Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 123 of 204
Found at i:38251325 original size:19 final size:18
Alignment explanation
Indices: 38251299--38251334 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
38251289 TTTATATTTT
*
38251299 AAAATTATTTTTAATAAA
1 AAAATTATATTTAATAAA
38251317 AAAATTTATATTTAATAA
1 AAAA-TTATATTTAATAA
38251335 TTATCTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTATATTTAATAAA
Found at i:38253703 original size:49 final size:49
Alignment explanation
Indices: 38253553--38253704 Score: 171
Period size: 49 Copynumber: 3.1 Consensus size: 49
38253543 AAGCTAGCCC
* *
38253553 GTGTTGTCCACACGGTCTACCCACATGGTTTGCACGATTTCACACAGTT
1 GTGTGGTCCACACGGTCTACCCACATGGTCTGCACGATTTCACACAGTT
* * * * **
38253602 GTGTGGTCTACACGGGC-ACCCACACGGTCTGCACGATTTCAAACAGCC
1 GTGTGGTCCACACGGTCTACCCACATGGTCTGCACGATTTCACACAGTT
* * * * * *
38253650 GTGTGGTCCACATGGTTTACCTACATGGTCTGTATGATTTCACACGGTT
1 GTGTGGTCCACACGGTCTACCCACATGGTCTGCACGATTTCACACAGTT
38253699 GTGTGG
1 GTGTGG
38253705 CACTGGGCAG
Statistics
Matches: 82, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
48 39 0.48
49 43 0.52
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (49 bp):
GTGTGGTCCACACGGTCTACCCACATGGTCTGCACGATTTCACACAGTT
Found at i:38260804 original size:36 final size:36
Alignment explanation
Indices: 38260760--38260831 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
38260750 AGCATAACTT
*
38260760 CACATCTTGGATTTCATTATCTC-AGTTTTCTTATCA
1 CACATCTTGGATTTCATTATCTCGA-TTTTCATATCA
38260796 CACATCTTGGATTTCATTATCTCGATTTTCATATCA
1 CACATCTTGGATTTCATTATCTCGATTTTCATATCA
38260832 TTCTTATTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (36 bp):
CACATCTTGGATTTCATTATCTCGATTTTCATATCA
Found at i:38261978 original size:13 final size:13
Alignment explanation
Indices: 38261960--38261985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38261950 TTGGATCCGT
38261960 ACCAAAACAATCA
1 ACCAAAACAATCA
38261973 ACCAAAACAATCA
1 ACCAAAACAATCA
38261986 TGAAACATAT
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:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:38273468 original size:43 final size:42
Alignment explanation
Indices: 38273402--38273519 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 42
38273392 AGCTCGTACA
* * ** *
38273402 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAAAT-ACG
* * ** *
38273445 ATGCCACTGTCCCATACAAGGTCTTACACAAAATCATATACG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAAATACG
*
38273487 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAA
38273520 ATCTCAAATC
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAAATACG
Found at i:38273510 original size:42 final size:43
Alignment explanation
Indices: 38273402--38273515 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
38273392 AGCTCGTACA
* * ***
38273402 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAATCAAATAACG
* * * *
38273445 ATGCCACTGTCCCATACAAGGTCTTACACAAAATCATAT-ACG
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAATCAAATAACG
*
38273487 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAAACATGGTCTTACAC
38273516 GTAAATCTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACAAAATCAAATAACG
Found at i:38285010 original size:25 final size:25
Alignment explanation
Indices: 38284980--38285028 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38284970 TTTCAACTCT
38284980 TATGAGCTTA-CTGTTACTCAGCTCA
1 TATGAGCTTATC-GTTACTCAGCTCA
*
38285005 TATGAGCTTATCGTTATTCAGCTC
1 TATGAGCTTATCGTTACTCAGCTC
38285029 GGAAGAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (25 bp):
TATGAGCTTATCGTTACTCAGCTCA
Found at i:38285036 original size:25 final size:25
Alignment explanation
Indices: 38285008--38285065 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
38284998 CAGCTCATAT
* *
38285008 GAGCTTATCGTTATTCAGCTCGGAA
1 GAGCTTACCATTATTCAGCTCGGAA
* *
38285033 GAGCTTACCATTATTCAGCTTGGAG
1 GAGCTTACCATTATTCAGCTCGGAA
38285058 GAGCTTAC
1 GAGCTTAC
38285066 GGTTTATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCGGAA
Found at i:38290154 original size:20 final size:19
Alignment explanation
Indices: 38290121--38290168 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
38290111 TCGTATTCGT
* *
38290121 ATTTT-ATTTTATTTTTAT
1 ATTTTAATTTAATTTTTAC
38290139 ATTTTTAATTTAATTTTTAC
1 A-TTTTAATTTAATTTTTAC
38290159 ATTTTAATTT
1 ATTTTAATTT
