Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 151 of 216
Found at i:47690538 original size:16 final size:16
Alignment explanation
Indices: 47690519--47690563 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
47690509 TTATTAAATT
*
47690519 ATATATTTAAATTATA
1 ATATATTTAAATAATA
47690535 ATATATTT-AATAATA
1 ATATATTTAAATAATA
*
47690550 ATTATGTTTAAATA
1 A-TATATTTAAATA
47690564 TGATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATATTTAAATAATA
Found at i:47690715 original size:16 final size:16
Alignment explanation
Indices: 47690690--47690727 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47690680 CCATTATGCT
47690690 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
47690706 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
47690722 AATACA
1 ATTACA
47690728 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:47693245 original size:25 final size:25
Alignment explanation
Indices: 47693206--47693277 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
47693196 GTGATAAACA
* *
47693206 GTAAGCTCCTTCGAGCTGAATAAT-G
1 GTAAGCTCATACGAGCTGAAT-ATCG
* *
47693231 GTAAGCTCATACGAGTTGAGTATCG
1 GTAAGCTCATACGAGCTGAATATCG
*
47693256 GTAAGCTCATAAGAGCTAGAAT
1 GTAAGCTCATACGAGCT-GAAT
47693278 CGGTAACCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 33 0.87
26 3 0.08
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATATCG
Found at i:47701734 original size:63 final size:63
Alignment explanation
Indices: 47701635--47701755 Score: 206
Period size: 63 Copynumber: 1.9 Consensus size: 63
47701625 GAACATAAGA
* * *
47701635 ATTCAAATTTCACTATTTCCAAACACTTATAATCCATTATCAACATTAATGGGCTAATAATTC
1 ATTCAAATTTCACTATTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAATAATTC
*
47701698 ATTCAAATTTCACTCTTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAAT
1 ATTCAAATTTCACTATTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAAT
47701756 TACCATATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.36
Consensus pattern (63 bp):
ATTCAAATTTCACTATTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAATAATTC
Found at i:47718112 original size:40 final size:40
Alignment explanation
Indices: 47718057--47718142 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
47718047 AATTATTGAA
* * * *
47718057 TGTTTACACATACGTGCC-CT-TGTTTGTACTTTGGTACTCC
1 TGTTTGCACACACGTGCCACTAT-TTT-TACTTCGGTACCCC
47718097 TGTTTGCACACACGTGCCACTATTTTTACTTCGGTACCCC
1 TGTTTGCACACACGTGCCACTATTTTTACTTCGGTACCCC
47718137 TGTTTG
1 TGTTTG
47718143 TACTTCGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 34 0.85
41 5 0.12
42 1 0.03
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (40 bp):
TGTTTGCACACACGTGCCACTATTTTTACTTCGGTACCCC
Found at i:47721107 original size:19 final size:19
Alignment explanation
Indices: 47721071--47721108 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47721061 TCAATCATCC
*
47721071 CTCATTCCATCATCTCTCA
1 CTCATTCCATCATATCTCA
47721090 CTCATT-CATCATTATCTCA
1 CTCATTCCATCA-TATCTCA
47721109 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCCATCATATCTCA
Found at i:47723890 original size:3 final size:3
Alignment explanation
Indices: 47723882--47723951 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
47723872 ACCTTGCTTT
* * *
47723882 ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
47723930 ATA GTA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
47723952 ATATATATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47726828 original size:14 final size:15
Alignment explanation
Indices: 47726803--47726842 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
47726793 ATATTTTTTC
47726803 AAGCTATA-TTTTAA
1 AAGCTATAGTTTTAA
*
47726817 AAG-TATAGTTTTAT
1 AAGCTATAGTTTTAA
47726831 AAGCTAT-GTTTT
1 AAGCTATAGTTTT
47726843 TCCGAGCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (15 bp):
AAGCTATAGTTTTAA
Found at i:47728342 original size:8 final size:8
Alignment explanation
Indices: 47728329--47728387 Score: 64
Period size: 8 Copynumber: 7.1 Consensus size: 8
47728319 TTCATCGTTC
47728329 TTTTATTT
1 TTTTATTT
47728337 TTTTATTT
1 TTTTATTT
*
47728345 TTATATATAT
1 TT-T-TATTT
47728355 TTTTATTT
1 TTTTATTT
***
47728363 TTTTCCGT
1 TTTTATTT
47728371 TTTTATTT
1 TTTTATTT
47728379 TTTTATTT
1 TTTTATTT
47728387 T
1 T
47728388 GCTTTAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 33 0.80
9 2 0.05
10 6 0.15
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTATTT
Found at i:47729083 original size:24 final size:21
Alignment explanation
Indices: 47729056--47729104 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 21
47729046 TTATTTTAGT
*
47729056 ATTTTTATCAAGTGCTATTATTTA
1 ATTTTTAT-AA-TG-TACTATTTA
47729080 A-TTTTATAATGTACTATTTA
1 ATTTTTATAATGTACTATTTA
47729100 ATTTT
1 ATTTT
47729105 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 2 0.09
23 6 0.26
24 1 0.04
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTTTATAATGTACTATTTA
Found at i:47740558 original size:42 final size:42
Alignment explanation
Indices: 47740488--47740568 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
47740478 CCCAAAAAGA
*
47740488 GCAGCTCAAATATTGATCAGAATAGGGCATG-AGATGGTCAGG
1 GCAGCTCAAATATTGATCAAAATAGGGCATGCAG-TGGTCAGG
* *
47740530 GCAGTTCAAATATTGATCAAAATGGGGCATGCAGTGGTC
1 GCAGCTCAAATATTGATCAAAATAGGGCATGCAGTGGTC
47740569 TTGCTATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (42 bp):
GCAGCTCAAATATTGATCAAAATAGGGCATGCAGTGGTCAGG
Found at i:47740808 original size:13 final size:13
Alignment explanation
Indices: 47740790--47740815 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47740780 TTCCTAACTA
47740790 ATTTCTTTATTAT
1 ATTTCTTTATTAT
47740803 ATTTCTTTATTAT
1 ATTTCTTTATTAT
47740816 CTTTGATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTCTTTATTAT
Found at i:47741691 original size:45 final size:45
Alignment explanation
Indices: 47741627--47742245 Score: 729
Period size: 45 Copynumber: 13.7 Consensus size: 45
47741617 CCCAGAGAAC
* * * *
47741627 AGATCGAAGATAACAGATCTTGTCTTCCTGTCTTGGCAGCAAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
** * *
47741672 AGATCAAAGATAGTAGATCTTGTTTTCCTATATTGGTA-CTGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGC-GAAGT
* * * *
47741717 AGATCGAAGATAACGGATCTTGTCTTCCTGTATTGGCAGCAAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
** *
47741762 AGATCAAAGATAGTAGATCTTGTCTTCCTATATTGGTAGCGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * *
47741807 AGATCGAAGATAACATATCTTGTCTTCCCTTCCTATATTGGTAGCGAAGT
1 AGATCAAAGATAACAGATCTTG---T--CTTCCTGTATTGGTAGCGAAGT
* * * *
47741857 AGATCGAACATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * * * *
47741902 ATATCGAAGATAGCAGATCTTGTCTTTCTATATTGGTAGCGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * *
47741947 AGATCGAAGATAACATATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* *
47741992 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * *
47742037 AGATCAAAGACAACAGATCTTGTCTTCCTATATTGGTAGCAAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * * *
47742082 AGATCGAAGATAACAGATCTTGTCTTCCTGTATGGGCAACGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * * * *
47742127 AGATCAAAGATAGCAAATCTTGTTTTCTTGTATTGGTAGTGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
*
47742172 AGATCAAAGATAACAGATCATGTCTTCCTGTATTGGTAGCGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * * *
47742217 AGATCAAGGATAGCAG-TCTTATCTCCCTG
1 AGATCAAAGATAACAGATCTTGTCTTCCTG
47742246 AAGTTGCAAT
Statistics
Matches: 487, Mismatches: 80, Indels: 15
0.84 0.14 0.03
Matches are distributed among these distances:
44 11 0.02
45 431 0.89
46 1 0.00
47 1 0.00
48 1 0.00
50 42 0.09
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
AGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
Found at i:47742315 original size:44 final size:44
Alignment explanation
Indices: 47742233--47742341 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
47742223 AGGATAGCAG
* *
47742233 TCTTATCTCCCTGAAGTTGCAATGGAACAAACAAAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAATAGAACAAACAAAAGAAACAAA
* * * * *
47742277 TCTTATCTCCCTGAAGTTGTAGTAGAGA-AGACAGAAGAAATAAA
1 TCTTATCTCCCTGAAGTTGCAATAGA-ACAAACAAAAGAAACAAA
* *
47742321 TCCTATCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
47742342 GTGGAGCGGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 53 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAATAGAACAAACAAAAGAAACAAA
Found at i:47743269 original size:25 final size:22
Alignment explanation
Indices: 47743230--47743279 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 22
47743220 TTCATCGTTC
47743230 TTTTATTTTTTTGTTTATATATTT
1 TTTTATTTTTTTGTTT-T-TATTT
47743254 TTTTATTTTTTTTGTTTTTATTT
1 TTTTA-TTTTTTTGTTTTTATTT
47743277 TTT
1 TTT
47743280 AATCTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.32
24 6 0.24
25 11 0.44
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.84
Consensus pattern (22 bp):
TTTTATTTTTTTGTTTTTATTT
Found at i:47743866 original size:3 final size:3
Alignment explanation
Indices: 47743858--47743898 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
47743848 TTTAAAAATA
* * *
47743858 TAT TAT TAT TAT TAT TAC TAT TAC TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
47743899 GCGTAAGTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:47743879 original size:12 final size:12
Alignment explanation
Indices: 47743858--47743898 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
47743848 TTTAAAAATA
*
47743858 TATTATTATTAT
1 TATTACTATTAT
*
47743870 TATTACTATTAC
1 TATTACTATTAT
47743882 TATTACTATTAT
1 TATTACTATTAT
47743894 TATTA
1 TATTA
47743899 GCGTAAGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:47744001 original size:24 final size:21
Alignment explanation
Indices: 47743974--47744022 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 21
47743964 TTATTTTAGT
*
