size:27 final size:27
Alignment explanation
Indices: 18867300--18867363 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
18867290 CAAACCCCTA
18867300 CTCACCAAGTCCACTAGCAAACACCAG
1 CTCACCAAGTCCACTAGCAAACACCAG
* ** * ** *
18867327 CTCATCAAGTTTACTGGTGAACACTAG
1 CTCACCAAGTCCACTAGCAAACACCAG
18867354 CTCACCAAGT
1 CTCACCAAGT
18867364 TCAACTGGCG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (27 bp):
CTCACCAAGTCCACTAGCAAACACCAG
Found at i:18869424 original size:14 final size:14
Alignment explanation
Indices: 18869405--18869431 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18869395 AAAATGAATA
18869405 AAATGACCAAATTC
1 AAATGACCAAATTC
18869419 AAATGACCAAATT
1 AAATGACCAAATT
18869432 TCGTTCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATGACCAAATTC
Found at i:18870905 original size:26 final size:26
Alignment explanation
Indices: 18870862--18870931 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
18870852 TTTTACATCG
* * *
18870862 TTGCTCATAGGAGTTGTGAAATGGG-
1 TTGCTCACACGAGCTGTGAAATGGGC
18870887 TCTGCTCACACGAGCTGTGAAATGGGC
1 T-TGCTCACACGAGCTGTGAAATGGGC
*
18870914 TTGCTCACACGAGTTGTG
1 TTGCTCACACGAGCTGTG
18870932 GGTCGAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 1 0.03
26 37 0.95
27 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (26 bp):
TTGCTCACACGAGCTGTGAAATGGGC
Found at i:18876244 original size:21 final size:21
Alignment explanation
Indices: 18876209--18876261 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
18876199 TACCAATCCG
*
18876209 TACCAAATACCATACCATTTCA
1 TACC-AATTCCATACCATTTCA
*
18876231 TACCAATTCCATACCATTTCG
1 TACCAATTCCATACCATTTCA
18876252 TACCAATTCC
1 TACCAATTCC
18876262 CAAATACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCAATTCCATACCATTTCA
Found at i:18876591 original size:12 final size:12
Alignment explanation
Indices: 18876576--18876618 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
18876566 AAGGAGTTCG
18876576 AAAAAAAAA-GA
1 AAAAAAAAATGA
**
18876587 AAAAAAATTTGA
1 AAAAAAAAATGA
18876599 AAAAAAAAATTGA
1 AAAAAAAAA-TGA
18876612 AAAAAAA
1 AAAAAAA
18876619 TTGCATGCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 7 0.27
12 9 0.35
13 10 0.38
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:18876603 original size:14 final size:13
Alignment explanation
Indices: 18876586--18876618 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18876576 AAAAAAAAAG
*
18876586 AAAAAAAATTTGA
1 AAAAAAAAATTGA
18876599 AAAAAAAAATTGA
1 AAAAAAAAATTGA
18876612 AAAAAAA
1 AAAAAAA
18876619 TTGCATGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:18876619 original size:11 final size:11
Alignment explanation
Indices: 18876575--18876621 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
18876565 AAAGGAGTTC
*
18876575 GAAAAAAAA-A
1 GAAAAAAAATT
18876585 GAAAAAAAATTT
1 GAAAAAAAA-TT
18876597 GAAAAAAAAAATT
1 G--AAAAAAAATT
18876610 GAAAAAAAATT
1 GAAAAAAAATT
18876621 G
1 G
18876622 CATGCGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 9 0.28
11 11 0.34
12 1 0.03
13 3 0.09
14 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (11 bp):
GAAAAAAAATT
Found at i:18877426 original size:15 final size:15
Alignment explanation
Indices: 18877394--18877427 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18877384 GTTCAACGAA
*
18877394 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
18877409 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
18877424 GAGG
1 GAGG
18877428 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:18881178 original size:10 final size:10
Alignment explanation
Indices: 18881163--18881224 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
18881153 TTTGAACCAT
*
18881163 TACCAATTCG
1 TACCAATTCA
*
18881173 TACCAAATACCA
1 TACC-AAT-TCA
*
18881185 TACCATTTCA
1 TACCAATTCA
18881195 TACCAATTCCA
1 TACCAATT-CA
* *
18881206 TACCATTTCG
1 TACCAATTCA
18881216 TACCAATTC
1 TACCAATTC
18881225 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:18881208 original size:21 final size:21
Alignment explanation
Indices: 18881163--18881225 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
18881153 TTTGAACCAT
* *
18881163 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
18881185 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
18881206 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
18881226 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:18887321 original size:41 final size:41
Alignment explanation
Indices: 18887244--18887427 Score: 206
Period size: 41 Copynumber: 4.5 Consensus size: 41
18887234 GATTTGAAGT
** * * **
18887244 TACCAAAGTGTAAACAAGGGCACGTATATGTTATTTAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
* * * *
18887285 TATCGAAGTACAAACAGTGGCACGTATGTGCAATTTAGAGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
* * *
18887326 TACCAAAGTACAAATAGGGGCACGTATGTGCTATTTAAGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
* * * *
18887367 TACTAAAGTACAACCAGGGGCACATATGTGCAATTAAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
*
18887408 TACCGAAGTACAAACAGGGG
1 TACCAAAGTACAAACAGGGG
18887428 ATAATTCAAT
Statistics
Matches: 116, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (41 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
Found at i:18895769 original size:114 final size:113
Alignment explanation
Indices: 18895439--18896216 Score: 587
Period size: 114 Copynumber: 6.9 Consensus size: 113
18895429 AAAGAACATC
* * * * * *
18895439 ATTAGCGGCGTTTACAACAAAGCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGA
1 ATTAGCGGCGCTTGC-A-AAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGA
* * *
18895504 TGTATACAAGAATTAGTGGCGCTTA-GGAGAAAACGCCGCTAAAGC---GT
64 GGTATACTAGAATTAGTGGCGCTTATAG-GAAAACGCCGCTAAAGCATAGT
* * * * * * * * ** *
18895551 ATTAGCGGTGTTTTACGAGATGCACCTCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTG
1 ATTAGCGGCG-CTTGC-AAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAG-TTTTGGTCTTG
** * ** * *
18895616 ATATATCCTAGAATTAGTGGCGCTTACCGGAAAATGCCGCTAACGCATAGT
63 AGGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAAGCATAGT
* * * ** *
18895667 ATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAG-TCCGGTCTAGA
1 ATTAGCGGCGCTT-GC-AAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGA
** *
18895731 GGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCGC-AAACGGATAGT
64 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAA-GCATAGT
* ** * *
18895781 ATTAGCGACGCTT--------GCCGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGAT
1 ATTAGCGGCGCTTGCAAAAGCGCCGCAAAATATCTT-AACTAAAACGCAGAGTTTTGGTCTTGAG
18895837 GTATACTAGAATTAGTGGCG-TT-TACGGTAAAACGCCGCTAAAGCATAGT
65 GTATACTAGAATTAGTGGCGCTTATA-GG-AAAACGCCGCTAAAGCATAGT
* * * * *
18895886 ATTAGCGGCGATTCTTTGC--TAGCGCTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTT
1 ATTAGCGGCG---C-TTGCAAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTT
* * * * * *
18895949 GATGTATACTAAAATTAGTGGCGCTTATGGGAAACCGCCACTAAAGAATAGT
62 GAGGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAAGCATAGT
* * * **
18896001 ATTAGCGGCGCTTACTGAAAAGCG-CGACAAAATATCTTAACTAAAACACATAGTTTTAATCTTG
1 ATTAGCGGCGCTTGC--AAAAGCGCCG-CAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTG
* * * * *
18896065 A-TTATACTATAATTAGTGGCACTTACTA-GAAAACGCCGTTAAATCATAGT
63 AGGTATACTAGAATTAGTGGCGCTTA-TAGGAAAACGCCGCTAAAGCATAGT
*
18896115 ATTAGCGGCGCTTTGCAAAAAGCGCCGCAACATATCTTAAC-AAAACGCAGAG-TTTGGTCTTGA
1 ATTAGCGGCGC-TTGC-AAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGA
** * *
18896178 GGTATGTTAAAATTAGTGGCGCTTATAAGAAAACGCCGC
64 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGC
18896217 AAAATATCTG
Statistics
Matches: 532, Mismatches: 98, Indels: 71
0.76 0.14 0.10
Matches are distributed among these distances:
103 4 0.01
104 26 0.05
105 50 0.09
106 3 0.01
108 1 0.00
109 2 0.00
111 3 0.01
112 50 0.09
113 93 0.17
114 128 0.24
115 126 0.24
116 45 0.08
117 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (113 bp):
ATTAGCGGCGCTTGCAAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGAGG
TATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAAGCATAGT
Found at i:18895885 original size:105 final size:105
Alignment explanation
Indices: 18895738--18896013 Score: 290
Period size: 115 Copynumber: 2.5 Consensus size: 105
18895728 AGAGGTATGT
* *
18895738 TAGAATTAGTGGCGCTTATAGGAAAACGCCGC-AAACGGATAGTATTAGCGACGCTTGC-CGC-A
1 TAGAATTAGTGGCG-TT-TAGGAAAACGCCGCTAAA-GAATAGTATTAGCGGCGCTTGCACGCTA
* *
18895800 AAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATAC
63 AAATATCCT-AACTAAAACGCAGCGTTTTGGTATTGATGTATAC
*
18895843 TAGAATTAGTGGCGTTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTGCTAG
1 TAGAATTAGTGGCGTTTA-GG-AAAACGCCGCTAAAGAATAGTATTAGCGGCG---C-TTGC-A-
*
18895908 CGCTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATAC
58 CGC--TAAAATATCCTAACTAAAACGCAGCGTTTTGGTATTGATGTATAC
* * * *
18895958 TAAAATTAGTGGCGCTTATGGGAAACCGCCACTAAAGAATAGTATTAGCGGCGCTT
1 TAGAATTAGTGGCG-TT-TAGGAAAACGCCGCTAAAGAATAGTATTAGCGGCGCTT
18896014 ACTGAAAAGC
Statistics
Matches: 145, Mismatches: 10, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
103 2 0.01
104 4 0.03
105 39 0.27
106 3 0.02
108 1 0.01
109 4 0.03
111 2 0.01
112 4 0.03
115 80 0.55
116 5 0.03
117 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (105 bp):
TAGAATTAGTGGCGTTTAGGAAAACGCCGCTAAAGAATAGTATTAGCGGCGCTTGCACGCTAAAA
TATCCTAACTAAAACGCAGCGTTTTGGTATTGATGTATAC
Found at i:18896001 original size:115 final size:113
Alignment explanation
Indices: 18895796--18896216 Score: 401
Period size: 115 Copynumber: 3.7 Consensus size: 113
18895786 CGACGCTTGC
** * * *
18895796 CGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGTTT
1 CGCAAAATATCTT-AACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
* * *
18895860 ACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTGCTAGCG
65 ATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCG-TTCTTTGCAAGCG
* * *
18895910 CTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
1 C-GCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
* * * *
18895975 ATGGGAAACCGCCACTAAAGAATAGTATTAGCGGCG--CTTACTGAAAAGCG
65 ATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTT--TG-CAAGCG
* * ** * *
18896025 CGACAAAATATCTTAACTAAAACACATAGTTTTAATCTTGAT-TATACTATAATTAGTGGCACTT
1 CG-CAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
* * *
18896089 ACT-AGAAAACGCCGTTAAATCATAGTATTAGCGGCG--CTTTGCAAAAAGCG
65 A-TGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTGC---AAGCG
* * **
18896139 CCGCAACATATCTTAAC-AAAACGCAGAG-TTTGGTCTTGAGGTATGTTAAAATTAGTGGCGCTT
1 -CGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
**
18896202 ATAAGAAAACGCCGC
65 ATGGGAAAACGCCGC
18896217 AAAATATCTG
Statistics
Matches: 254, Mismatches: 40, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
112 15 0.06
113 39 0.15
114 73 0.29
115 126 0.50
116 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (113 bp):
CGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTA
TGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTGCAAGCG
Found at i:18896081 original size:334 final size:332
Alignment explanation
Indices: 18895462--18896127 Score: 717
Period size: 334 Copynumber: 2.0 Consensus size: 332
18895452 ACAACAAAGC
* *
18895462 GCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACAAGAATTAGTGGCGCT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCT
* *
18895527 TAGGAGAAAACGCCGCTAAAGCGTATTAGCGGTGTTTTACGAGATGCACCTCAAAATATCTTAAC
66 TAGGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCTCAAAATATCCTAAC
* * * * * *
18895592 CAAAACGCATCGTTTTTGGTGTTGATATATCCTAGAATTAGTGGCGCTTACCGGAAAATGCCGCT
131 CAAAACGCAGCGTTTTTGGTCTTGATATATACTAAAATTAGTGGCGCTTACCGGAAAACGCCACT
* * *
18895657 AACGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTC
196 AAAGAATAGTATTAGCGGCGCTTGACAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTC
** ** *
18895722 CGGTCTAGAGGTATGTTAGAATTAGTGGCGCTTA-TAGGAAAACGCCG-CAAA-CGGATAGTATT
261 CAATCTAGAGGTATACTAGAATTAGTGGCACTTACTA-GAAAACGCCGTCAAATC--ATAGTATT
18895784 AGCGACGCTT
323 AGCGACGCTT
* * * * *
18895794 GCCGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGT
1 GCCGCAAAATATCTT-AACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGC
* * ** * *
18895858 TTACGG-TAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTT-TGCTA-GC-GCTGTAAAAT
65 TTA-GGAGAAAACGCCGCTAAAGC---GTATTAGCGGCG-TT-TTACGAGATGCACCT-CAAAAT
* * **
18895919 ATCCTAACTAAAACGCAGCG-TTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTATGGGAAA
123 ATCCTAACCAAAACGCAGCGTTTTTGGTCTTGATATATACTAAAATTAGTGGCGCTTACCGGAAA
* * * *
18895983 CCGCCACTAAAGAATAGTATTAGCGGCGCTT-ACTGAAAAGCG-CGACAAAATATCTTAACTAAA
188 ACGCCACTAAAGAATAGTATTAGCGGCGCTTGAC-AAAAAGCGCCG-CAAAAGATCTTAACCAAA
* ** * * * *
18896046 ACACATAGTTTTAATCTTGA-TTATACTATAATTAGTGGCACTTACTAGAAAACGCCGTTAAATC
251 ACACAGAG-TCCAATCTAGAGGTATACTAGAATTAGTGGCACTTACTAGAAAACGCCGTCAAATC
*
18896110 ATAGTATTAGCGGCGCTT
315 ATAGTATTAGCGACGCTT
18896128 TGCAAAAAGC
Statistics
Matches: 275, Mismatches: 45, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
331 2 0.01
332 73 0.27
333 5 0.02
334 142 0.52
335 46 0.17
336 5 0.02
337 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (332 bp):
GCCGCAAAATATCTTAACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCT
TAGGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCTCAAAATATCCTAAC
CAAAACGCAGCGTTTTTGGTCTTGATATATACTAAAATTAGTGGCGCTTACCGGAAAACGCCACT
AAAGAATAGTATTAGCGGCGCTTGACAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTC
CAATCTAGAGGTATACTAGAATTAGTGGCACTTACTAGAAAACGCCGTCAAATCATAGTATTAGC
GACGCTT
Found at i:18896275 original size:76 final size:75
Alignment explanation
Indices: 18896132--18896362 Score: 209
Period size: 84 Copynumber: 2.9 Consensus size: 75
18896122 GCGCTTTGCA
* * * *
18896132 AAAAGCGCCGCAACATATCTTAA-CAAAACGCAGAG-TTTGGTCTTGAGGTAT-GTTAAAATTAG
1 AAAA-CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTC-TGATGTATACTT-AAATTAG
18896194 TGGCGCTTA-TAAG
63 TGGCGCTTACT-AG
* * *
18896207 AAAACGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTG
1 AAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCT-GATGTATACTTAAATTAGTG
*
18896272 GCGCTTACGTTG
65 GCGCTTAC-TAG
* * *
18896284 AAACGTCGCCAAAACGCAAAATACCTTAACCAAAACGCAGCGTTTTGGTCGTGATGTATACTAAA
1 AAA--ACG-C----CGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTC-TGATGTATACTTAA
18896349 ATTAGTGGCGCTTA
58 ATTAGTGGCGCTTA
18896363 GGGTAAACCG
Statistics
Matches: 128, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
74 16 0.12
75 15 0.12
76 28 0.22
77 6 0.05
78 1 0.01
79 2 0.02
80 1 0.01
84 58 0.45
85 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (75 bp):
AAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTGATGTATACTTAAATTAGTGG
CGCTTACTAG
Found at i:18896768 original size:7 final size:7
Alignment explanation
Indices: 18896756--18896807 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
18896746 TTGGTGTCTT
18896756 GGGTTTA
1 GGGTTTA
18896763 GGGTTTA
1 GGGTTTA
*
18896770 GTAGTTTA
1 G-GGTTTA
18896778 GGGTTTA
1 GGGTTTA
* *
18896785 AGGTTTG
1 GGGTTTA
*
18896792 GGGTCTA
1 GGGTTTA
*
18896799 AGGTTTA
1 GGGTTTA
18896806 GG
1 GG
18896808 CCGTTTTAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:18897776 original size:23 final size:22
Alignment explanation
Indices: 18897748--18897815 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
18897738 CTCCACTCTG
*
18897748 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCC-ATTTCATTTCCCCA
*
18897771 ATTT-CCCATTTCCTATTCCCCCA
1 ATTTCCCCATTT-C-ATTTCCCCA
*
18897794 ACTTCCCCGATTTCATTTCCCC
1 ATTTCCCC-ATTTCATTTCCCC
18897816 TCAATTCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 21 0.57
24 4 0.11
25 4 0.11
ACGTcount: A:0.18, C:0.41, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTTCCCCATTTCATTTCCCCA
Found at i:18899352 original size:15 final size:15
Alignment explanation
Indices: 18899332--18899419 Score: 74
Period size: 15 Copynumber: 5.8 Consensus size: 15
18899322 AAGTTTTCTA
18899332 TATTAGTATTAAATT
1 TATTAGTATTAAATT
18899347 TATTAGTATTAAATT
1 TATTAGTATTAAATT
* *
18899362 TATAAGTTTTCTAAA-T
1 TATTAG-TAT-TAAATT
* *
18899378 AAGT-GT-TCTAAATT
1 TATTAGTAT-TAAATT
*
18899392 TATTAGTAATAAAATT
1 TATTAGT-ATTAAATT
18899408 TATTAGTATTAA
1 TATTAGTATTAA
18899420 TTTTTTAAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
13 6 0.10
14 4 0.07
15 27 0.47
16 16 0.28
17 5 0.09
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (15 bp):
TATTAGTATTAAATT
Found at i:18899361 original size:43 final size:46
Alignment explanation
Indices: 18899313--18899410 Score: 139
Period size: 43 Copynumber: 2.2 Consensus size: 46
18899303 ATAAGTTTTC
* *
18899313 TAAATTTATAAGTTTTCTATATTAGT-AT-TAAATTTATTAGT-AT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAAT
*
18899356 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAAT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAAT
*
18899402 AAAATTTAT
1 TAAATTTAT
18899411 TAGTATTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 24 0.50
44 1 0.02
45 13 0.27
46 10 0.21
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (46 bp):
TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAAT
Found at i:18899370 original size:60 final size:61
Alignment explanation
Indices: 18899302--18899439 Score: 169
Period size: 61 Copynumber: 2.3 Consensus size: 61
18899292 TTAATATCTA
* *
18899302 TATAAGTTTTCTAAATTTATAAGTTTTCT-A-TATTAGT-ATTAAATTTATTAGTATTAAATT
1 TATAAGTTTTCTAAA--TATAAGTGTTCTAATTATTAGTAATAAAATTTATTAGTATTAAATT
*
18899362 TATAAGTTTTCT-AA-ATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTATTAATTT
1 TATAAGTTTTCTAAATATAAGTGTTCT-AA-TTATTAGTAATAAAATTTATTAGTATTAAATT
*
18899423 TTTAAGTTTTCTAAATA
1 TATAAGTTTTCTAAATA
18899440 ATTATATCAC
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
56 10 0.15
58 1 0.01
59 2 0.03
60 19 0.28
61 32 0.48
62 2 0.03
63 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (61 bp):
TATAAGTTTTCTAAATATAAGTGTTCTAATTATTAGTAATAAAATTTATTAGTATTAAATT
Found at i:18899568 original size:17 final size:17
Alignment explanation
Indices: 18899548--18899659 Score: 128
Period size: 17 Copynumber: 6.9 Consensus size: 17
18899538 TTAATATCTA
18899548 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
18899565 TATAAGTGTTCTAAATT
1 TATAAGTTTTCTAAATT
18899582 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
18899599 TATAAGTTTTCT--A--
1 TATAAGTTTTCTAAATT
*
18899612 TATAAGTGTTCTAAATT
1 TATAAGTTTTCTAAATT
* * *
18899629 TATTAG-TAT-TAATTT
1 TATAAGTTTTCTAAATT
*
18899644 TTTAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
18899660 AATTATATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
13 11 0.14
15 11 0.14
16 3 0.04
17 53 0.68