38290169 TTCTTTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 12 0.46
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTAATTTAATTTTTAC
Found at i:38290164 original size:14 final size:13
Alignment explanation
Indices: 38290127--38290170 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
38290117 TCGTATTTTA
*
38290127 TTTTATTTTTATAT
1 TTTTAATTTTA-AT
38290141 TTTTAA-TTTAAT
1 TTTTAATTTTAAT
38290153 TTTTACATTTTAAT
1 TTTTA-ATTTTAAT
38290167 TTTT
1 TTTT
38290171 CTTTTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 7 0.26
13 5 0.19
14 15 0.56
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:38296151 original size:50 final size:50
Alignment explanation
Indices: 38295959--38296150 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
38295949 ATTTGGGTAA
*
38295959 AGAGGTCCCATGTAAGACCATGTCTGGGACATGTCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
38296009 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
38296059 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
38296109 AGAACAT-CCATGTAAGACCATGTTTGGGGCATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38296151 TGTTATTATC
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
50 121 0.98
51 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:38298331 original size:9 final size:9
Alignment explanation
Indices: 38298317--38298350 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
38298307 AGCTCTATTT
38298317 TTATTTTTA
1 TTATTTTTA
38298326 TTATTTTTA
1 TTATTTTTA
38298335 TTA-TTTTA
1 TTATTTTTA
38298343 GTTATTTT
1 -TTATTTT
38298351 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 15 0.65
10 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (9 bp):
TTATTTTTA
Found at i:38298353 original size:17 final size:17
Alignment explanation
Indices: 38298312--38298350 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
38298302 TTTTCAGCTC
38298312 TATTTTTA-T-TTTTAT
1 TATTTTTATTATTTTAT
38298327 TATTTTTATTATTTTAGT
1 TATTTTTATTATTTTA-T
38298345 TATTTT
1 TATTTT
38298351 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 1 0.05
17 5 0.24
18 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TATTTTTATTATTTTAT
Found at i:38303324 original size:18 final size:18
Alignment explanation
Indices: 38303303--38303341 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
38303293 AATTCTGTAA
38303303 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
*
38303321 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTGATCT
38303339 TTA
1 TTA
38303342 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:38303565 original size:7 final size:7
Alignment explanation
Indices: 38303553--38303588 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
38303543 ACCTTCCAAG
38303553 CCCTTTC
1 CCCTTTC
38303560 CCCTTTC
1 CCCTTTC
*
38303567 CTCTTTC
1 CCCTTTC
38303574 CCCTTTC
1 CCCTTTC
*
38303581 CACTTTC
1 CCCTTTC
38303588 C
1 C
38303589 ATAATTTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.44
Consensus pattern (7 bp):
CCCTTTC
Found at i:38307350 original size:77 final size:77
Alignment explanation
Indices: 38307223--38307383 Score: 304
Period size: 77 Copynumber: 2.1 Consensus size: 77
38307213 AAAAATTTAC
*
38307223 TTTTAATCTAGATGAATCATGATGTTTTGGTTATATATAGGTATAAGTATGTGTATATATCTATA
1 TTTTAATCTAGATGAATCATGATGTTTTGGTTATATATAGCTATAAGTATGTGTATATATCTATA
38307288 CATAGACAATCA
66 CATAGACAATCA
*
38307300 TTTTAATCTAGATGAATCATGATGTTTTGGTTATATATAGCTATAAGTATGTGTGTATATCTATA
1 TTTTAATCTAGATGAATCATGATGTTTTGGTTATATATAGCTATAAGTATGTGTATATATCTATA
38307365 CATAGACAATCA
66 CATAGACAATCA
38307377 TTTTAAT
1 TTTTAAT
38307384 TTGTTCTTCC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (77 bp):
TTTTAATCTAGATGAATCATGATGTTTTGGTTATATATAGCTATAAGTATGTGTATATATCTATA
CATAGACAATCA
Found at i:38308368 original size:11 final size:11
Alignment explanation
Indices: 38308352--38308389 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
38308342 TTATAAAATG
38308352 ACAATATCTCA
1 ACAATATCTCA
38308363 ACAATATCTCA
1 ACAATATCTCA
38308374 ACAATATCTCA
1 ACAATATCTCA
38308385 ACAAT
1 ACAAT
38308390 TGATAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAATATCTCA
Found at i:38311572 original size:92 final size:91
Alignment explanation
Indices: 38311415--38311623 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
38311405 TTGATTTTAG
* * * *
38311415 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
38311480 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