47743974 ATTTTTATCAAGTGCTATTATTTA
1 ATTTTTAT-AA-TG-TACTATTTA
47743998 A-TTTTATAATGTACTATTTA
1 ATTTTTATAATGTACTATTTA
47744018 ATTTT
1 ATTTT
47744023 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 2 0.09
23 6 0.26
24 1 0.04
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTTTATAATGTACTATTTA
Found at i:47780131 original size:14 final size:14
Alignment explanation
Indices: 47780114--47780148 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
47780104 CTTGCCTATG
47780114 TGGCCCACACGGCT
1 TGGCCCACACGGCT
47780128 TGGCCCACACGGCT
1 TGGCCCACACGGCT
47780142 TGGCCCA
1 TGGCCCA
47780149 AAACCCACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.43, G:0.29, T:0.14
Consensus pattern (14 bp):
TGGCCCACACGGCT
Found at i:47783321 original size:27 final size:27
Alignment explanation
Indices: 47783291--47783349 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
47783281 TTTGGTTATC
* *
47783291 TTACCATTTGAGGCTATTTCGATAATT
1 TTACCATTCGAGGCTATTTCAATAATT
* * *
47783318 TTACCCTTCGAGGGTATTTCAATCATT
1 TTACCATTCGAGGCTATTTCAATAATT
47783345 TTACC
1 TTACC
47783350 TTTCAGGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (27 bp):
TTACCATTCGAGGCTATTTCAATAATT
Found at i:47783414 original size:27 final size:27
Alignment explanation
Indices: 47783315--47783418 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
47783305 TATTTCGATA
* *
47783315 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCAAGGGTAATTCAATC
* * **
47783342 ATTTTACCTTTCAGGGGTAATTTGATC
1 ATTTTACCCTTCAAGGGTAATTCAATC
*
47783369 ATTTTACCCTTCACGGGTAATTCAATC
1 ATTTTACCCTTCAAGGGTAATTCAATC
* *
47783396 ATTTTACCCTCCAAAGGTAATTC
1 ATTTTACCCTTCAAGGGTAATTC
47783419 GGTCATTTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTTCAAGGGTAATTCAATC
Found at i:47783415 original size:54 final size:54
Alignment explanation
Indices: 47783306--47783426 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
47783296 ATTTGAGGCT
* * * * **
47783306 ATTTCGATAATTTTACCCTTCGAGGGTATTTCAATCATTTTACCTTTCAGGGGTA
1 ATTT-GATCATTTTACCCTTCGAGGGTAATTCAATCATTTTACCCTCCAAAGGTA
47783361 ATTTGATCATTTTACCCTTC-ACGGGTAATTCAATCATTTTACCCTCCAAAGGTA
1 ATTTGATCATTTTACCCTTCGA-GGGTAATTCAATCATTTTACCCTCCAAAGGTA
* *
47783415 ATTCGGTCATTT
1 ATTTGATCATTT
47783427 AAAAACCTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 52 0.91
55 4 0.07
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (54 bp):
ATTTGATCATTTTACCCTTCGAGGGTAATTCAATCATTTTACCCTCCAAAGGTA
Found at i:47783424 original size:27 final size:27
Alignment explanation
Indices: 47783308--47783426 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 27
47783298 TTGAGGCTAT
* * * * *
47783308 TTCGATAATTTTACCCTTCGAGGGTAT
1 TTCGATCATTTTACCCTCCAAAGGTAA
* * * **
47783335 TTCAATCATTTTACCTTTCAGGGGTAA
1 TTCGATCATTTTACCCTCCAAAGGTAA
* * **
47783362 TTTGATCATTTTACCCTTCACGGGTAA
1 TTCGATCATTTTACCCTCCAAAGGTAA
*
47783389 TTCAATCATTTTACCCTCCAAAGGTAA
1 TTCGATCATTTTACCCTCCAAAGGTAA
*
47783416 TTCGGTCATTT
1 TTCGATCATTT
47783427 AAAAACCTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (27 bp):
TTCGATCATTTTACCCTCCAAAGGTAA
Found at i:47784869 original size:25 final size:25
Alignment explanation
Indices: 47784832--47784883 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
47784822 TGAACCTCTG
47784832 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* *
47784857 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
47784882 AC
1 AC
47784884 GTTTCCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.48, G:0.13, T:0.21
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:47787182 original size:16 final size:16
Alignment explanation
Indices: 47787152--47787207 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
47787142 GGTAAGTGTT
47787152 CTTTAGA-TTTGAAAA
1 CTTTAGACTTTGAAAA
*
47787167 CTTTAGACTGTGAAAA
1 CTTTAGACTTTGAAAA
*
47787183 CTATAGACTTTGAAAA
1 CTTTAGACTTTGAAAA
47787199 CTTTAGACT
1 CTTTAGACT
47787208 ATATACTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 7 0.19
16 29 0.81
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (16 bp):
CTTTAGACTTTGAAAA
Found at i:47787208 original size:23 final size:23
Alignment explanation
Indices: 47787182--47787228 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
47787172 GACTGTGAAA
47787182 ACTATAGACTTTGAAAACTTTAG
1 ACTATAGACTTTGAAAACTTTAG
* *
47787205 ACTATATACTTTGAAACCTTTAG
1 ACTATAGACTTTGAAAACTTTAG
47787228 A
1 A
47787229 TTATGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (23 bp):
ACTATAGACTTTGAAAACTTTAG
Found at i:47808491 original size:39 final size:40
Alignment explanation
Indices: 47808374--47808519 Score: 199
Period size: 40 Copynumber: 3.7 Consensus size: 40
47808364 GCTACTCGTT
*
47808374 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
47808414 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
47808454 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
47808493 CAAATGCCTTC-GGATCTTAGTCCGGAT
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT
47808520 ATGGTCTGTA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.02
39 33 0.35
40 57 0.61
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47810257 original size:29 final size:29
Alignment explanation
Indices: 47810224--47810287 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47810214 TAATCCACCA
47810224 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47810253 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47810283 CCCAA
1 CCCAA
47810288 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47810261 original size:30 final size:30
Alignment explanation
Indices: 47810231--47810287 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47810221 CCACCCAACT
47810231 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47810260 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47810288 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47816171 original size:24 final size:24
Alignment explanation
Indices: 47816141--47816256 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
47816131 CCCTCGGGGT
47816141 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTCTGTGATG
* *
47816165 TAAATGATTGATTTGTCCGAGATG
1 TAAATGATTGATTTGTCTGTGATG
* * *
47816189 TAAATGACTGATTTGTCTATGATT
1 TAAATGATTGATTTGTCTGTGATG
* * * *
47816213 TAAATGACTGATTTGCCTGTAATT
1 TAAATGATTGATTTGTCTGTGATG
*
47816237 TAAATGGTTGATTTGTCTGT
1 TAAATGATTGATTTGTCTGT
47816257 AATTTGTATG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.44
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTGATG
Found at i:47816377 original size:27 final size:27
Alignment explanation
Indices: 47816342--47816401 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
47816332 GGAAGTAGTG
47816342 TTCTGGTGGCTCT-GCCACA-ATCACTGT
1 TTCTGGTGGCT-TGGCCACATAT-ACTGT
47816369 TTCTGGTGGCTTGGCCACATATACTGT
1 TTCTGGTGGCTTGGCCACATATACTGT
*
47816396 TACTGG
1 TTCTGG
47816402 CAGTTTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (27 bp):
TTCTGGTGGCTTGGCCACATATACTGT
Found at i:47816474 original size:32 final size:32
Alignment explanation
Indices: 47816438--47816576 Score: 170
Period size: 32 Copynumber: 4.3 Consensus size: 32
47816428 CTTTTTACCG
* *
47816438 ATCATATTACCATTACTGATGGCTGTGTGCCA
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
* **
47816470 ATCATATTACTACTACTGATGGCTTTGTGCTG
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
* * * * *
47816502 ATCATACTACTATTACTGATCGCTGTGTGTCG
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
* *
47816534 ATCATATTACTACTACTGGTGGCTTTGTGCCA
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
47816566 ATCATATTACT
1 ATCATATTACT
47816577 GTACTTATGG
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 89 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (32 bp):
ATCATATTACTACTACTGATGGCTGTGTGCCA
Found at i:47816506 original size:64 final size:64
Alignment explanation
Indices: 47816422--47816575 Score: 218
Period size: 64 Copynumber: 2.4 Consensus size: 64
47816412 GTGATGCTAT
* * *
47816422 TGATGGCTTTTTACCGATCATATTACCATTACTGATGGCTGTGTGCCAATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACCATTACTGATCGCTGTGTGCCAATCATATTACTACTAC
* * * * *
47816486 TGATGGCTTTGTGCTGATCATACTACTATTACTGATCGCTGTGTGTCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACCATTACTGATCGCTGTGTGCCAATCATATTACTACTAC
* *
47816550 TGGTGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCGATCATATTAC
47816576 TGTACTTATG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGATCATATTACCATTACTGATCGCTGTGTGCCAATCATATTACTACTAC
Found at i:47816606 original size:22 final size:21
Alignment explanation
Indices: 47816581--47816645 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
47816571 ATTACTGTAC
47816581 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
47816603 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
47816625 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
47816646 GTTACTAGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:47817738 original size:40 final size:40
Alignment explanation
Indices: 47817694--47818073 Score: 474
Period size: 40 Copynumber: 9.5 Consensus size: 40
47817684 ATAATTATTG
* * *
47817694 CTGAATGCACAAACATGCCCATGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
47817734 CTGAATACACATACGTGCCCCTATTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* **
47817774 CTGAATGCACATACGTGCCCTTGTTTGTACTTTAGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
47817814 CTGAATGCACATATGTGCCCCTATTTGTACTTCAGTACCT
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
47817854 CTGAATGCACATACGTGCCCCTGTTTGTAATTCGATACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
47817894 CTGAATGCACATACGTACCCCTGTTTGTACTTCAGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * * ** * *
47817934 TTGAATACACATACGTGACCTTACTTGTACTTTGGTACCA
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