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:18899624 original size:47 final size:45
Alignment explanation
Indices: 18899565--18899661 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 45
18899555 TTTCTAAATT
*
18899565 TATAAGTGTTCTAAATTTATAAGTTTTCTAAATTTATAAGTTTTCTA
1 TATAAGTGTTCTAAATTTATAAG-TAT-TAAATTTATAAGTTTTCTA
* * *
18899612 TATAAGTGTTCTAAATTTATTAGTATTAATTTTTTAAGTTTTCTA
1 TATAAGTGTTCTAAATTTATAAGTATTAAATTTATAAGTTTTCTA
*
18899657 AATAA
1 TATAA
18899662 TTATATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 21 0.47
46 2 0.04
47 22 0.49
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (45 bp):
TATAAGTGTTCTAAATTTATAAGTATTAAATTTATAAGTTTTCTA
Found at i:18899713 original size:9 final size:9
Alignment explanation
Indices: 18899668--18899954 Score: 189
Period size: 9 Copynumber: 33.4 Consensus size: 9
18899658 ATAATTATAT
*
18899668 ATAAGCTTAT
1 ATAA-CTTAC
*
18899678 ATATCTTAC
1 ATAACTTAC
18899687 ATAA--TAC
1 ATAACTTAC
18899694 ATAAC-TAC
1 ATAACTTAC
*
18899702 ATAACATAC
1 ATAACTTAC
18899711 ATAA--TAC
1 ATAACTTAC
*
18899718 AGAACTTAC
1 ATAACTTAC
18899727 ATAA-TAATAC
1 ATAACT--TAC
* *
18899737 ATACCGTAC
1 ATAACTTAC
* *
18899746 ATAAATTAA
1 ATAACTTAC
*
18899755 ATAAGTTAC
1 ATAACTTAC
18899764 ATAA--TAC
1 ATAACTTAC
***
18899771 A-AAAAAAC
1 ATAACTTAC
*
18899779 AAAAAACTTAC
1 --ATAACTTAC
18899790 ATAACTTAC
1 ATAACTTAC
18899799 ATAA--TAC
1 ATAACTTAC
* *
18899806 ACAACTGAC
1 ATAACTTAC
18899815 ATAACTTAC
1 ATAACTTAC
18899824 ATAA--TAC
1 ATAACTTAC
*
18899831 ACAACTTAC
1 ATAACTTAC
18899840 ATAACTTAC
1 ATAACTTAC
18899849 ATAA--TAC
1 ATAACTTAC
*
18899856 ATAATTTAC
1 ATAACTTAC
18899865 ATAACTTAC
1 ATAACTTAC
*
18899874 ATAA--GAC
1 ATAACTTAC
18899881 ATAACTTAC
1 ATAACTTAC
* *
18899890 ATAAGTTTC
1 ATAACTTAC
18899899 ATAA--TAC
1 ATAACTTAC
*
18899906 ACAACTTAC
1 ATAACTTAC
*
18899915 ACAACTTAC
1 ATAACTTAC
18899924 ATAACTTAC
1 ATAACTTAC
*
18899933 ACAACTTAC
1 ATAACTTAC
18899942 ATAACTTAC
1 ATAACTTAC
18899951 ATAA
1 ATAA
18899955 TAAATAACTT
Statistics
Matches: 221, Mismatches: 34, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.01
7 47 0.21
8 11 0.05
9 147 0.67
10 10 0.05
11 4 0.02
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (9 bp):
ATAACTTAC
Found at i:18899746 original size:19 final size:19
Alignment explanation
Indices: 18899705--18899749 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18899695 TAACTACATA
*
18899705 ACATACATAATACAGAACTT
1 ACATA-ATAATACAGAACGT
* *
18899725 ACATAATAATACATACCGT
1 ACATAATAATACAGAACGT
18899744 ACATAA
1 ACATAA
18899750 ATTAAATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.24
Consensus pattern (19 bp):
ACATAATAATACAGAACGT
Found at i:18899816 original size:25 final size:25
Alignment explanation
Indices: 18899783--18899965 Score: 258
Period size: 25 Copynumber: 7.2 Consensus size: 25
18899773 AAAAACAAAA
18899783 AACTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
18899808 AACTGACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
18899833 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* * *
18899858 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAC
* *
18899883 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAC
*
18899908 AACTTACACAACTTACATAACTTACAC
1 AACTTACATAACTTACATAA--TACAC
* *
18899935 AACTTACATAACTTACATAATAAAT
1 AACTTACATAACTTACATAATACAC
18899960 AACTTA
1 AACTTA
18899966 TTCCTAAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
25 116 0.83
27 24 0.17
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:18899963 original size:16 final size:17
Alignment explanation
Indices: 18899691--18899965 Score: 158
Period size: 16 Copynumber: 16.1 Consensus size: 17
18899681 TCTTACATAA
*
18899691 TACATAACTACATAACA
1 TACATAACTACATAACT
*
18899708 TACATAA-TACAGAACT
1 TACATAACTACATAACT
* * *
18899724 TACATAATAATACATACCG
1 TACAT-A-ACTACATAACT
* * *
18899743 TACATAAATTAAATAAGT
1 TACAT-AACTACATAACT
**
18899761 TACATAA-TACA-AAAA
1 TACATAACTACATAACT
* *
18899776 AACAAAAAACTTACATAACT
1 TAC--ATAAC-TACATAACT
*
18899796 TACATAA-TACACAACT
1 TACATAACTACATAACT
*
18899812 GACATAACTTACATAA--
1 TACATAAC-TACATAACT
*
18899828 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
18899846 TACATAA-TACATAATT
1 TACATAACTACATAACT
18899862 TACATAACTTACATAA--
1 TACATAAC-TACATAACT
* *
18899878 GACATAACTTACATAAGT
1 TACATAAC-TACATAACT
* *
18899896 TTCATAA-TACACAACT
1 TACATAACTACATAACT
*
18899912 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
18899930 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
18899948 TACATAA-TAAATAACT
1 TACATAACTACATAACT
18899964 TA
1 TA
18899966 TTCCTAAATC
Statistics
Matches: 204, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
15 4 0.02
16 95 0.47
17 13 0.06
18 71 0.35
19 17 0.08
20 4 0.02
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.28
Consensus pattern (17 bp):
TACATAACTACATAACT
Found at i:18899965 original size:34 final size:35
Alignment explanation
Indices: 18899787--18899965 Score: 153
Period size: 34 Copynumber: 5.3 Consensus size: 35
18899777 ACAAAAAACT
* * *
18899787 TACATAACTTACATAA--TACACAACTGACATAAC
1 TACATAACTTACACAACTTACATAACTTACATAAC
18899820 TTACATAA--TACACAACTTACATAACTTACATAA-
1 -TACATAACTTACACAACTTACATAACTTACATAAC
* * *
18899853 TACATAATTTACATAACTTACATAA--GACATAAC
1 TACATAACTTACACAACTTACATAACTTACATAAC
* * * * *
18899886 TTACATAAGTTTCATAA--TACACAACTTACACAAC
1 -TACATAACTTACACAACTTACATAACTTACATAAC
18899920 TTACATAACTTACACAACTTACATAACTTACATAA-
1 -TACATAACTTACACAACTTACATAACTTACATAAC
*
18899955 TAAATAACTTA
1 TACATAACTTA
18899966 TTCCTAAATC
Statistics
Matches: 119, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
32 25 0.21
34 80 0.67
36 14 0.12
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (35 bp):
TACATAACTTACACAACTTACATAACTTACATAAC
Found at i:18903926 original size:40 final size:40
Alignment explanation
Indices: 18903828--18904170 Score: 458
Period size: 40 Copynumber: 8.6 Consensus size: 40
18903818 TCCTCGTTCA
* * * * *
18903828 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18903867 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18903907 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18903947 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18903987 AATGCCTTCGGGACTTAACCCGGATTTAAGAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18904027 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18904067 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