38311507 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
38311571 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
38311599 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
38311624 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:38311586 original size:24 final size:25
Alignment explanation
Indices: 38311551--38311598 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
38311541 TTATGAAATT
38311551 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
38311575 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
38311599 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:38311752 original size:66 final size:63
Alignment explanation
Indices: 38311677--38311995 Score: 223
Period size: 66 Copynumber: 5.2 Consensus size: 63
38311667 AAATATATTT
38311677 AATATTAATTATTTCAAATTTAAATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTT-AATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
38311742 G
63 G
* * * * * **
38311743 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
38311797 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTTA-A-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
38311861 AG
62 AG
* * * * * **
38311863 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
38311917 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTTA-A-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
38311981 AG
62 AG
38311983 AATATTAATTATT
1 AATATTAATTATT
38311996 AAGAATTTTA
Statistics
Matches: 190, Mismatches: 32, Indels: 63
0.67 0.11 0.22
Matches are distributed among these distances:
53 10 0.05
54 24 0.13
55 10 0.05
56 8 0.04
57 6 0.03
58 2 0.01
59 20 0.11
60 16 0.08
61 20 0.11
62 2 0.01
63 6 0.03
64 8 0.04
65 12 0.06
66 41 0.22
67 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:38311777 original size:120 final size:120
Alignment explanation
Indices: 38311642--38312051 Score: 734
Period size: 120 Copynumber: 3.4 Consensus size: 120
38311632 TATTTTAAAA
* * * * *
38311642 TTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTA-AATTTA
1 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATTTTA
*
38311705 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
64 CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
38311762 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACA
1 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACA
38311827 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
38311882 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACA
1 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACA
38311947 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
38312002 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
38312052 TAAATATGAT
Statistics
Matches: 282, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 6 0.02
120 274 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACA
GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
Found at i:38311799 original size:15 final size:15
Alignment explanation
Indices: 38311764--38311815 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38311754 TTAAGAATTT
*
38311764 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38311778 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38311792 TATTTAATAATAAT-
1 TATTTAATTATAATA
38311806 TATGTTAATT
1 TAT-TTAATT
38311816 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:38311919 original size:15 final size:15
Alignment explanation
Indices: 38311884--38311935 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38311874 TTAAGAATTT
*
38311884 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38311898 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38311912 TATTTAATAATAAT-
1 TATTTAATTATAATA
38311926 TATGTTAATT
1 TAT-TTAATT
38311936 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:38312034 original size:16 final size:16
Alignment explanation
Indices: 38312013--38312054 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38312003 TTATTAAATT
*
38312013 ATATATTTTAATTATA
1 ATATATTTTAATAATA
38312029 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
38312044 AT-TATGTTTAA
1 ATATAT-TTTAA
38312055 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:38312039 original size:15 final size:15
Alignment explanation
Indices: 38312004--38312045 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38311994 TTAAGAATTT
*