47817974 CTGAATGCACATATGTGCCCCTATTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* **
47818014 CTGAATGCACATACATGCCCCTGTTTGTACTTCGACACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
47818054 CTGAACT-CACATACGTGCCC
1 CTGAA-TGCACATACGTGCCC
47818074 TATTTATACT
Statistics
Matches: 290, Mismatches: 49, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 289 1.00
41 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:47819143 original size:27 final size:27
Alignment explanation
Indices: 47819127--47819456 Score: 294
Period size: 27 Copynumber: 12.3 Consensus size: 27
47819117 TATAACGGTC
*
47819127 ATTTTACCCTTCGGGGGTATTT-TAGTA
1 ATTTTACCCTTCGGGGGTATTTCGA-TA
*
47819154 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* **
47819181 ATTTTACCCATCAAGGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* *
47819208 ATTTTACCCTTTGGGGGTATTTATG-TA
1 ATTTTACCCTTCGGGGGTATTT-CGATA
* * * *
47819235 ATTTTACCCTTTGAGGATATTTTGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* * **
47819262 A-TTTAACTTTTAGGGGTATTTC-AGTA
1 ATTTTACCCTTCGGGGGTATTTCGA-TA
* * *
47819288 ATTTTACACTTCGAGGGTATTTCGATT
1 ATTTTACCCTTCGGGGGTATTTCGATA
* * * * *
47819315 ATTTTACCCTTTGAGGTTAATTCAATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* * *
47819342 ATTTTACCTTTCGAGGGTATTTCAATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
** *
47819369 ATTTTACCCTTCAAGGGTATTT-TATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* *
47819395 ATTTTACCCTTCGAGGGTATTT-TATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
**
47819421 ATTTTACCCTTCGAAGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
47819448 ATTTTACCC
1 ATTTTACCC
47819457 ACGATACGCA
Statistics
Matches: 256, Mismatches: 40, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
25 1 0.00
26 69 0.27
27 183 0.71
28 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCGATA
Found at i:47819199 original size:54 final size:55
Alignment explanation
Indices: 47819127--47819456 Score: 340
Period size: 54 Copynumber: 6.2 Consensus size: 55
47819117 TATAACGGTC
*
47819127 ATTTTACCCTTCGGGGGTATTTTAG-TAATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTTCGATA
* * * * * *
47819181 ATTTTACCCATCAAGGGTA-TTTCGATAATTTTACCCTTTGGGGGTATTTATG-TA
1 ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT-CGATA
* * * ** *
47819235 ATTTTACCCTTTGAGGATATTTT-GATAATTTAACTTTTAG-GGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTTCGA-TA
* * * * * * *
47819288 ATTTTACACTTCGAGGGTA-TTTCGATTATTTTACCCTTTGAGGTTAATTCAATA
1 ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTTCGATA
* * * *
47819342 ATTTTACCTTTCGAGGGTATTTCA-ATAATTTTACCCTTCAAGGGTATTT-TATA
1 ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTTCGATA
*
47819395 ATTTTACCCTTCGAGGGTATTTT--ATAATTTTACCCTTCGAAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTTCGATA
47819448 ATTTTACCC
1 ATTTTACCC
47819457 ACGATACGCA
Statistics
Matches: 225, Mismatches: 41, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
52 26 0.12
53 78 0.35
54 114 0.51
55 7 0.03
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (55 bp):
ATTTTACCCTTCGAGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTTCGATA
Found at i:47819312 original size:107 final size:108
Alignment explanation
Indices: 47819127--47819455 Score: 337
Period size: 107 Copynumber: 3.1 Consensus size: 108
47819117 TATAACGGTC
* * * * * * * *
47819127 ATTTTACCCTTCGGGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTC-GATAATTTTACCCA
1 ATTTTACCTTTCGAGGATATTTCAATAATTTTAACCTTCAAGGGTATTTCAG-TAATTTTACCCT
* * * *
47819191 TCAAGGGTATTTCGATAATTTTACCCTTTGGGGGT-ATTTATGTA
65 TCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTAATTCA-ATA
** * * * *
47819235 ATTTTACCCTTT-GAGGATATTTTGATAA-TTTAACTTTTAGGGGTATTTCAGTAATTTTACACT
1 ATTTTA-CCTTTCGAGGATATTTCAATAATTTTAACCTTCAAGGGTATTTCAGTAATTTTACCCT
* *
47819298 TCGAGGGTATTTCGATTATTTTACCCTTTGAGGTTAATTCAATA
65 TCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTAATTCAATA
* * *
47819342 ATTTTACCTTTCGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTTA-TAATTTTACCCTT
1 ATTTTACCTTTCGAGGATATTTCAATAATTTTAACCTTCAAGGGTATTTCAGTAATTTTACCCTT
* * * * *
47819406 CGAGGGTATTT-TATAATTTTACCCTTCGAAGGTATTTCGATA
66 CGAGGGTATTTCGATAATTTTACCCTTTGAGGGTAATTCAATA
47819448 ATTTTACC
1 ATTTTACC
47819456 CACGATACGC
Statistics
Matches: 182, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
106 37 0.20
107 101 0.55
108 40 0.22
109 4 0.02
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (108 bp):
ATTTTACCTTTCGAGGATATTTCAATAATTTTAACCTTCAAGGGTATTTCAGTAATTTTACCCTT
CGAGGGTATTTCGATAATTTTACCCTTTGAGGGTAATTCAATA
Found at i:47820398 original size:17 final size:16
Alignment explanation
Indices: 47820376--47820412 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
47820366 TGGCAACAAG
47820376 AGAAGAAAAAATAGAAA
1 AGAAGAAAAAA-AGAAA
*
47820393 AGAAGAAGAAAAGAAA
1 AGAAGAAAAAAAGAAA
47820409 AGAA
1 AGAA
47820413 ATTCGGCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (16 bp):
AGAAGAAAAAAAGAAA
Found at i:47822473 original size:17 final size:18
Alignment explanation
Indices: 47822444--47822480 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47822434 ATCAGCACTT
*
47822444 TTTTTATTCTTCTTTTTA
1 TTTTTATTCTTCTTTATA
47822462 TTTTTATT-TTCTTTATA
1 TTTTTATTCTTCTTTATA
47822479 TT
1 TT
47822481 ATATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTCTTCTTTATA
Found at i:47833130 original size:48 final size:48
Alignment explanation
Indices: 47833054--47833234 Score: 263
Period size: 48 Copynumber: 3.8 Consensus size: 48
47833044 ATGTTCTGTC
* * **
47833054 ATGACACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
*
47833102 ATGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
* * * *
47833150 ATGATACAAGGGTGGCACGGACTGTGTGCAGACCACCAATAATCTGTT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
* *
47833198 AAGATACAAGGGTGGCACGGACTATGTGCAGGCCACC
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACC
47833235 AAAAATCTGC
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 120 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (48 bp):
ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
Found at i:47833226 original size:96 final size:96
Alignment explanation
Indices: 47833054--47833280 Score: 283
Period size: 96 Copynumber: 2.4 Consensus size: 96
47833044 ATGTTCTGTC
* * * * * *
47833054 ATGACACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCA
1 ATGACACAAGGGTGGCATGGACTGTGTGCAGACCACCAATAATCTATTAAGATACAAGGGTGGCA
* * * * *
47833119 CGGACTGTGTGCAAGCCACCGATATTCTATT
66 CGGACTATGTGCAAGCCACCAAAAATCTACT
* * *
47833150 ATGATACAAGGGTGGCACGGACTGTGTGCAGACCACCAATAATCTGTTAAGATACAAGGGTGGCA
1 ATGACACAAGGGTGGCATGGACTGTGTGCAGACCACCAATAATCTATTAAGATACAAGGGTGGCA
* *
47833215 CGGACTATGTGCAGGCCACCAAAAATCTGCT
66 CGGACTATGTGCAAGCCACCAAAAATCTACT
* * *
47833246 ATTACACAAAGGTGGTATGGACTGTGTGCAGACCA
1 ATGACACAAGGGTGGCATGGACTGTGTGCAGACCA
47833281 TCGAGAAATC
Statistics
Matches: 110, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 110 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (96 bp):
ATGACACAAGGGTGGCATGGACTGTGTGCAGACCACCAATAATCTATTAAGATACAAGGGTGGCA
CGGACTATGTGCAAGCCACCAAAAATCTACT
Found at i:47833235 original size:48 final size:48
Alignment explanation
Indices: 47833054--47833276 Score: 257
Period size: 48 Copynumber: 4.6 Consensus size: 48
47833044 ATGTTCTGTC
* * ** * *
47833054 ATGACACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAATCTATT
* * *
47833102 ATGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAATCTATT
* *
47833150 ATGATACAAGGGTGGCACGGACTGTGTGCAGACCACCAATAATCTGTT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAATCTATT
* * * **
47833198 AAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCAAAAATCTGCT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAATCTATT
* * * * *
47833246 ATTACACAAAGGTGGTATGGACTGTGTGCAG
1 ATGATACAAGGGTGGCACGGACTGTGTGCAG
47833277 ACCATCGAGA
Statistics
Matches: 153, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 153 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAATCTATT
Found at i:47838996 original size:48 final size:48
Alignment explanation
Indices: 47838933--47839131 Score: 202
Period size: 48 Copynumber: 4.1 Consensus size: 48
47838923 GTACCGATGT
* * *
47838933 TCTGTCATGACACAAGAGTGGCACGGAATGTGTGCAGGCCACCGATAT
1 TCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCACCGATAA
* *
47838981 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATAA
1 TCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCACCGATAA
* * * * * * * * *
47839029 CCTGTTAAGATACAAGGGTGACACGGACTATGTACAGGCCACCAAAAA
1 TCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCACCGATAA
* * * * *
47839077 TCTGCTATTACGCAA-AGGTGGTACGGACTGTGTGCAGGCCACCGAGAAA
1 TCTGTTATGACACAAGA-GTGGCACGGACTGTGTGCAGGCCACCGA-TAA
47839126 TCTGTT
1 TCTGTT
47839132 TTTATTCCAA
Statistics
Matches: 124, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 116 0.94
49 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (48 bp):
TCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCACCGATAA
Found at i:47840307 original size:43 final size:43
Alignment explanation
Indices: 47840198--47840393 Score: 295
Period size: 43 Copynumber: 4.6 Consensus size: 43
47840188 TAAAAGCGCT
* *
47840198 GCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCACAAACGCC
1 GCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
*
47840241 GCTA-AGATCATGACCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
47840283 GCTATTGATCATGACCTTTAGCGGCACTTTTCCCACAAACGCC
1 GCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * *
47840326 GCTATAGATCATGACCTTTAGCGGTGCTTTTCCCACAAACTCT
1 GCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
47840369 GCTATAGGTAATGACCTTTAGCGGC
1 GCTATAGATCATGACCTTTAGCGGC
47840394 ATTTTTTAAA