18904107 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
18904147 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18904171 CAGCATTCAA
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 232 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18905642 original size:21 final size:21
Alignment explanation
Indices: 18905617--18905685 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
18905607 CAACTTAAAA
*
18905617 CAGAGGCAGCAGCGAGGGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
18905638 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
18905659 CAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
18905680 CAGAGG
1 CAGAGG
18905686 TTCAAAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.45, T:0.01
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:18906231 original size:43 final size:42
Alignment explanation
Indices: 18906142--18906388 Score: 280
Period size: 42 Copynumber: 5.8 Consensus size: 42
18906132 GAGCACTACT
* * * *
18906142 TTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTA-C
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
** * * * *
18906183 TTTTAGCGATGTTTTTTTCTAAACGCCGTTAAAGATCATGTTTC
1 -TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG-ATC
* * *
18906227 TTTAGCGGCGTTTTCTCCCAAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
*
18906269 ATTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGATC
* * *
18906312 ATTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGACC
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
*
18906354 TTTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 TTTAGCGGCGTTTTTTTC--TAAGCGCCGCTAAAG
18906389 TTAGCGACGT
Statistics
Matches: 172, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 86 0.50
43 71 0.41
44 15 0.09
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
Found at i:18906232 original size:85 final size:83
Alignment explanation
Indices: 18906142--18906372 Score: 293
Period size: 85 Copynumber: 2.7 Consensus size: 83
18906132 GAGCACTACT
* * **
18906142 TTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTACTTTTAGCGATGTTTTTTTCTAAAC
1 TTTAGCGGCGTTTTTT-CCAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCTAAAC
* * *
18906207 GCCGTTAAAGATCATGTTTC
65 GCCGCTAAAGAACATG-ATC
* *
18906227 TTTAGCGGCGTTTTCTCCCAAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCTAA
1 TTTAGCGGCGTTTT-TTCCAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTT-CTAA
*
18906291 GCGCCGCTAAAGAACATGATC
63 ACGCCGCTAAAGAACATGATC
* *
18906312 ATTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCT
1 TTTAGCGGCGTTTTTTCC-AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCT
18906373 GTAAGCGCCG
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
84 6 0.05
85 101 0.80
86 20 0.16
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (83 bp):
TTTAGCGGCGTTTTTTCCAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCTAAACG
CCGCTAAAGAACATGATC
Found at i:18906924 original size:22 final size:22
Alignment explanation
Indices: 18906888--18906946 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
18906878 GGCTCGGCCC
18906888 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATACCAAAA
**
18906910 ATTTATTTTAAAAAT-TTAAAA
1 ATTTATTTTAAAAATACCAAAA
**
18906931 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
18906947 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 17 0.55
22 8 0.26
23 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTATTTTAAAAATACCAAAA
Found at i:18906970 original size:28 final size:29
Alignment explanation
Indices: 18906938--18906994 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
18906928 AAAAAGTATT
* *
18906938 TTAAAAATATTTTAAAAA-TGTTTTAAAA
1 TTAAAAAAATTTTAAAAAGTATTTTAAAA
18906966 TTAAAAAAATTTTAAAAAGTATTTTAAAA
1 TTAAAAAAATTTTAAAAAGTATTTTAAAA
18906995 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAAAAAATTTTAAAAAGTATTTTAAAA
Found at i:18906989 original size:12 final size:11
Alignment explanation
Indices: 18906913--18907005 Score: 92
Period size: 11 Copynumber: 8.9 Consensus size: 11
18906903 ACCAAAAATT
18906913 TATTTT-AAAA
1 TATTTTAAAAA
*
18906923 -ATTTAAAAAA
1 TATTTTAAAAA
18906933 GTATTTTAAAAA
1 -TATTTTAAAAA
18906945 TATTTTAAAAA
1 TATTTTAAAAA
*
18906956 TGTTTT--AAA
1 TATTTTAAAAA
18906965 -A--TTAAAAA
1 TATTTTAAAAA
*
18906973 AATTTTAAAAA
1 TATTTTAAAAA
18906984 GTATTTTAAAAA
1 -TATTTTAAAAA
18906996 TATTTTAAAA
1 TATTTTAAAA
18907006 TTAAAAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
6 2 0.03
8 3 0.04
9 8 0.12
10 4 0.06
11 33 0.48
12 19 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:18907023 original size:51 final size:51
Alignment explanation
Indices: 18906919--18907065 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 51
18906909 AATTTATTTT
* **
18906919 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATGTTTTAAAATT-AA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAA-GTTAAAAAATTAAA
18906970 AAAAATTTTAAAAAGTATTTTAAAAATATTTT-AAAA-TTAAAAAA-T--A
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAAGTTAAAAAATTAAA
* * * *
18907016 ATAAA----AAAAAGTATTTTAAAAATATTTT-ATAATTTAAAAAATTTAA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAAGTTAAAAAATTAAA
18907062 AAAA
1 AAAA
18907066 TAAATATATT
Statistics
Matches: 86, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
42 26 0.30
43 8 0.09
44 1 0.01
46 9 0.10
47 1 0.01
48 6 0.07
50 4 0.05
51 31 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (51 bp):
AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAAGTTAAAAAATTAAA
Found at i:18907038 original size:42 final size:42
Alignment explanation
Indices: 18906940--18907065 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
18906930 AAAGTATTTT
* ***
18906940 AAAAA-TATTTTAAAAATGTTTTAAAATT-AAAAA-AATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
18906979 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
* *
18907021 AAAAAGTATTTTAAAAATATTTTATAATTTAAAAAAT-TTAAA
1 AAAAAGTATTTTAAAAATATTTTA-AAATTAAAAAATAATAAA
18907063 AAA