38312004 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38312018 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38312032 TATTTAATAATAAT
1 TATTTAATTATAAT
38312046 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38312147 original size:240 final size:236
Alignment explanation
Indices: 38311655--38312134 Score: 591
Period size: 240 Copynumber: 2.0 Consensus size: 236
38311645 ATTAAATCAT
* * * *
38311655 ATATTTTAAATAAAATATATTTAATATTAATTATTTCAAATTTAAATTTATAGTATCATATATTA
1 ATATTTTAATTATAATATATTTAATAATAATTATTT-AAATTTAAATTTACAGTATCATATATTA
38311720 TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT
65 TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT
* *
38311785 TATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGT
130 TATAATATATTTAATAATAATTATGTTAA--TATATATTACAG-ATCATATATTATGATTTGAAT
* * * * ** ** *
38311850 AAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
192 AAATTCATATAAGAATATTAATCAATAACAATATTACCAAAACAA
*
38311895 ATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATT
1 ATATTTTAATTATAATATATTTAATAATAATTAT-TTAAATTTA-AATTTACAGTATCATATATT
38311959 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA
64 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA
* *
38312024 TTATAATATATTTAATAATAATTATGTTTAA-ATATGATTA-A-ATTATTTATTATTGATATT-A
129 TTATAATATATTTAATAATAATTATG-TTAATATAT-ATTACAGATCATATATTA-TGAT-TTGA
*
38312085 ATAACCTT-AT-TAA-AAT-TTAAATAACAATAACAATAATTACCAAAACAA
190 ATAA-ATTCATATAAGAATATT-AAT--CAATAACAAT-ATTACCAAAACAA
38312133 AT
1 AT
38312135 TTCTGCTAAT
Statistics
Matches: 210, Mismatches: 19, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
234 2 0.01
235 6 0.03
236 12 0.06
237 17 0.08
238 18 0.09
239 9 0.04
240 140 0.67
241 6 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (236 bp):
ATATTTTAATTATAATATATTTAATAATAATTATTTAAATTTAAATTTACAGTATCATATATTAT
GATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
ATAATATATTTAATAATAATTATGTTAATATATATTACAGATCATATATTATGATTTGAATAAAT
TCATATAAGAATATTAATCAATAACAATATTACCAAAACAA
Found at i:38312165 original size:153 final size:156
Alignment explanation
Indices: 38311988--38312300 Score: 506
Period size: 153 Copynumber: 2.0 Consensus size: 156
38311978 ATAAGAATAT
* * *
38311988 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
38312053 AAATATGATTAAATTATTTATTATTGATATTAATAACCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
*
38312118 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* * *
38312141 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATATTTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
*
38312206 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
38312271 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
38312298 TAA
1 TAA
38312301 GGGTATTCTA
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
153 122 0.84
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:38312444 original size:16 final size:16
Alignment explanation
Indices: 38312423--38312458 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
38312413 GATTTGCTAT
38312423 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38312439 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38312455 TACA
1 TACA
38312459 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38315820 original size:17 final size:18
Alignment explanation
Indices: 38315787--38315821 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38315777 AAAAGTCTAC
38315787 ATAAAATAAAATATAAAT
1 ATAAAATAAAATATAAAT
*
38315805 ATAAAA-AAATTATAAAT
1 ATAAAATAAAATATAAAT
38315822 TATGCTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAATAAAATATAAAT
Found at i:38318731 original size:21 final size:20
Alignment explanation
Indices: 38318706--38318768 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
38318696 AATGGGTTTC
*
38318706 CTTTTAGCTCTTTTGAGCTT
1 CTTTTAGCTCTTATGAGCTT
* * *
38318726 CATTTTAACCCTTATGAGTTT
1 C-TTTTAGCTCTTATGAGCTT
*
38318747 CTATTCAGCTCTTATGAGCTT
1 CT-TTTAGCTCTTATGAGCTT
38318768 C
1 C
38318769 CATTAAACCC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (20 bp):
CTTTTAGCTCTTATGAGCTT
Found at i:38318757 original size:42 final size:42
Alignment explanation
Indices: 38318711--38318810 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
38318701 GTTTCCTTTT
* *
38318711 AGCTCTTTTGAGCTT-CATTTTAACCCTTATGAGTTTCTATTC
1 AGCTCTTATGAGCTTCCA-TTAAACCCTTATGAGTTTCTATTC
* * *