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 39 0.28
43 99 0.72
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (43 bp):
GCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:47840816 original size:21 final size:21
Alignment explanation
Indices: 47840792--47840834 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47840782 TTTCTTTGAA
*
47840792 CCTCAGCTTCTCTCGCTGCTG
1 CCTCAGCTTCCCTCGCTGCTG
* *
47840813 CCTCTGCTTCCCTCGTTGCTG
1 CCTCAGCTTCCCTCGCTGCTG
47840834 C
1 C
47840835 ATCTGCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.44, G:0.19, T:0.35
Consensus pattern (21 bp):
CCTCAGCTTCCCTCGCTGCTG
Found at i:47840833 original size:87 final size:87
Alignment explanation
Indices: 47840742--47840904 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
47840732 TTTCTCTCAC
47840742 TGCTGCATCAGATTTAAGTTGTAGCTGGAGTTCTTCATATTTTCTTT-GAACCTCAGCTTCTCTC
1 TGCTGCATCAGATTTAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTAG-ACCTCAGCTTCTCTC
**
47840806 GCTGCTGCCTCTGCTTCCCTCGT
65 AATGCTGCCTCTGCTTCCCTCGT
* * *
47840829 TGCTGCATCTGCTTTAAGTTGTAGTTGGAGTTCTTCATATTTTCTTTAGACCTCAGCTTCTCTCA
1 TGCTGCATCAGATTTAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTAGACCTCAGCTTCTCTCA
47840894 ATGCTGCCTCT
66 ATGCTGCCTCT
47840905 ACTTTAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 69 0.99
88 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (87 bp):
TGCTGCATCAGATTTAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTAGACCTCAGCTTCTCTCA
ATGCTGCCTCTGCTTCCCTCGT
Found at i:47840839 original size:21 final size:21
Alignment explanation
Indices: 47840797--47840842 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47840787 TTGAACCTCA
* *
47840797 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCCCTCGCTGCTGCATCT
*
47840818 GCTTCCCTCGTTGCTGCATCT
1 GCTTCCCTCGCTGCTGCATCT
47840839 GCTT
1 GCTT
47840843 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
GCTTCCCTCGCTGCTGCATCT
Found at i:47842003 original size:14 final size:14
Alignment explanation
Indices: 47841977--47842005 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47841967 AATAATGTCC
47841977 TGAGAATAATATGA
1 TGAGAATAATATGA
47841991 TGAGAATAATATGA
1 TGAGAATAATATGA
47842005 T
1 T
47842006 TATTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (14 bp):
TGAGAATAATATGA
Found at i:47855204 original size:21 final size:21
Alignment explanation
Indices: 47855179--47855223 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47855169 GAATTTTAGG
*
47855179 ACAGCCTGAAGATGTCGCGAC
1 ACAGCCTGAAGATGTCACGAC
* *
47855200 ACAGCTTGATGATGTCACGAC
1 ACAGCCTGAAGATGTCACGAC
47855221 ACA
1 ACA
47855224 CCCCTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
ACAGCCTGAAGATGTCACGAC
Found at i:47857129 original size:16 final size:16
Alignment explanation
Indices: 47857106--47857161 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
47857096 CGTTTGGTTC
47857106 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
47857122 GTTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
47857138 GCTGTAATGAAATAGA
1 GCTGTAATGGAATAGA
*
47857154 ACTGTAAT
1 GCTGTAAT
47857162 AGTAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:47857203 original size:45 final size:44
Alignment explanation
Indices: 47857143--47857236 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 44
47857133 ATAGAGCTGT
*
47857143 AATGAAATAGAACTGTAATAGTAATT-TAAT-TGTTTGGTTGAATGG
1 AATGAAATAGAACTGTAATAGT-ATTCT--TGTCTTTGGTTGAATGG
*
47857188 AATGGAATAGAACTGTAATAGTATTCTTGTCTTTGGTTGAATGG
1 AATGAAATAGAACTGTAATAGTATTCTTGTCTTTGGTTGAATGG
47857232 AATGA
1 AATGA
47857237 TGTTGTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.37
Consensus pattern (44 bp):
AATGAAATAGAACTGTAATAGTATTCTTGTCTTTGGTTGAATGG
Found at i:47857455 original size:56 final size:56
Alignment explanation
Indices: 47857340--47857468 Score: 145
Period size: 56 Copynumber: 2.3 Consensus size: 56
47857330 AATAAGATTA
* *
47857340 TTAATACAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
47857398 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
47857454 TTACTAAAATCATAA
1 TTAATAAAATAATAA
47857469 TATATAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
55 4 0.07
56 29 0.48
57 21 0.35
58 6 0.10
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:47858340 original size:29 final size:29
Alignment explanation
Indices: 47858307--47858364 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
47858297 AGCAACAATG
*
47858307 TATGGGTTAAAATTTAAGGCTTACCCTCC
1 TATGGGTTAAAAGTTAAGGCTTACCCTCC
47858336 TATGGGTTAAAAGTTAAGGCTTACCCTCC
1 TATGGGTTAAAAGTTAAGGCTTACCCTCC
47858365 CAAGTAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (29 bp):
TATGGGTTAAAAGTTAAGGCTTACCCTCC
Found at i:47858847 original size:54 final size:54
Alignment explanation
Indices: 47858786--47858893 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
47858776 GAGGGGGCGA
*
47858786 CATCCATTCTTAAAGCCATGTAACGAAGCTTGCAAGGAAACAAATAGAAGATGG
1 CATCCATTCTTAAAGCCATGTAACAAAGCTTGCAAGGAAACAAATAGAAGATGG
*
47858840 CATCCATTCTTAAAGCCATGTAACAAATCTTGCAAGGAAACAAATAGAAGATGG
1 CATCCATTCTTAAAGCCATGTAACAAAGCTTGCAAGGAAACAAATAGAAGATGG
47858894 GAGCTTAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (54 bp):
CATCCATTCTTAAAGCCATGTAACAAAGCTTGCAAGGAAACAAATAGAAGATGG
Found at i:47870122 original size:50 final size:50
Alignment explanation
Indices: 47870041--47870142 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 50
47870031 GAAATTCTAA
47870041 ATGCATTAAAAGAACCCTACTACAAACTTACTTGCATTGCTACTGAA-GTT
1 ATGCATTAAAAGAACCCTACTACAAACTTACTTGCATTGCTACT-AAGGTT
* * *
47870091 ATGCATTAAAAGAACCCTACTACAGATTTACTTGCATTGTTACTAAGGTT
1 ATGCATTAAAAGAACCCTACTACAAACTTACTTGCATTGCTACTAAGGTT
47870141 AT
1 AT
47870143 TCTACTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 2 0.04
50 46 0.96
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (50 bp):
ATGCATTAAAAGAACCCTACTACAAACTTACTTGCATTGCTACTAAGGTT
Found at i:47874099 original size:41 final size:41
Alignment explanation
Indices: 47873998--47874243 Score: 199
Period size: 41 Copynumber: 6.0 Consensus size: 41
47873988 AGAATAATGA
* ** * * * * *
47873998 TGAATTGCATATATGTGCCCCTGTTTATATTTTGATACCCA
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
** *
47874039 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
47874080 TGAGTTGCACATACATGCCCTTTTTTGTACTTCGGT-CCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
47874120 TAAATTTCATAGACATGCCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * * * * *
47874161 TAAATTACACATACATGCCCATATTTGTACTTTGATACCCT
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
47874202 TGAATTGCACAGACATGCCCCGGTTTCTACTTAC-GTACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTT-CGGTACCCC
47874243 T
1 T
47874244 AGATGTACTT
Statistics
Matches: 167, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
40 31 0.19
41 136 0.81
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:47877795 original size:33 final size:33
Alignment explanation
Indices: 47877753--47877816 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
47877743 TGAATAAGGA
47877753 ACGACATGCATGAATATGAATTGATTATGCTGG
1 ACGACATGCATGAATATGAATTGATTATGCTGG
47877786 ACGACATGCATGAATATGAATTGATTATGCT
1 ACGACATGCATGAATATGAATTGATTATGCT
47877817 ATGTTTAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (33 bp):
ACGACATGCATGAATATGAATTGATTATGCTGG
Found at i:47877959 original size:17 final size:15
Alignment explanation
Indices: 47877920--47877958 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
47877910 GGTGTTACAC
*
47877920 TGTGACTCAACTGTG
1 TGTGACACAACTGTG
47877935 TGTGACACAACTGTG
1 TGTGACACAACTGTG
47877950 TGTGACACA
1 TGTGACACA
47877959 CGGCCAGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (15 bp):
TGTGACACAACTGTG
Found at i:47881106 original size:12 final size:13
Alignment explanation
Indices: 47881089--47881117 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47881079 CTCATACATG
47881089 AATAAATAAA-GC
1 AATAAATAAATGC
47881101 AATAAATAAATGC
1 AATAAATAAATGC
47881114 AATA
1 AATA
47881118 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:47883005 original size:29 final size:29
Alignment explanation
Indices: 47882971--47883033 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
47882961 TACTTGACTA
47882971 AGGACTTTAAGAATAATCATATTATTCTT
1 AGGACTTTAAGAATAATCATATTATTCTT
47883000 AGGACTTTAAGAATAATCATATTATTCTT
1 AGGACTTTAAGAATAATCATATTATTCTT
47883029 AGGAC
1 AGGAC
47883034 ATTATTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (29 bp):
AGGACTTTAAGAATAATCATATTATTCTT
Found at i:47885992 original size:99 final size:99
Alignment explanation
Indices: 47885872--47886070 Score: 362
Period size: 99 Copynumber: 2.0 Consensus size: 99
47885862 CATGTATGGT
*
47885872 TTATCTTTAAACAAGAATCATTACTCCAAACAGAAAGTCATTTTGACGATGTTGCTATTCTATCT
1 TTATCTTTAAACAAGAATCATTACTCCAAACAGAAAGTCATTTTGACGATGTTGCTATTATATCT
*
47885937 TGTGGTTGGGGCTGCGTTAAAAAATGTTTTTGAC
66 TGTGGTTGGGGCTGCATTAAAAAATGTTTTTGAC
*
47885971 TTATCTTTAAACAAGAATCATTGCTCCAAACAGAAAGTCATTTTGACGATGTTGCTATTATATCT
1 TTATCTTTAAACAAGAATCATTACTCCAAACAGAAAGTCATTTTGACGATGTTGCTATTATATCT
*
47886036 TGTGGTTGGGGCTGCATTAAAGAATGTTTTTGAC
66 TGTGGTTGGGGCTGCATTAAAAAATGTTTTTGAC
47886070 T
1 T
47886071 GAGCAGCACC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (99 bp):
TTATCTTTAAACAAGAATCATTACTCCAAACAGAAAGTCATTTTGACGATGTTGCTATTATATCT
TGTGGTTGGGGCTGCATTAAAAAATGTTTTTGAC
Found at i:47900346 original size:19 final size:22
Alignment explanation
Indices: 47900297--47900350 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 22
47900287 ATATTATTAA
47900297 ATTAATTTTAAAATAATTATTT
1 ATTAATTTTAAAATAATTATTT
*
47900319 ATGAA--TTAAAA-AA-T-TTT
1 ATTAATTTTAAAATAATTATTT
47900336 ATTAATTTTAAAATA
1 ATTAATTTTAAAATA
47900351 GAATTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 7 0.26