1 AAA
18907066 TAAATATATT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
39 5 0.06
40 22 0.29
41 5 0.06
42 34 0.44
43 11 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (42 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
Found at i:18913882 original size:2 final size:2
Alignment explanation
Indices: 18913875--18913919 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
18913865 TGCATCAACT
* *
18913875 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AT AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
18913917 AC A
1 AC A
18913920 TACCATACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.44, G:0.00, T:0.04
Consensus pattern (2 bp):
AC
Found at i:18915431 original size:15 final size:15
Alignment explanation
Indices: 18915408--18915438 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18915398 ATGTGTTTAA
*
18915408 TGTTGTTTAACTTAT
1 TGTTATTTAACTTAT
18915423 TGTTATTTAACTTAT
1 TGTTATTTAACTTAT
18915438 T
1 T
18915439 ATAAGACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (15 bp):
TGTTATTTAACTTAT
Found at i:18916609 original size:29 final size:29
Alignment explanation
Indices: 18916577--18916679 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
18916567 ACAGAATCAG
*
18916577 CCACAATGGCTCACATATAACATACTTCA
1 CCACAAAGGCTCACATATAACATACTTCA
* * * **
18916606 CCACAAAGG--CGCATTTGACA-AAATCA
1 CCACAAAGGCTCACATATAACATACTTCA
* * *
18916632 GCCACAAGGGCTCACATATATCATACTTCC
1 -CCACAAAGGCTCACATATAACATACTTCA
* *
18916662 CCACAAAGACTCTCATAT
1 CCACAAAGGCTCACATAT
18916680 CACGGATATC
Statistics
Matches: 53, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
26 4 0.08
27 16 0.30
29 30 0.57
30 3 0.06
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.21
Consensus pattern (29 bp):
CCACAAAGGCTCACATATAACATACTTCA
Found at i:18916631 original size:56 final size:56
Alignment explanation
Indices: 18916549--18916669 Score: 179
Period size: 56 Copynumber: 2.2 Consensus size: 56
18916539 TAGATAGATA
* * * *
18916549 ACCATAAAGGTGCATTTAACAGAATCAGCCACAATGGCTCACATATAACATACTTC
1 ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
* *
18916605 ACCACAAAGGCGCATTTGACAAAATCAGCCACAAGGGCTCACATATATCATACTTC
1 ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
*
18916661 CCCACAAAG
1 ACCACAAAG
18916670 ACTCTCATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (56 bp):
ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
Found at i:18925321 original size:16 final size:16
Alignment explanation
Indices: 18925300--18925331 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18925290 GTTTTGTTGC
*
18925300 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
18925316 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
18925332 CTTTCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:18925617 original size:51 final size:51
Alignment explanation
Indices: 18925549--18925901 Score: 396
Period size: 51 Copynumber: 7.0 Consensus size: 51
18925539 ATTAATAATA
*
18925549 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
* * * * * **
18925600 CCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-TAGAAGCTA-
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTAT
* *
18925650 CTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 C-CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
*
18925701 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
* * * * * **
18925752 CCGATACACGTAGTAGCCTGCACATAGTATTACACACGTGA-TAGAAGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTAT
* * *
18925803 TCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
* * *
18925853 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
18925902 TCCACTTTCA
Statistics
Matches: 247, Mismatches: 44, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
49 8 0.03
50 84 0.34
51 151 0.61
53 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
Found at i:18925795 original size:152 final size:152
Alignment explanation
Indices: 18925549--18925901 Score: 634
Period size: 152 Copynumber: 2.3 Consensus size: 152
18925539 ATTAATAATA
*
18925549 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
18925614 AGCCTACACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
66 AGCCTACACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
18925679 ACTACACATGCGACCTATCATT
131 ACTACACATGCGACCTATCATT
*
18925701 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
* * *
18925766 AGCCTGCACATAGTATTACACACGTGATAGAAGCTATTCGGTACGCATAGTAGCCTGCACATAGT
66 AGCCTACACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
18925831 ACTACACATGCGACCTATCATT
131 ACTACACATGCGACCTATCATT
* * *
18925853 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
18925902 TCCACTTTCA
Statistics
Matches: 192, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 192 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (152 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
AGCCTACACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
ACTACACATGCGACCTATCATT
Found at i:18925916 original size:101 final size:103
Alignment explanation
Indices: 18925549--18925927 Score: 375
Period size: 101 Copynumber: 3.7 Consensus size: 103
18925539 ATTAATAATA
* * * *
18925549 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCC-GATACACGTAG
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGGTACACATAG
* ** *
18925613 TAGCCTACACATAGTACTACACACGTGA--TAGAAGCTA
66 TAGCCTACACATAGTACTACACATGTGACCTATCA-CTT
* * * *
18925650 CTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTGGTACACAT
1 C-CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCAGGTACACAT
*
18925712 AGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
64 AGTAGCCTACACATAGTACTACACATGTGACCTATCACT-T
* * * * ** * *
18925752 CCGATACACGTAGTAGCCTGCACATAGTATTACACACGTGA-TAGAAGCTATTC-GGTACGCATA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCCAGGTACACATA
* *
18925815 GTAGCCTGCACATAGTACTACACATGCGACCTATCA-TT
65 GTAGCCTACACATAGTACTACACATGTGACCTATCACTT
* * ** *
18925853 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT-TCCACTTTCACATAG
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGGTACACATAG
*
18925917 TGGCCTACACA
66 TAGCCTACACA
18925928 CAGTCCATGC
Statistics
Matches: 230, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