38318753 AGCTCTTATGAGCTTCCATTAAACCCTTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTTCCATTAAACCCTTATGAGTTTCTATTC
* *
38318795 AGCACTTATGTGCTTC
1 AGCTCTTATGAGCTTC
38318811 TATGCAACCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCCATTAAACCCTTATGAGTTTCTATTC
Found at i:38318781 original size:21 final size:21
Alignment explanation
Indices: 38318719--38318783 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
38318709 TTAGCTCTTT
*
38318719 TGAGCTT-CATTTTAACCCTTA
1 TGAGCTTCCA-TTAAACCCTTA
* * * * *
38318740 TGAGTTTCTATTCAGCTCTTA
1 TGAGCTTCCATTAAACCCTTA
38318761 TGAGCTTCCATTAAACCCTTA
1 TGAGCTTCCATTAAACCCTTA
38318782 TG
1 TG
38318784 GGTTTCTGTT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (21 bp):
TGAGCTTCCATTAAACCCTTA
Found at i:38322602 original size:61 final size:62
Alignment explanation
Indices: 38322527--38322731 Score: 191
Period size: 64 Copynumber: 3.3 Consensus size: 62
38322517 AATTAGCAAT
* **
38322527 ATATAAATACATATACAAATCAATTCACCAATAGGTGTATACT-TATACAA-TCAATTCGGCA
1 ATATAAATACATATACAAATCAAATCACCAATAGAAGTATA-TATATACAATTCAATTCGGCA
* * * ** *
38322588 ATATAAGTATATATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGGCA
1 ATATAAATACATATACAAATCAAATCACCAATAGAAGTATATATATACAATTCAATTCGGCA
** * * ** * *
38322650 ATAGGTGTATACCTATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGACA
1 ATA--TAAATACATATACAAATCAAATCACCAATAGAAGTATATATATACAATTCAATTCGGCA
38322714 GTATATAAA-ACATATACA
1 --ATATAAATACATATACA
38322732 TTTAAATTTA
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
60 1 0.01
61 39 0.32
62 14 0.12
63 8 0.07
64 55 0.46
66 3 0.03
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (62 bp):
ATATAAATACATATACAAATCAAATCACCAATAGAAGTATATATATACAATTCAATTCGGCA
Found at i:38322636 original size:32 final size:32
Alignment explanation
Indices: 38322570--38322706 Score: 190
Period size: 32 Copynumber: 4.4 Consensus size: 32
38322560 GGTGTATACT
*
38322570 TATACAA-TCAATTCGGCAATATAAG--TATA
1 TATACAATTCAAATCGGCAATATAAGTATATA
38322599 TATACAATTCAAATCGGCAATATAAGTATATA
1 TATACAATTCAAATCGGCAATATAAGTATATA
* *** **
38322631 TATACAATTCAATTCGGCAATAGGTGTATACC
1 TATACAATTCAAATCGGCAATATAAGTATATA
38322663 TATACAATTCAAATCGGCAATATAAGTATATA
1 TATACAATTCAAATCGGCAATATAAGTATATA
38322695 TATACAATTCAA
1 TATACAATTCAA
38322707 TTCGACAGTA
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.08
30 17 0.18
32 68 0.74
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (32 bp):
TATACAATTCAAATCGGCAATATAAGTATATA
Found at i:38322681 original size:64 final size:62
Alignment explanation
Indices: 38322570--38322710 Score: 230
Period size: 64 Copynumber: 2.3 Consensus size: 62
38322560 GGTGTATACT
*
38322570 TATACAA-TCAATTCGGCAATATAAGTATATATACAATTCAAATCGGCAATATAAGTATATA
1 TATACAATTCAATTCGGCAATAGAAGTATATATACAATTCAAATCGGCAATATAAGTATATA
**
38322631 TATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAAATCGGCAATATAAGTATATA
1 TATACAATTCAATTCGGCAATAGAAGTATA--TATACAATTCAAATCGGCAATATAAGTATATA
38322695 TATACAATTCAATTCG
1 TATACAATTCAATTCG
38322711 ACAGTATATA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
61 7 0.09
62 19 0.26
64 48 0.65
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.32
Consensus pattern (62 bp):
TATACAATTCAATTCGGCAATAGAAGTATATATACAATTCAAATCGGCAATATAAGTATATA
Found at i:38326192 original size:60 final size:60
Alignment explanation
Indices: 38326099--38326218 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
38326089 AAGCAACACC
38326099 TGTGTTCCTTCAACAGATTAAGGAATTACAAAATGAGGATCTGAAATTAGTGCTGAAACG
1 TGTGTTCCTTCAACAGATTAAGGAATTACAAAATGAGGATCTGAAATTAGTGCTGAAACG
38326159 TGTGTTCCTTCAACAGATTAAGGAATTACAAAATGAGGATCTGAAATTAGTGCTGAAACG
1 TGTGTTCCTTCAACAGATTAAGGAATTACAAAATGAGGATCTGAAATTAGTGCTGAAACG
38326219 ATAGATTGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (60 bp):
TGTGTTCCTTCAACAGATTAAGGAATTACAAAATGAGGATCTGAAATTAGTGCTGAAACG
Found at i:38333399 original size:11 final size:11
Alignment explanation
Indices: 38333383--38333407 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38333373 GATAAAATAT
38333383 TTATTTTATTA
1 TTATTTTATTA
38333394 TTATTTTATTA
1 TTATTTTATTA
38333405 TTA
1 TTA
38333408 CATAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:38339827 original size:43 final size:44
Alignment explanation
Indices: 38339732--38339878 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 44
38339722 CGACATTACG
* * * *