18 1 0.04
19 8 0.30
20 7 0.26
22 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAATTTTAAAATAATTATTT
Found at i:47910908 original size:14 final size:15
Alignment explanation
Indices: 47910888--47910923 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
47910878 TTTACATGTA
47910888 ATTTTAAA-TGATTT
1 ATTTTAAATTGATTT
*
47910902 TTTTTAAATTGATTT
1 ATTTTAAATTGATTT
47910917 ATTTTAA
1 ATTTTAA
47910924 TTCGTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTAAATTGATTT
Found at i:47915599 original size:33 final size:34
Alignment explanation
Indices: 47915539--47915602 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
47915529 AAATAAGATA
* *
47915539 AAAAATAAAAGTATGTATATGTGTATATATTTAC
1 AAAAATAAAAGAATGTATATGTATATATATTTAC
47915573 AAAAATAAAA-AATGTAT-TAGTATATATATT
1 AAAAATAAAAGAATGTATAT-GTATATATATT
47915603 GGTAAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 1 0.04
33 16 0.59
34 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (34 bp):
AAAAATAAAAGAATGTATATGTATATATATTTAC
Found at i:47915663 original size:21 final size:22
Alignment explanation
Indices: 47915614--47915667 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
47915604 GTAAATCATG
**
47915614 AAAATATGTATATGTATATATTT
1 AAAATATGTATA-GTATATAAGT
47915637 AAAATATGTATA-TATATAAGT
1 AAAATATGTATAGTATATAAGT
*
47915658 ATAATATGTA
1 AAAATATGTA
47915668 CATAACAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 16 0.57
23 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
AAAATATGTATAGTATATAAGT
Found at i:47916069 original size:3 final size:3
Alignment explanation
Indices: 47916061--47916112 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
47916051 TGTGTATAGA
*
47916061 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
47916110 AAT
1 AAT
47916113 GATGCAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:47917935 original size:45 final size:45
Alignment explanation
Indices: 47917875--47918328 Score: 595
Period size: 45 Copynumber: 10.1 Consensus size: 45
47917865 GGAGATAAGG
* * *
47917875 CTGCTATCCTCGATCTACTTCGCTACCAATATAGGAAGATAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * * * *
47917920 CTGCTGTCTTTGATCTACTTCACTGCCAATACAGGAAAACAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * *
47917965 ATGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAG-T
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * *
47918009 CTGCTATTTTTGATCTACTTCGCTACTAGTATAGGAAGACAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* *
47918054 CTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * * *
47918099 CTGCTATCTTTGATCTACTTCGCTGCCGATACAGGAAGAAAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * *
47918144 CTGTTATCTTCGATCTACTTTGCTACCAATATAGGAAGACAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * * *
47918189 CTGCTATCTTTGATCTACTTCACTGCCAATATAGGAAGAAAAGAA
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
** * *
47918234 CTATTATCTTCGATCTACTTTGCTACCAATATAGGAAGACAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
* * *
47918279 CTGCTATCTTTGATCTACTTTGTTACCAATACAGGAAGACAAGAT
1 CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
47918324 CTGCT
1 CTGCT
47918329 GTTTTCAACC
Statistics
Matches: 348, Mismatches: 60, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
44 38 0.11
45 310 0.89
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (45 bp):
CTGCTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAT
Found at i:47924802 original size:37 final size:37
Alignment explanation
Indices: 47924752--47924830 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47924742 TTATTACGAA
* * *
47924752 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47924789 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47924826 GTCTT
1 GTCTT
47924831 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47925266 original size:49 final size:47
Alignment explanation
Indices: 47924949--47925419 Score: 624
Period size: 47 Copynumber: 10.1 Consensus size: 47
47924939 CCTTACGGGA
* * * * * * * *
47924949 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47924996 CTTGTCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47925043 CTTATCACATAGATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47925090 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47925137 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47925184 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47925231 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47925280 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47925328 -----C-C-T-TAT---CTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47925364 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47925413 CTTATCA
1 CTTATCA
47925420 TCATTTCATA
Statistics
Matches: 385, Mismatches: 23, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
35 29 0.08
38 3 0.01
39 1 0.00
41 1 0.00
42 2 0.01
43 1 0.00
45 1 0.00
46 3 0.01
47 223 0.58
49 121 0.31
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47925345 original size:35 final size:35
Alignment explanation
Indices: 47925299--47925369 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
47925289 TATATATACA
47925299 CTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTAT
47925334 CTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTAT
47925369 C
1 C
47925370 ACATATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (35 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:47925391 original size:84 final size:84
Alignment explanation
Indices: 47925250--47925418 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
47925240 TATATATACA
47925250 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
*
47925315 ATCGGCCATTAGGCCTTAT
66 ATCAGCCATTAGGCCTTAT
47925334 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
47925399 ATCAGCCATTAGGCCTTAT
66 ATCAGCCATTAGGCCTTAT
47925418 C
1 C
47925419 ATCATTTCAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (84 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
ATCAGCCATTAGGCCTTAT
Found at i:47934507 original size:33 final size:34
Alignment explanation
Indices: 47934447--47934510 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
47934437 AATAAGATAA
* *
47934447 AAAAATAAAAGTATGTATATGTGTATATATTTAC
1 AAAAATAAAAGAATGTATATGTATATATATTTAC
47934481 AAAAATAAAA-AATGTAT-TAGTATATATATT
1 AAAAATAAAAGAATGTATAT-GTATATATATT
47934511 GGTAAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 1 0.04
33 16 0.59
34 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (34 bp):
AAAAATAAAAGAATGTATATGTATATATATTTAC
Found at i:47934573 original size:23 final size:23
Alignment explanation
Indices: 47934522--47934573 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
47934512 GTAAATCATG
* **
47934522 AAAATACGTATATGTATATATTT
1 AAAATACGTATATATATATAAGT
47934545 AAAATACGTATATATATATAAGT
1 AAAATACGTATATATATATAAGT
*
47934568 ATAATA
1 AAAATA
47934574 TGTACATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (23 bp):
AAAATACGTATATATATATAAGT
Found at i:47934976 original size:3 final size:3
Alignment explanation
Indices: 47934968--47935043 Score: 73
Period size: 3 Copynumber: 24.3 Consensus size: 3
47934958 TGTGTATAGA
*
47934968 AAT AAT AAT GAT AAT AAT AAT AAT AAAT AAT AAAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT
* * *
47935014 AAT AAT GAT GCAAT AAC AAT ATT AAT AAT A
1 AAT AAT AAT --AAT AAT AAT AAT AAT AAT A
47935044 TAAAAAACTA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.03
3 50 0.83
4 6 0.10
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47934995 original size:25 final size:25
Alignment explanation
Indices: 47934968--47935018 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
47934958 TGTGTATAGA
*
47934968 AATAAT-AATGATAATAATAATAATA
1 AATAATAAATAATAAT-ATAATAATA
47934993 AATAATAAATAATAATATAATAATA
1 AATAATAAATAATAATATAATAATA
47935018 A
1 A
47935019 TGATGCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AATAATAAATAATAATATAATAATA
Found at i:47935028 original size:14 final size:11
Alignment explanation
Indices: 47934968--47935046 Score: 69
Period size: 11 Copynumber: 7.2 Consensus size: 11
47934958 TGTGTATAGA
47934968 AATAATAATGAT
1 AATAATAAT-AT
47934980 AATAAT-A-AT
1 AATAATAATAT
47934989 AATAAATAATA-
1 AAT-AATAATAT
47935000 AATAATAATAT
1 AATAATAATAT
47935011 AATAATAATGAT
1 AATAATAAT-AT
*
47935023 GCAATAACAATAT
1 --AATAATAATAT
47935036 --TAATAATAT
1 AATAATAATAT
47935045 AA
1 AA
47935047 AAAACTAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 19
0.73 0.03 0.25
Matches are distributed among these distances:
9 13 0.23
10 10 0.18
11 14 0.25
12 9 0.16
13 2 0.04
14 8 0.14
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (11 bp):
AATAATAATAT
Found at i:47945071 original size:44 final size:45
Alignment explanation
Indices: 47945011--47945133 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 45
47945001 AGAGTAGATC
* * * *
47945011 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAG
1 ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAG
* *
47945056 TTA-C-AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAG
1 ATAGCGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
*
47945100 ATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGA
1 ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGA
47945134 ACTGATAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.03
44 34 0.52
45 28 0.42
46 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
Found at i:47945095 original size:181 final size:181
Alignment explanation
Indices: 47944886--47945264 Score: 487
Period size: 181 Copynumber: 2.1 Consensus size: 181
47944876 GTGAAGTTTG
* * *
47944886 ATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATGTTATTCCCCTGAAGTGGCAGCG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATTCCCCTGAAGTGGCAGCG
* * * *