99 2 0.01
100 3 0.01
101 130 0.57
102 86 0.37
103 9 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (103 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGGTACACATAG
TAGCCTACACATAGTACTACACATGTGACCTATCACTT
Found at i:18935713 original size:52 final size:50
Alignment explanation
Indices: 18935593--18935715 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
18935583 ATATTTAATG
* *
18935593 AAGTCATGTATTATGTAACTCTCACGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCACGTTAGTTAAGTTTGCATCATAAATT
* * *
18935643 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCACGTTAGTT-AAGTTTGCATCA-TAAATT
*
18935695 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
18935716 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 27 0.43
51 12 0.19
52 24 0.38
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCACGTTAGTTAAGTTTGCATCATAAATT
Found at i:18937921 original size:18 final size:18
Alignment explanation
Indices: 18937869--18937924 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
18937859 AGTTGATAAT
*
18937869 GAAAGAAAATGAGCGAAAAA
1 GAAA-AAAATGAGAG-AAAA
* *
18937889 TAAAAGAAAT-TGAGAAAA
1 GAAAA-AAATGAGAGAAAA
18937907 GAAAAAAATGAGAGAAAA
1 GAAAAAAATGAGAGAAAA
18937925 ATAAATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 3 0.10
20 7 0.24
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.09
Consensus pattern (18 bp):
GAAAAAAATGAGAGAAAA
Found at i:18939999 original size:50 final size:52
Alignment explanation
Indices: 18939927--18940025 Score: 159
Period size: 50 Copynumber: 1.9 Consensus size: 52
18939917 TTAATAAAGT
*
18939927 CATGCATTATGTATCTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTATCTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
18939977 CATGCATTATGTAAT-TCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
1 CATGCATTATGT-ATCTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
18940026 AGTCATGTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
50 24 0.53
51 14 0.31
52 7 0.16
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGCATTATGTATCTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:18941588 original size:18 final size:18
Alignment explanation
Indices: 18941561--18941595 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18941551 ACATAACATG
*
18941561 ATTTCCATGTATCTCATC
1 ATTTCAATGTATCTCATC
*
18941579 ATTTCAATGTATTTCAT
1 ATTTCAATGTATCTCAT
18941596 GTATACCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTTCAATGTATCTCATC
Found at i:18941811 original size:27 final size:25
Alignment explanation
Indices: 18941745--18941811 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
18941735 ATGTACATAT
*
18941745 ATGCTCACATGAGCTATGAATAAGT
1 ATGCTCACATGAGCTATGAATAAGC
18941770 ATGCTCACACT-AGCTATGAA-AATGGGC
1 ATGCTCACA-TGAGCTATGAATAA---GC
*
18941797 CTGCTCACATGAGCT
1 ATGCTCACATGAGCT
18941812 GTAGGTCGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 2 0.06
25 18 0.51
26 2 0.06
27 13 0.37
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (25 bp):
ATGCTCACATGAGCTATGAATAAGC
Found at i:18945989 original size:27 final size:27
Alignment explanation
Indices: 18945951--18946005 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
18945941 TCCTTCCTAG
18945951 TTGCCTTGTTAAGCTTGCAATAGTCTA
1 TTGCCTTGTTAAGCTTGCAATAGTCTA
*
18945978 TTGCCTTGTTAAGCTTGCGATAGTCTA
1 TTGCCTTGTTAAGCTTGCAATAGTCTA
18946005 T
1 T
18946006 GCATACTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TTGCCTTGTTAAGCTTGCAATAGTCTA
Found at i:18946180 original size:15 final size:15
Alignment explanation
Indices: 18946156--18946186 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18946146 CATCAAGCCA
*
18946156 CTTGATAACTTCTTT
1 CTTGACAACTTCTTT
18946171 CTTGACAACTTCTTT
1 CTTGACAACTTCTTT
18946186 C
1 C
18946187 ATGATCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (15 bp):
CTTGACAACTTCTTT
Found at i:18946531 original size:50 final size:49
Alignment explanation
Indices: 18946407--18946803 Score: 353
Period size: 50 Copynumber: 7.9 Consensus size: 49
18946397 AAATATAACA
* * * * ** * * * *
18946407 TGCCAAAGCTATGTCCGAGACATAGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
* * * * * ** *
18946456 TGCCAATGCCATATCCAAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTA-G
* * ** *
18946506 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TAG
* *
18946556 AGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AG
* * *
18946606 TGCCAACACCGTGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TAG
* * *
18946656 TGCCAATGCCCTGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AG
* *
18946706 TGGCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-G
*** *
18946761 ATGCCAATTTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18946804 TTACCCAAAT
Statistics
Matches: 284, Mismatches: 53, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.13
50 202 0.71
51 2 0.01
53 4 0.01
54 1 0.00
55 1 0.00
56 36 0.13
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
Found at i:18946581 original size:100 final size:100
Alignment explanation
Indices: 18946457--18946795 Score: 403
Period size: 100 Copynumber: 3.3 Consensus size: 100
18946447 TTCTTGTACT
* * * ** * * *
18946457 GCCAATGCCATATCCAAGATATGGTCTTACATGAGAGTTCTCATAT-AGGTGCCCATGCCATGTC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA-GTGCCAACGCCATGTC
**
18946521 CCAGACATGGTCTTACGGGGGACCTCTCATCTTGGA
65 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGA
* * * * *
18946557 GCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCAGTGCCAACACCGTGTCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
*
18946622 CAGACATGGTCTTACATGGGACCTCTCATCTTGGT
66 CAGACATGGTCTTACATGGGACCTCTCATCTTGGA
* * *
18946657 GCCAATGCCCTGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGGCAACGCCATGTAC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
18946722 CAGACATGGTCTTACATGGGACCTCTCATAATCTCAAT-GA
66 CAGACATGGTCTTACATGGGACCTCTC---ATCT---TGGA
**
18946762 TGCCAATTTCATGTCCCAGACATGGTCTTACATG
1 -GCCAATGCCATGTCCCAGACATGGTCTTACATG
18946796 GGATCTCTTT
Statistics
Matches: 203, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
100 166 0.82
101 1 0.00
103 4 0.02
105 1 0.00
106 31 0.15