38339732 TGTAAGACCATATCTGGGA-TA-TGGCATCGATATGAGAATTCA
1 TGTAAGACCATGTCTGGGACTATTGACATCGATATGTGATTTCA
* *
38339774 TTTAAGACCATGTCTGGGAC-ATTGATATCGATATGTGATTTCA
1 TGTAAGACCATGTCTGGGACTATTGACATCGATATGTGATTTCA
* * * * * *
38339817 TGTAATACCATGGCT-TGACTATTGGCATCGATACGTGATTACA
1 TGTAAGACCATGTCTGGGACTATTGACATCGATATGTGATTTCA
*
38339860 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
38339879 TATGGCATTG
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
42 21 0.25
43 60 0.72
44 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACTATTGACATCGATATGTGATTTCA
Found at i:38342705 original size:23 final size:22
Alignment explanation
Indices: 38342679--38342728 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
38342669 ATAAGTGCCA
38342679 CACTGATATGTAGCCGAAGCTAC
1 CACTGA-ATGTAGCCGAAGCTAC
*
38342702 CACTTGAATGTAGCTGAAGCTAC
1 CAC-TGAATGTAGCCGAAGCTAC
38342725 CACT
1 CACT
38342729 AATCAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 21 0.84
24 3 0.12
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (22 bp):
CACTGAATGTAGCCGAAGCTAC
Found at i:38352530 original size:26 final size:26
Alignment explanation
Indices: 38352466--38352531 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
38352456 TTCGACCTAT
* * *
38352466 AGCTCATGTGAGAAGGCCTATTTCAC
1 AGCTCGTGTGAGCAGGCCCATTTCAC
*
38352492 AGCTCGTGTGAGCAGGCCCATTTTAC
1 AGCTCGTGTGAGCAGGCCCATTTCAC
38352518 AGCTCGTGTGAGCA
1 AGCTCGTGTGAGCA
38352532 ATGATGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCCATTTCAC
Found at i:38355798 original size:28 final size:28
Alignment explanation
Indices: 38355764--38355833 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
38355754 GTGAGCAGCC
** *
38355764 CAAATATCACAGGTTGTGTGAGCAAATT
1 CAAATATCACAACTTGTGTGAGCAAACT
38355792 CAAATATCACAACTTGTGTGAGCAAACT
1 CAAATATCACAACTTGTGTGAGCAAACT
*
38355820 CAAATATCATAACT
1 CAAATATCACAACT
38355834 CGTATGAGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (28 bp):
CAAATATCACAACTTGTGTGAGCAAACT
Found at i:38355841 original size:28 final size:28
Alignment explanation
Indices: 38355764--38355841 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
38355754 GTGAGCAGCC
** * * *
38355764 CAAATATCACAGGTTGTGTGAGCAAATT
1 CAAATATCACAACTCGTATGAGCAAACT
* *
38355792 CAAATATCACAACTTGTGTGAGCAAACT
1 CAAATATCACAACTCGTATGAGCAAACT
*
38355820 CAAATATCATAACTCGTATGAG
1 CAAATATCACAACTCGTATGAG
38355842 ACAATCGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (28 bp):
CAAATATCACAACTCGTATGAGCAAACT
Found at i:38357278 original size:16 final size:15
Alignment explanation
Indices: 38357257--38357286 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38357247 AATTAAATAC
38357257 AACAACATTCATTAAT
1 AACAACATT-ATTAAT
38357273 AACAACATTATTAA
1 AACAACATTATTAA
38357287 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (15 bp):
AACAACATTATTAAT
Found at i:38358783 original size:29 final size:26
Alignment explanation
Indices: 38358750--38358803 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
38358740 ATCTCTTCTG
*
38358750 CTATTTCTGTTATTTCTTTTCTTTCCCTA
1 CTATTT-TGTT-TTTCTCTT-TTTCCCTA
38358779 CTATTTTGTTTTTCTCTTTTTCCCT
1 CTATTTTGTTTTTCTCTTTTTCCCT
38358804 TTCTGTTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 7 0.29
28 4 0.17
29 6 0.25
ACGTcount: A:0.07, C:0.24, G:0.04, T:0.65
Consensus pattern (26 bp):
CTATTTTGTTTTTCTCTTTTTCCCTA
Found at i:38359743 original size:49 final size:49
Alignment explanation
Indices: 38359676--38359812 Score: 202
Period size: 49 Copynumber: 2.8 Consensus size: 49
38359666 TATTTTCTCA
* * *
38359676 ATGCCATAGTCTAACTATGGTCTTACACGTAATCACATAACATATACCG
1 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATACCG
* *
38359725 ATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATTCCG
1 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATACCG
* * *
38359774 ATGCCATATCCTAGCTATGGTCTTACACGGAATCACATA
1 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
38359813 TCACTTATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (49 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATACCG
Found at i:38361011 original size:23 final size:23
Alignment explanation
Indices: 38360985--38361082 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
38360975 ATAAGTGCCA
38360985 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
38361008 CACTAATACGT-GCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