47944951 GAA-TAGGTTAG-AGCTATAAATTGCAGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCATA
66 GAACT--GATAGAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATA
* * * * ** *
47945014 GCAAACCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAGTTA-CAAGTCTT
129 GCAAACCTTATATCCATAAAGTTGCAGTGGAGCAGA-TTGAAGAAACCAA-TCCT
* * * *
47945067 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATTCCCCTGAAGTGGCAGCG
* ** * *
47945132 GAACTGATAGAAGCTATAAATTATAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATATC
66 GAACTGATAGAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATAGC
47945197 AAACCTTATATCCATAAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCT
131 AAACCTTATATCCATAAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCT
47945248 ATCTCCCTGAAGTTGCA
1 ATCTCCCTGAAGTTGCA
47945265 ATGGAGTGAA
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
180 4 0.02
181 162 0.95
182 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (181 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATTCCCCTGAAGTGGCAGCG
GAACTGATAGAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATAGC
AAACCTTATATCCATAAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCT
Found at i:47945317 original size:129 final size:136
Alignment explanation
Indices: 47945076--47945334 Score: 325
Period size: 129 Copynumber: 1.9 Consensus size: 136
47945066 TATCTCCCTG
* * * * *
47945076 AAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACTGATA
1 AAGTTGCAGTAGAGCAGACTGAAGATAACCAATCCTATCTCCCTGAAGTTGCAATGGAAC-GATA
* * * *
47945141 GAAGCTATAAATTATAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATATCAAACCTTAT
65 GAAGCTATAAATGATAGATCTTATCTCTCTAAAGTTGCAATAGAGCAGATCACATCAAACCTTAT
47945206 ATCCATA
130 ATCCATA
* *
47945213 AAGTTGCAGTGGAGCAGATTGAAGA-AACCAATCCTATCTCCCTGAAGTTGCAATGG-A-G-T-G
1 AAGTTGCAGTAGAGCAGACTGAAGATAACCAATCCTATCTCCCTGAAGTTGCAATGGAACGATAG
* * * *
47945273 AA-TTA-AAATGATGGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCAGACCTTAT
66 AAGCTATAAATGATAGATCTTATCTCTCTAAAGTTGCAATAGAGCAGATCACATCAAACCTTAT
47945335 TTCCTTGAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
129 50 0.47
130 2 0.02
131 3 0.03
132 1 0.01
133 1 0.01
135 1 0.01
136 26 0.24
137 23 0.21
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (136 bp):
AAGTTGCAGTAGAGCAGACTGAAGATAACCAATCCTATCTCCCTGAAGTTGCAATGGAACGATAG
AAGCTATAAATGATAGATCTTATCTCTCTAAAGTTGCAATAGAGCAGATCACATCAAACCTTATA
TCCATA
Found at i:47946934 original size:24 final size:24
Alignment explanation
Indices: 47946897--47947097 Score: 94
Period size: 24 Copynumber: 8.5 Consensus size: 24
47946887 TTATCAATAC
47946897 TATTTT-AATATTATAATATATTAT
1 TATTTTAAAT-TTATAATATATTAT
* * **
47946921 TATTCTAAATTTATCAT-TAACAT
1 TATTTTAAATTTATAATATATTAT
** * * *
47946944 TATTTTAGGTTTATCATGTATTTT
1 TATTTTAAATTTATAATATATTAT
*
47946968 TA-TTTAAAGTTA-ACATATATTAT
1 TATTTTAAATTTATA-ATATATTAT
* *
47946991 TATTTTGAATTTATCACGTATTATTAT
1 TATTTTAAATTTAT-A-ATA-TATTAT
* * *
47947018 TTTTTTAAA-TTATCATA-A-AAT
1 TATTTTAAATTTATAATATATTAT
* *
47947039 T-TTTTAAATTTATGATGTATTAT
1 TATTTTAAATTTATAATATATTAT
** * *
47947062 TATTCCAAATTTATTATATATTGTT
1 TATTTTAAATTTATAATATATT-AT
*
47947087 TATTGTAAATT
1 TATTTTAAATT
47947098 ACTCTTTCAT
Statistics
Matches: 131, Mismatches: 34, Indels: 23
0.70 0.18 0.12
Matches are distributed among these distances:
20 7 0.05
21 9 0.07
22 2 0.02
23 37 0.28
24 42 0.32
25 13 0.10
26 8 0.06
27 13 0.10
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTTTAAATTTATAATATATTAT
Found at i:47946948 original size:47 final size:46
Alignment explanation
Indices: 47946897--47947075 Score: 123
Period size: 47 Copynumber: 3.8 Consensus size: 46
47946887 TTATCAATAC
*
47946897 TATTTTAATATTATAATATATTATTATTCTAAATTTATCATTAACAT
1 TATTTTAAT-TTATAATATATTATTATTCTAAATTTATCATTAAAAT
* * * * * * **
47946944 TATTTTAGGTTTATCATGTATTTTTATT-TAAAGTTAACATATATTAT
1 TATTTTA-ATTTATAATATATTATTATTCTAAATTTATCAT-TAAAAT
* * *
47946991 TATTTTGAATTTATCACGTATTATTATTTTTTTAAA-TTATCA-TAAAAT
1 TATTTT-AATTTAT-A-ATA-TATTATTATTCTAAATTTATCATTAAAAT
* * *
47947039 T-TTTTAAATTTATGATGTATTATTATTCCAAATTTAT
1 TATTTT-AATTTATAATATATTATTATTCTAAATTTAT
47947076 TATATATTGT
Statistics
Matches: 100, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
44 12 0.12
45 5 0.05
46 10 0.10
47 48 0.48
48 7 0.07
49 1 0.01
50 13 0.13
51 4 0.04
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (46 bp):
TATTTTAATTTATAATATATTATTATTCTAAATTTATCATTAAAAT
Found at i:47948276 original size:23 final size:25
Alignment explanation
Indices: 47948234--47948279 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
47948224 ATATCGGTGG
*
47948234 CGACTCTAATTTTTATTTTTTAAGT
1 CGACTCTAATTTTTAGTTTTTAAGT
47948259 CGACTCT-ATTTTT-GTTTTTAA
1 CGACTCTAATTTTTAGTTTTTAA
47948280 AAAGTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.57
Consensus pattern (25 bp):
CGACTCTAATTTTTAGTTTTTAAGT
Found at i:47953727 original size:101 final size:101
Alignment explanation
Indices: 47953551--47953751 Score: 357
Period size: 101 Copynumber: 2.0 Consensus size: 101
47953541 CTTGATAAAT
*
47953551 AAAAAATCGAACATGGTGGTAAGGATCATCGAAGATTATGAACGACGCCAAAAATATCTAATATA
1 AAAAAATCGAACATGGTGGTAAGGATCATCAAAGATTATGAACGACGCCAAAAATATCTAATATA
*
47953616 TCACACAAGTAGAGACAATGAATAGATTTAAGTTAC
66 TCACAAAAGTAGAGACAATGAATAGATTTAAGTTAC
* **
47953652 AAAAAATTGAACATGGTGGTAAGGATCATCAAAGATTATGAGTGACGCCAAAAATATCTAATATA
1 AAAAAATCGAACATGGTGGTAAGGATCATCAAAGATTATGAACGACGCCAAAAATATCTAATATA
47953717 TCACAAAAGTAGAGACAATGAATAGATTTAAGTTA
66 TCACAAAAGTAGAGACAATGAATAGATTTAAGTTA
47953752 TAAACATAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAAATCGAACATGGTGGTAAGGATCATCAAAGATTATGAACGACGCCAAAAATATCTAATATA
TCACAAAAGTAGAGACAATGAATAGATTTAAGTTAC
Found at i:47953787 original size:101 final size:99
Alignment explanation
Indices: 47953567--47953772 Score: 268
Period size: 101 Copynumber: 2.0 Consensus size: 99
47953557 TCGAACATGG
* *
47953567 TGGTAAGGATCATCGAAGATTATGAACGACGCCAAAAATATCTAATATATCACACAAGTAGAGAC
1 TGGTAAGGA-CA-CAAAGATTATGAACGACGCCAAAAATATCTAATATATCACAAAAGTAGAGAC
* ** * *
47953632 AATGAATAGATTTAAGTTACAAAAAATTGAACATGG
64 AATGAATAGATTTAAGTTAAAAAAAATAAAAAATGA
**
47953668 TGGTAAGGATCATCAAAGATTATGAGTGACGCCAAAAATATCTAATATATCACAAAAGTAGAGAC
1 TGGTAAGGA-CA-CAAAGATTATGAACGACGCCAAAAATATCTAATATATCACAAAAGTAGAGAC
47953733 AATGAATAGATTTAAGTTATAAACATAAATAAAAAATGA
64 AATGAATAGATTTAAGTTA-AAA-A-AAATAAAAAATGA
47953772 T
1 T
47953773 ATGTGAAGAA
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
101 80 0.86
102 2 0.02
103 1 0.01
104 10 0.11
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.25
Consensus pattern (99 bp):
TGGTAAGGACACAAAGATTATGAACGACGCCAAAAATATCTAATATATCACAAAAGTAGAGACAA
TGAATAGATTTAAGTTAAAAAAAATAAAAAATGA
Found at i:47973454 original size:20 final size:20
Alignment explanation
Indices: 47973431--47973482 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
47973421 AATCAAGTGC
47973431 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
*
47973451 AAATGATTTTAACCAAGTTA
1 AAATGATTTTAACCAAGTCA
*
47973471 AAATCATTTTAA
1 AAATGATTTTAA
47973483 AGTGATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:47975711 original size:16 final size:16
Alignment explanation
Indices: 47975690--47975723 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47975680 TGATTAGACC
47975690 ATACACCATTCACACT
1 ATACACCATTCACACT
*
47975706 ATACACCATTCACGCT
1 ATACACCATTCACACT
47975722 AT
1 AT
47975724 GCCGCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (16 bp):
ATACACCATTCACACT
Found at i:47976523 original size:17 final size:18
Alignment explanation
Indices: 47976476--47976526 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
47976466 TAAAGATTTT
47976476 GGATGTTAT-AATTT-AG
1 GGATGTTATGAATTTGAG
*
47976492 GGATGTTATGGATTTGAG
1 GGATGTTATGAATTTGAG
*
47976510 GGATTTTA-GAATTTGAG
1 GGATGTTATGAATTTGAG
47976527 AAAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 9 0.30
17 12 0.40
18 9 0.30
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.41
Consensus pattern (18 bp):
GGATGTTATGAATTTGAG
Found at i:47980652 original size:18 final size:17
Alignment explanation
Indices: 47980624--47980686 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 17
47980614 TTGATACATA
47980624 TTTTATTATTTAATTT-C
1 TTTTATTATTT-ATTTAC
47980641 TTTTATTTATTTATTTAC
1 TTTTA-TTATTTATTTAC
*
47980659 TTTT-CT-TTTATTT-C
1 TTTTATTATTTATTTAC
*
47980673 CTTTATTA-TTATTT
1 TTTTATTATTTATTT
47980687 TTAGTATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.10
15 14 0.36
16 1 0.03
17 9 0.23
18 11 0.28
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTATTTAC
Found at i:47980667 original size:23 final size:21
Alignment explanation
Indices: 47980625--47980671 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
47980615 TGATACATAT
47980625 TTTATTATTTAATTTCTTTTA
1 TTTATTATTTAATTTCTTTTA
*
47980646 TTTATTTATTTACTTTTCTTTTA
1 TTTA-TTATTTA-ATTTCTTTTA
47980669 TTT
1 TTT
47980672 CCTTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTATTATTTAATTTCTTTTA
Found at i:48007168 original size:35 final size:35
Alignment explanation
Indices: 48007122--48007193 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
48007112 GTCTTACTCA
48007122 TCATACCTTGTTGTCATAGAATATTTCATCTATGG
1 TCATACCTTGTTGTCATAGAATATTTCATCTATGG
* *
48007157 TCATACCTTGTTGTCATAGCATCTTTCATCTATGG
1 TCATACCTTGTTGTCATAGAATATTTCATCTATGG
48007192 TC
1 TC
48007194 TAACATCGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (35 bp):
TCATACCTTGTTGTCATAGAATATTTCATCTATGG
Found at i:48009267 original size:19 final size:19
Alignment explanation
Indices: 48009243--48009279 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48009233 TAATTTAGCC
48009243 ATATTTATTT-TTTAATTTA
1 ATATTT-TTTATTTAATTTA
48009262 ATATTTTTTATTTAATTT
1 ATATTTTTTATTTAATTT