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (100 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
CAGACATGGTCTTACATGGGACCTCTCATCTTGGA
Found at i:18946658 original size:150 final size:154
Alignment explanation
Indices: 18946477--18946803 Score: 419
Period size: 150 Copynumber: 2.1 Consensus size: 154
18946467 TATCCAAGAT
* ** * * *
18946477 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
** * *
18946542 ACCTCTCATCTTGGAGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTC-ATCTC-A
66 ACCTCTCATCTCAGAGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCAATCTCAA
*
18946605 -G-TGCCAACACCGTGTCCCAGAC
131 TGATGCCAACACCATGTCCCAGAC
* * * *
18946627 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCCCTGTCCCAGACATGGTCTTACATGAG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
* *
18946692 ACCTCTCATCTCAGTGGCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCATAATCTC
66 ACCTCTCATCTCAGAGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTC--AATCTC
***
18946757 AATGATGCCAATTTCATGTCCCAGAC
129 AATGATGCCAACACCATGTCCCAGAC
*
18946783 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
18946804 TTACCCAAAT
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
150 106 0.71
153 5 0.03
154 1 0.01
155 1 0.01
156 37 0.25
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (154 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
ACCTCTCATCTCAGAGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCAATCTCAA
TGATGCCAACACCATGTCCCAGAC
Found at i:18952445 original size:29 final size:29
Alignment explanation
Indices: 18952412--18952471 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
18952402 GATTCAAAAG
18952412 TAGTATGTTCATGTGCACTTAGCTTACCT
1 TAGTATGTTCATGTGCACTTAGCTTACCT
18952441 TAGTATGTTCATGTGCACTTAGCTTACCT
1 TAGTATGTTCATGTGCACTTAGCTTACCT
18952470 TA
1 TA
18952472 TGATAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
TAGTATGTTCATGTGCACTTAGCTTACCT
Found at i:18955921 original size:633 final size:633
Alignment explanation
Indices: 18954716--18955987 Score: 2526
Period size: 633 Copynumber: 2.0 Consensus size: 633
18954706 TTCATTGAAT
18954716 GGTTTGGGTTGTGTATTGATGCAAGAAGGCAAAGTAATAGCATATGCTTCTCGACAGTTGAAAAC
1 GGTTTGGGTTGTGTATTGATGCAAGAAGGCAAAGTAATAGCATATGCTTCTCGACAGTTGAAAAC
18954781 GCACGAAAAGAATTATCTGACGCATGATTTAGAGCTTGCAGCTATTGTGTTTGCTTTGAAGATAT
66 GCACGAAAAGAATTATCTGACGCATGATTTAGAGCTTGCAGCTATTGTGTTTGCTTTGAAGATAT
18954846 GGTGACACCATTTATACGGAGAAAAATGTCATATCTTCACGGAGCACAAAACCTTGAACTATTTG
131 GGTGACACCATTTATACGGAGAAAAATGTCATATCTTCACGGAGCACAAAACCTTGAACTATTTG
18954911 ATGTCACAAAAATATTTGAATTTGAAACAGCACAGATGGCTCAAGTTATTGAAAGATTACGATTT
196 ATGTCACAAAAATATTTGAATTTGAAACAGCACAGATGGCTCAAGTTATTGAAAGATTACGATTT
18954976 GATTATTGATTTTTATCCGAGAAAGGCTAATGCCGTTGCTAATGCATTGAGTAGAAAATATTTAT
261 GATTATTGATTTTTATCCGAGAAAGGCTAATGCCGTTGCTAATGCATTGAGTAGAAAATATTTAT
18955041 TTGCTTTGCGAGCTTTGAACACACAATTAACATTGATTAATGATGGTTTTATTTTAGATAAATTA
326 TTGCTTTGCGAGCTTTGAACACACAATTAACATTGATTAATGATGGTTTTATTTTAGATAAATTA
18955106 AAAGCTAGACTGACATTTTTGAAACATATTTGTGAAGCTCAGACATGTGATGGTGTTTTGATAGC
391 AAAGCTAGACTGACATTTTTGAAACATATTTGTGAAGCTCAGACATGTGATGGTGTTTTGATAGC
18955171 TAAACTGAAATTGATTGAGACGACACCTGATTCAGATTTTCATGTTTGTATCGTTGACAATTTGT
456 TAAACTGAAATTGATTGAGACGACACCTGATTCAGATTTTCATGTTTGTATCGTTGACAATTTGT
18955236 ACTTCAAAGGTACAATTTGTATTCCGAGAAATTCTGATCTCGTTTAGAAAATCTTACAGGAAGCT
521 ACTTCAAAGGTACAATTTGTATTCCGAGAAATTCTGATCTCGTTTAGAAAATCTTACAGGAAGCT
18955301 CAAAGCAGTAGCTTGTCTATTCACCATGGTAGCAATAAAATGTATGAC
586 CAAAGCAGTAGCTTGTCTATTCACCATGGTAGCAATAAAATGTATGAC
18955349 GGTTTGGGTTGTGTATTGATGCAAGAAGGCAAAGTAATAGCATATGCTTCTCGACAGTTGAAAAC
1 GGTTTGGGTTGTGTATTGATGCAAGAAGGCAAAGTAATAGCATATGCTTCTCGACAGTTGAAAAC
18955414 GCACGAAAAGAATTATCTGACGCATGATTTAGAGCTTGCAGCTATTGTGTTTGCTTTGAAGATAT
66 GCACGAAAAGAATTATCTGACGCATGATTTAGAGCTTGCAGCTATTGTGTTTGCTTTGAAGATAT
18955479 GGTGACACCATTTATACGGAGAAAAATGTCATATCTTCACGGAGCACAAAACCTTGAACTATTTG
131 GGTGACACCATTTATACGGAGAAAAATGTCATATCTTCACGGAGCACAAAACCTTGAACTATTTG
18955544 ATGTCACAAAAATATTTGAATTTGAAACAGCACAGATGGCTCAAGTTATTGAAAGATTACGATTT
196 ATGTCACAAAAATATTTGAATTTGAAACAGCACAGATGGCTCAAGTTATTGAAAGATTACGATTT
*
18955609 GATTATTGATTTTTATCCGAGAAAGGCTAATGCCTTTGCTAATGCATTGAGTAGAAAATATTTAT
261 GATTATTGATTTTTATCCGAGAAAGGCTAATGCCGTTGCTAATGCATTGAGTAGAAAATATTTAT
18955674 TTGCTTTGCGAGCTTTGAACACACAATTAACATTGATTAATGATGGTTTTATTTTAGATAAATTA
326 TTGCTTTGCGAGCTTTGAACACACAATTAACATTGATTAATGATGGTTTTATTTTAGATAAATTA
18955739 AAAGCTAGACTGACATTTTTGAAACATATTTGTGAAGCTCAGACATGTGATGGTGTTTTGATAGC
391 AAAGCTAGACTGACATTTTTGAAACATATTTGTGAAGCTCAGACATGTGATGGTGTTTTGATAGC
18955804 TAAACTGAAATTGATTGAGACGACACCTGATTCAGATTTTCATGTTTGTATCGTTGACAATTTGT
456 TAAACTGAAATTGATTGAGACGACACCTGATTCAGATTTTCATGTTTGTATCGTTGACAATTTGT
18955869 ACTTCAAAGGTACAATTTGTATTCCGAGAAATTCTGATCTCGTTTAGAAAATCTTACAGGAAGCT
521 ACTTCAAAGGTACAATTTGTATTCCGAGAAATTCTGATCTCGTTTAGAAAATCTTACAGGAAGCT
18955934 CAAAGCAGTAGCTTGTCTATTCACCATGGTAGCAATAAAATGTATGAC
586 CAAAGCAGTAGCTTGTCTATTCACCATGGTAGCAATAAAATGTATGAC
*
18955982 GATTTG
1 GGTTTG
18955988 AAACAAATGT
Statistics
Matches: 637, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
633 637 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (633 bp):
GGTTTGGGTTGTGTATTGATGCAAGAAGGCAAAGTAATAGCATATGCTTCTCGACAGTTGAAAAC
GCACGAAAAGAATTATCTGACGCATGATTTAGAGCTTGCAGCTATTGTGTTTGCTTTGAAGATAT
GGTGACACCATTTATACGGAGAAAAATGTCATATCTTCACGGAGCACAAAACCTTGAACTATTTG
ATGTCACAAAAATATTTGAATTTGAAACAGCACAGATGGCTCAAGTTATTGAAAGATTACGATTT
GATTATTGATTTTTATCCGAGAAAGGCTAATGCCGTTGCTAATGCATTGAGTAGAAAATATTTAT
TTGCTTTGCGAGCTTTGAACACACAATTAACATTGATTAATGATGGTTTTATTTTAGATAAATTA
AAAGCTAGACTGACATTTTTGAAACATATTTGTGAAGCTCAGACATGTGATGGTGTTTTGATAGC
TAAACTGAAATTGATTGAGACGACACCTGATTCAGATTTTCATGTTTGTATCGTTGACAATTTGT
ACTTCAAAGGTACAATTTGTATTCCGAGAAATTCTGATCTCGTTTAGAAAATCTTACAGGAAGCT
CAAAGCAGTAGCTTGTCTATTCACCATGGTAGCAATAAAATGTATGAC
Found at i:18957219 original size:22 final size:21
Alignment explanation
Indices: 18957195--18957234 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18957185 TTCAAGAACA
*
18957195 AAAATTCTTTTACTAGGGACG
1 AAAATTCCTTTACTAGGGACG
18957216 AAAATTCCTTTACTAGGGA
1 AAAATTCCTTTACTAGGGA
18957235 GGGTTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAATTCCTTTACTAGGGACG
Done.