38361030 TATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
38361053 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
38361076 CACTGAT
1 CACTGAT
38361083 CAATAACACT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 16 0.26
23 45 0.74
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:38371191 original size:27 final size:26
Alignment explanation
Indices: 38371154--38371204 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
38371144 AAAAAGGAGC
*
38371154 AAAAGAAAAAAATAAAAATCAAAACA
1 AAAAGAAAAAAAGAAAAATCAAAACA
38371180 AAAAGAAGAAAAAGAAAAATCAAAA
1 AAAAGAA-AAAAAGAAAAATCAAAA
38371205 ATCAAGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.80, C:0.06, G:0.08, T:0.06
Consensus pattern (26 bp):
AAAAGAAAAAAAGAAAAATCAAAACA
Found at i:38371246 original size:15 final size:13
Alignment explanation
Indices: 38371214--38371262 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
38371204 AATCAAGGTC
*
38371214 AAAATGAAAATGAA
1 AAAAAGAAAA-GAA
* *
38371228 AAAGAGAGAAGAA
1 AAAAAGAAAAGAA
38371241 AAAAAGAAAAG-A
1 AAAAAGAAAAGAA
38371253 AAAAAGAAAA
1 AAAAAGAAAA
38371263 AGAGAAGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 11 0.37
13 12 0.40
14 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:38371263 original size:13 final size:14
Alignment explanation
Indices: 38371226--38371265 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
38371216 AATGAAAATG
*
38371226 AAAAAGAGAGAAGA
1 AAAAAGAGAAAAGA
38371240 AAAAA-AGAAAAGA
1 AAAAAGAGAAAAGA
38371253 AAAAAGA-AAAAGA
1 AAAAAGAGAAAAGA
38371266 GAAGTCAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAAGA
Found at i:38373498 original size:87 final size:87
Alignment explanation
Indices: 38373338--38373819 Score: 599
Period size: 88 Copynumber: 5.5 Consensus size: 87
38373328 CAGATCAGTG
* * *
38373338 AAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCATATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAGCCTTGCCTCCA
* *
38373403 TCGATTGCATTGGAGCTA-GTTA
66 TCGGTTGCAGTGGAGC-AGGTTA
* * * *
38373425 AAGACAACAGATCTTGTCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAGCCTTGCCTCCA
*
38373490 TTGGTTGCAGTGGAGC-GGATTA
66 TCGGTTGCAGTGGAGCAGG-TTA
** * * * *
38373512 AAGATATTAGATTTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACCCCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAA-AACACAGCCTTGCCTCC
*
38373577 ATCAGTTGCAGTGGAGCAGGTTA
65 ATCGGTTGCAGTGGAGCAGGTTA
* * ** *
38373600 AAGATAGCAGATCTTGCCCTCCTACGCTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACA-CAGCCTTGCCTCC
*
38373665 CTCGGTTGCAGTGGAGCAGGTTA
65 ATCGGTTGCAGTGGAGCAGGTTA
* ** *
38373688 AAGATAGCAGATCTTGCCCTCCTGCGCTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACA-CAGCCTTGCCTCC
* * *
38373753 CTCAGTTGCAGTGGAGCAGGTTG
65 ATCGGTTGCAGTGGAGCAGGTTA
* * * *
38373776 AAGATAGCAGATCTTGCCTTTCTGCATCGACAGTGAAGTAGATC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
38373820 AAAGATTACA
Statistics
Matches: 348, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.00
87 118 0.34
88 227 0.65
89 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCAGGTTA
Found at i:38373616 original size:44 final size:43
Alignment explanation
Indices: 38373568--38373794 Score: 174
Period size: 43 Copynumber: 5.2 Consensus size: 43
38373558 AGACCCCAGC
*
38373568 CTTGCCTCCATCAGTTGCAGTGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCC-TCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * *
38373612 CTTGCCCTCCT-ACGCTGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTG-CCTCCTCA-GTTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* *
38373656 CTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCT-CCTCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * *
38373700 CTTGCCCTCCTGC-GCTGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTG-CCTCCT-CAGTTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
38373744 CTTGCCTCCCTCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCT-CCTCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
38373788 CTTGCCT
1 CTTGCCT
38373795 TTCTGCATCG
Statistics
Matches: 135, Mismatches: 36, Indels: 24
0.69 0.18 0.12
Matches are distributed among these distances:
43 45 0.33
44 45 0.33
45 45 0.33
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (43 bp):
CTTGCCTCCTCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:38373779 original size:43 final size:43
Alignment explanation