48009280 TTACATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATATTTTTTATTTAATTTA
Found at i:48009268 original size:14 final size:13
Alignment explanation
Indices: 48009245--48009296 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
48009235 ATTTAGCCAT
48009245 ATTT-ATTTTTTA
1 ATTTAATTTTTTA
*
48009257 ATTTAATATTTTTT
1 ATTTAAT-TTTTTA
48009271 ATTTAA-TTTTTA
1 ATTTAATTTTTTA
48009283 CATTCTAATTTTTT
1 -ATT-TAATTTTTT
48009297 TGTTTGATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 9 0.27
13 5 0.15
14 14 0.42
15 5 0.15
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTAATTTTTTA
Found at i:48009268 original size:15 final size:14
Alignment explanation
Indices: 48009248--48009281 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
48009238 TAGCCATATT
48009248 TATTTTTTAATTTAA
1 TATTTTTT-ATTTAA
48009263 TATTTTTTATTTAA
1 TATTTTTTATTTAA
48009277 T-TTTT
1 TATTTT
48009282 ACATTCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 7 0.37
15 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTTATTTAA
Found at i:48009274 original size:26 final size:27
Alignment explanation
Indices: 48009244--48009297 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
48009234 AATTTAGCCA
*
48009244 TATTTATTTTTTA-ATT-TAATATTTTT
1 TATTTAATTTTTACATTCTAAT-TTTTT
48009270 TATTTAATTTTTACATTCTAATTTTTT
1 TATTTAATTTTTACATTCTAATTTTTT
48009297 T
1 T
48009298 GTTTGATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 12 0.48
27 9 0.36
28 4 0.16
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (27 bp):
TATTTAATTTTTACATTCTAATTTTTT
Found at i:48020217 original size:19 final size:20
Alignment explanation
Indices: 48020193--48020233 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48020183 ATGTAATTTG
48020193 TTAAGA-ATAAATTTTCTAA
1 TTAAGACATAAATTTTCTAA
* *
48020212 TTAAGACATAATTTTTTTAA
1 TTAAGACATAAATTTTCTAA
48020232 TT
1 TT
48020234 TCATTTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAGACATAAATTTTCTAA
Found at i:48023007 original size:18 final size:19
Alignment explanation
Indices: 48022984--48023022 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48022974 GGGGTGTTCC
48022984 AAAGGTTCAATTA-AAGAA
1 AAAGGTTCAATTACAAGAA
**
48023002 AAAGGTTGTATTACAAGAA
1 AAAGGTTCAATTACAAGAA
48023021 AA
1 AA
48023023 CTAAGACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.54, C:0.05, G:0.18, T:0.23
Consensus pattern (19 bp):
AAAGGTTCAATTACAAGAA
Found at i:48027942 original size:27 final size:27
Alignment explanation
Indices: 48027902--48028096 Score: 255
Period size: 27 Copynumber: 7.1 Consensus size: 27
48027892 AGAGGTCAAT
* *
48027902 AAATGACTGGAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
48027929 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
48027956 AAATAACTGAAATACCCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCCATAGGGTA
*
48027984 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
48028011 AAATGATCGAAATGCCCCCTATAGGGTA
1 AAATGACCGAAATACCCCC-ATAGGGTA
* *
48028039 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
48028066 AAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
48028093 AAAT
1 AAAT
48028097 TATTATTATA
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
27 101 0.67
28 49 0.33
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:48027986 original size:55 final size:54
Alignment explanation
Indices: 48027902--48028096 Score: 266
Period size: 55 Copynumber: 3.6 Consensus size: 54
48027892 AGAGGTCAAT
* *
48027902 AAATGACTGGAATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTA
* * *
48027956 AAATAACTGAAATACCCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTA
1 AAATGACTGAAATA-CCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTA
* *
48028011 AAATGA-TCGAAATGCCCCCTATAGGGTAAAATGATCGAAATACCCCTATAGGGTA
1 AAATGACT-GAAATACCCCC-ATAGGGTAAAATGATCGAAATACCCCCATAGGGTA
** *
48028066 AAATGACCAAAATACCCCCATAAGGTAAAAT
1 AAATGACTGAAATACCCCCATAGGGTAAAAT
48028097 TATTATTATA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
54 29 0.24
55 94 0.76
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATGACTGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTA
Found at i:48028062 original size:82 final size:82
Alignment explanation
Indices: 48027912--48028096 Score: 293
Period size: 82 Copynumber: 2.3 Consensus size: 82
48027902 AAATGACTGG
*
48027912 AATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCCA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCCA
48027977 TAGGGTAAAATGACCAA
66 TAGGGTAAAATGACCAA
* *
48027994 AATACCCCCATAGGGTAAAATGATCGAAATGCCCCCTATAGGGTAAAATGA-TCGAAATA-CCCC
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCC-ATAGGGTAAAATAACT-GAAATACCCCC
*
48028057 TATAGGGTAAAATGACCAA
64 CATAGGGTAAAATGACCAA
*
48028076 AATACCCCCATAAGGTAAAAT
1 AATACCCCCATAGGGTAAAAT
48028097 TATTATTATA
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
82 77 0.80
83 19 0.20
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (82 bp):
AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCCA
TAGGGTAAAATGACCAA
Found at i:48031008 original size:20 final size:19
Alignment explanation
Indices: 48030973--48031010 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48030963 CATTTGTTAT
48030973 TATTATTTTATTATTTTAA
1 TATTATTTTATTATTTTAA
*
48030992 TATTATCTTTTTTATTTTA
1 TATTAT-TTTATTATTTTA
48031011 TTTTATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTATTTTATTATTTTAA
Found at i:48031016 original size:19 final size:18
Alignment explanation
Indices: 48030969--48031023 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
48030959 TGTTCATTTG
*
48030969 TTATTATTATTTTATTATT
1 TTATT-TTATTTTTTTATT
*
48030988 TTAATATTATCTTTTTTATT
1 TT-ATTTTAT-TTTTTTATT
48031008 TTATTTTATTTGTTTT
1 TTATTTTATTT-TTTT
48031024 TATATTGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.07
19 16 0.53
20 12 0.40
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTATTTTATTTTTTTATT
Found at i:48033665 original size:8 final size:8
Alignment explanation
Indices: 48033652--48033677 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48033642 ACAAACGAGC
48033652 GAAAATTG
1 GAAAATTG
48033660 GAAAATTG
1 GAAAATTG
48033668 GAAAATTG
1 GAAAATTG
48033676 GA
1 GA
48033678 GTAAGGTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (8 bp):
GAAAATTG
Found at i:48037949 original size:11 final size:13
Alignment explanation
Indices: 48037929--48037960 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
48037919 AATAAATTAA
48037929 TAAAATATCAT-T
1 TAAAATATCATAT
48037941 TAAAA-ATCATAT
1 TAAAATATCATAT
48037953 TAAAATAT
1 TAAAATAT
48037961 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:48038936 original size:11 final size:13
Alignment explanation
Indices: 48038912--48038943 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
48038902 TAGTTTATTA
48038912 ATATTTTAATATG
1 ATATTTTAATATG
48038925 AT-TTTTAA-ATG
1 ATATTTTAATATG
48038936 ATATTTTA
1 ATATTTTA
48038944 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:48040442 original size:2 final size:2
Alignment explanation
Indices: 48040431--48040459 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48040421 TTGGTAATGA
48040431 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48040460 GTGTGTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:48061620 original size:46 final size:45
Alignment explanation
Indices: 48061539--48062046 Score: 280
Period size: 44 Copynumber: 11.6 Consensus size: 45
48061529 TAATACAGGA
** * *
48061539 CTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGAT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA-TTCAGAT
* * *
48061585 CTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-A-AT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATTCAGAT
* * * **
48061629 CCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-AATAAAGGAT
1 CTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCA-GAT
* * * * *
48061673 CTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA-TCAGGT
1 CTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCAGAT
* *
48061714 CTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGAT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT-CAGAT
* * *
48061760 CTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A-AT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-TCAGAT
* * * **
48061803 CCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-AATAAAGGAT
1 CTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCA-GAT
* * * * *
48061847 CTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA-TCAGGT
1 CTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCAGAT
* * * *
48061888 CTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGAT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT-CAGAT
* * * * *
48061934 CTTATCCCCCTGA-AGTTACAGTGGAGCAGATTGAAGCCA--GAGAC
1 CTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAG-AATTCAGAT
* * *
48061978 CTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAG-A--CACTAT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTCA-GAT
*
48062021 CCTATCTCCCTGA-AGTTACAGTGGAG
1 CTTATCTCCCTGAGA-TTACAGTGGAG
48062047 TGGGTTAAAA
Statistics
Matches: 358, Mismatches: 72, Indels: 67
0.72 0.14 0.13
Matches are distributed among these distances:
41 58 0.16
42 13 0.04
43 54 0.15
44 122 0.34
45 6 0.02
46 103 0.29
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTCAGAT
Found at i:48061866 original size:174 final size:175
Alignment explanation
Indices: 48061534--48061969 Score: 739
Period size: 174 Copynumber: 2.5 Consensus size: 175
48061524 GTTCATAATA
* * *
48061534 CAGGACTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
* *
48061599 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
48061664 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* *
48061709 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTGTCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
48061774 GTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
48061838 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * * *
48061883 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
* *
48061948 GTTACAGTGGAGCAGATTGAAG
66 GTTACAGCGGAGCAGATCGAAG
48061970 CCAGAGACCT
Statistics
Matches: 245, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
174 162 0.66
175 83 0.34
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (175 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
GTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:48061935 original size:87 final size:87
Alignment explanation
Indices: 48061534--48062042 Score: 335
Period size: 87 Copynumber: 5.8 Consensus size: 87
48061524 GTTCATAATA
* * ** * *
48061534 CAGGACTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGATCTTATCTCCCTG-A
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAA
**
48061598 GATTACAGCGGAGCAGATCAAAG-AT
66 G-TTACAGTAGAGCAGATC---GCAT
* * * * ** ** *
48061623 -AGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCT
1 CAG--GTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCA-GATCTTATCTCCCT
*
48061684 GAAGTTACAGTAGAGTAGATCGCAT
63 GAAGTTACAGTAGAGCAGATCGCAT
* * * *
48061709 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTGTCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAA
** *
48061774 GTTACAGCGGAGCAGATCGAAGAT
66 GTTACAGTAGAGCAGATCG--CAT
** * * * ** ** *
48061798 -ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCTG
1 CA-GGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCA-GATCTTATCTCCCTG
*
48061859 AAGTTACAGTAGAGTAGATCGCAT
64 AAGTTACAGTAGAGCAGATCGCAT
* * *
48061883 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAA
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAA
* * * *
48061948 GTTACAGTGGAGCAGATTGAAGC
66 GTTACAGTAGAGCAGATCGCA-T
* * * * * * *
48061971 CAGAGACCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAG-A---CACTATCCTATCTCCCT
1 CAG-G-TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCA-GATCTTATCTCCCT
48062032 GAAGTTACAGT
63 GAAGTTACAGT
48062043 GGAGTGGGTT
Statistics
Matches: 320, Mismatches: 79, Indels: 44
0.72 0.18 0.10
Matches are distributed among these distances:
85 55 0.17
86 11 0.03
87 124 0.39
88 42 0.13
89 34 0.11
90 54 0.17
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAA
GTTACAGTAGAGCAGATCGCAT
Found at i:48070640 original size:9 final size:9
Alignment explanation
Indices: 48070626--48070654 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
48070616 GAGGGAAGGC
48070626 TCATAGAGT
1 TCATAGAGT
48070635 TCATAGAGT
1 TCATAGAGT
48070644 TCATAGAGT
1 TCATAGAGT
48070653 TC
1 TC
48070655 GTGAATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (9 bp):
TCATAGAGT
Found at i:48079527 original size:135 final size:138
Alignment explanation
Indices: 48079281--48079544 Score: 327
Period size: 135 Copynumber: 1.9 Consensus size: 138
48079271 ATAGGCCTAT
* * ** * *
48079281 TCACACAAGCTGACGGTCGGAATGTAAGCTACACGATGTTGCTCACACAAGTTTATGAGTATCCA
1 TCACACAAGCTGAAGGTCGGAATGTAAGCTACACAATGCCGCTCACACAAGTTGACGAGTATCCA
* * * * * ** * * **
48079346 TAGCTAATGCTAGACCTTAGCCATCGGTAGGACATTCAGGACCAGCACCTGAAACATGGTAACCT
66 CAACTAATGCCAGAACTCAAACATCAGTAGGACATTCAGGAACAGCACCCAAAACATGGTAACCT
48079411 GGGACTGC
131 GGGACTGC
* *
48079419 TCACACAAGCTGAAGGTCGGAATGT-AGCTACACAATGCCG-T-ACATAAGTTGACGAGTATCCG
1 TCACACAAGCTGAAGGTCGGAATGTAAGCTACACAATGCCGCTCACACAAGTTGACGAGTATCCA
*
48079481 CAACTAATGCCGGAACTCAAACATCAGTAGGACATTCAGGAACAGCACCCAAAACATGGTAACC
66 CAACTAATGCCAGAACTCAAACATCAGTAGGACATTCAGGAACAGCACCCAAAACATGGTAACC
48079545 CTAATGACAT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
135 69 0.65
136 1 0.01
137 12 0.11
138 24 0.23
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (138 bp):
TCACACAAGCTGAAGGTCGGAATGTAAGCTACACAATGCCGCTCACACAAGTTGACGAGTATCCA
CAACTAATGCCAGAACTCAAACATCAGTAGGACATTCAGGAACAGCACCCAAAACATGGTAACCT
GGGACTGC
Found at i:48082269 original size:15 final size:15
Alignment explanation
Indices: 48082237--48082275 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
48082227 AACAATAAGA
48082237 AAGATAAT-AAAACC
1 AAGATAATGAAAACC
*
48082251 AAGATAATGAAATCC
1 AAGATAATGAAAACC
48082266 AAGAT-ATGAA
1 AAGATAATGAA
48082276 GCTCTACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.18
Consensus pattern (15 bp):
AAGATAATGAAAACC
Found at i:48086094 original size:26 final size:26
Alignment explanation
Indices: 48086054--48086103 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
48086044 ACCAATATCG
* * *
48086054 CAACAAGGCTGCCAGTAATAGTATTA
1 CAACAAAGCTACCAGTAACAGTATTA
48086080 CAACAAAGCTACCAGTAACAGTAT
1 CAACAAAGCTACCAGTAACAGTAT
48086104 CGTAGGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (26 bp):
CAACAAAGCTACCAGTAACAGTATTA
Found at i:48090883 original size:13 final size:13
Alignment explanation
Indices: 48090865--48090895 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
48090855 ATATAGGACC
48090865 AGCACCTTTGCCT
1 AGCACCTTTGCCT
48090878 AGCACCTTTGCCT
1 AGCACCTTTGCCT
48090891 AGCAC
1 AGCAC
48090896 TCCACGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.39, G:0.16, T:0.26
Consensus pattern (13 bp):
AGCACCTTTGCCT
Found at i:48104048 original size:137 final size:138
Alignment explanation
Indices: 48103790--48104049 Score: 344
Period size: 137 Copynumber: 1.9 Consensus size: 138
48103780 AGCTGTAAAA
* * ** * *
48103790 TGGGTCTGTTCACACAAGCTGACAGTCAGAATGTAAGCTACACGATGCTGCTCACCCAATTTGAT
1 TGGGACTGCTCACACAAGCTGACAGTCAGAATGTAAGCTACACGACACCGCTCACCCAAGTTGAT
* * * * *
48103855 GAGTATTCGCAACTAATGTTGGACCCCAGCCATCAGTAGGACATTCAGGACTAGCACCTGGAATA
66 AAGTATTCGCAACTAATGTCGGAACCCAACCATCAGTAGGACATTCAGGACAAGCACCTGGAATA
48103920 TGGTCACT
131 TGGTCACT
** * *
48103928 TGGGACTGCTCACACAAGCTGATGGTCGGAATGT-AGCTACACGACACCGCTCACGCAAGTTGAT
1 TGGGACTGCTCACACAAGCTGACAGTCAGAATGTAAGCTACACGACACCGCTCACCCAAGTTGAT
* *
48103992 AAGTATTTGCAACTAATGTCGGAACTCAACCAAT-AGTAGGACATTCAGGACAAGCACC
66 AAGTATTCGCAACTAATGTCGGAACCCAACC-ATCAGTAGGACATTCAGGACAAGCACC
48104050 CAAAACATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 73 0.70
138 31 0.30
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (138 bp):
TGGGACTGCTCACACAAGCTGACAGTCAGAATGTAAGCTACACGACACCGCTCACCCAAGTTGAT
AAGTATTCGCAACTAATGTCGGAACCCAACCATCAGTAGGACATTCAGGACAAGCACCTGGAATA
TGGTCACT
Found at i:48110297 original size:20 final size:20
Alignment explanation
Indices: 48110262--48110310 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
48110252 ATCATGGTCT
*
48110262 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
48110281 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
48110301 TTGCTTACTT
1 TTGCTTACTT
48110311 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:48110641 original size:50 final size:50
Alignment explanation
Indices: 48110520--48110753 Score: 211
Period size: 50 Copynumber: 4.6 Consensus size: 50
48110510 CATGCCAAAC
** * * *
48110520 CCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--TGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCAATG
* * * * ** *
48110569 TCATATCCCAGATATGTTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
* ** *
48110619 CCATGTCCCAGACATGGCCTTACGGGGGACCTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
* **
48110669 CCATGTCGCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAATG
*
48110725 CCATGTCCCAAACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
48110754 TCTCATTCCC
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 30 0.20
50 79 0.54
53 2 0.01
56 35 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
Found at i:48113066 original size:26 final size:26
Alignment explanation
Indices: 48113037--48113100 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
48113027 TATATATAGT
*
48113037 TGCTTACACGAGCTGTGAAATAGGTA
1 TGCTTACACAAGCTGTGAAATAGGTA
* * *
48113063 TGCTCACACAAGCTGTGAAATGGGTC
1 TGCTTACACAAGCTGTGAAATAGGTA
48113089 TGCTTACACAAG
1 TGCTTACACAAG
48113101 TTGTAGGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (26 bp):
TGCTTACACAAGCTGTGAAATAGGTA
Found at i:48118137 original size:24 final size:24
Alignment explanation
Indices: 48118110--48118156 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48118100 AGGGTAAATT
48118110 ATTGATTTGTCTATGATTGGTATG
1 ATTGATTTGTCTATGATTGGTATG
* * *
48118134 ATTGCTTTGTCTGTGATTTGTAT
1 ATTGATTTGTCTATGATTGGTAT
48118157 CACTGATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.06, G:0.23, T:0.53
Consensus pattern (24 bp):
ATTGATTTGTCTATGATTGGTATG
Found at i:48118344 original size:32 final size:32
Alignment explanation
Indices: 48118303--48118633 Score: 404
Period size: 32 Copynumber: 10.4 Consensus size: 32
48118293 GCTGCAATGC
* *
48118303 TACTGATGGCTTCGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
48118335 TACTGATGGCTTTGTACCGATCATTTTA-TCAT
1 TACTGATGGCTTTGTGCCGATCATATTACT-GT
*
48118367 TACTGATGGCTTTGTGCCGATCATTTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
48118399 TACTGATGGCTTTGTG-CGCATCATATTACCGT
1 TACTGATGGCTTTGTGCCG-ATCATATTACTGT
* **
48118431 TACTGATGG-TTGTGTGCCGATCATATCACTAC
1 TACTGATGGCTT-TGTGCCGATCATATTACTGT
* *
48118463 TACTGATGGCTTTGTTCTGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
48118495 TACTGCTGGCTTTGTGCCGATCATATTACTAT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
48118527 TACTGATGGCTTTGTGCCTG-TCATATTA-TCGT
1 TACTGATGGCTTTGTGCC-GATCATATTACT-GT
* * *
48118559 TACTGATGGCTGTGTGCCAATCATATCACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
48118591 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
48118622 TACTTATGGCTT
1 TACTGATGGCTT
48118634 GTTGCCATTT
Statistics
Matches: 259, Mismatches: 30, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
31 16 0.06
32 236 0.91
33 7 0.03
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Done.