Indices: 38373556--38373779 Score: 159
Period size: 44 Copynumber: 5.1 Consensus size: 43
38373546 GAAGCAGATC
* *
38373556 GAAGACCCCAGCCTTGCCTCCATCAGTTGCAGTGGAGCAGGTT
1 GAAGACACCAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGGTT
* * * * * * * * *
38373599 AAAGATAGCAGATCTTGCC-CTCCT-ACGCTGACAGCGAAGCAGATC
1 GAAGACACCAG-CCTTGCCTC-CCTCA-GTTG-CAGTGGAGCAGGTT
*
38373644 GAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTT
1 GAAGACACCAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGGTT
* * * * * * * * *
38373687 AAAGATAGCAGATCTTGCC-CTCCTGC-GCTGACAGCGAAGCAGATC
1 GAAGACACCAG-CCTTGCCTC-CCT-CAGTTG-CAGTGGAGCAGGTT
38373732 GAAGACACCAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGGTT
1 GAAGACACCAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGGTT
38373775 GAAGA
1 GAAGA
38373780 TAGCAGATCT
Statistics
Matches: 130, Mismatches: 39, Indels: 24
0.67 0.20 0.12
Matches are distributed among these distances:
43 44 0.34
44 47 0.36
45 39 0.30
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.19
Consensus pattern (43 bp):
GAAGACACCAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGGTT
Found at i:38374109 original size:44 final size:44
Alignment explanation
Indices: 38374041--38374134 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
38374031 TAGATCGCAT
* *
38374041 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
38374085 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
38374129 CAGATT
1 CAGATT
38374135 AAAATAAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:38374122 original size:98 final size:97
Alignment explanation
Indices: 38373944--38374133 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 97
38373934 GTAATGAAGT
* * * *
38373944 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTA
1 AGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCTA
* *
38374009 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
65 TCTCCCTGAAGTTACAGTAGAGCAGATCGCATC
* * **
38374042 AGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCT
1 AGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCCT
*
38374106 ATCTCCCTG-AGATTACAGTGGAGCAGAT
64 ATCTCCCTGAAG-TTACAGTAGAGCAGAT
38374134 TAAAATAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
97 4 0.05
98 71 0.91
99 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (97 bp):
AGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTAT
CTCCCTGAAGTTACAGTAGAGCAGATCGCATC
Found at i:38374153 original size:44 final size:44
Alignment explanation
Indices: 38374055--38374154 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
38374045 TTGAAGCCAG
* ** *
38374055 AAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAG
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
* * *
38374099 TAATCCTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAA
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
38374142 AAGATCTTATCTC
1 AA-ATCTTATCTC
38374155 TTTGAAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 5 0.11
44 41 0.89
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
Found at i:38374200 original size:142 final size:142
Alignment explanation
Indices: 38373944--38374209 Score: 505
Period size: 142 Copynumber: 1.9 Consensus size: 142
38373934 GTAATGAAGT
*
38373944 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTA
1 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
38374009 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCTTGAGA
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCTTGAGA
38374074 TTACAGCGGAGC
131 TTACAGCGGAGC
*
38374086 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
1 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
*
38374151 TCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
38374210 CAAGCGATGC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 121 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCTTGAGA
TTACAGCGGAGC
Found at i:38374231 original size:142 final size:142
Alignment explanation
Indices: 38373944--38374239 Score: 486
Period size: 142 Copynumber: 2.1 Consensus size: 142
38373934 GTAATGAAGT
*
38373944 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTA
1 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
**
38374009 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCTTGAGA
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCAAGAGA
*
38374074 TTACAGCGGAGC
131 TTACAGCGGAAC
*
38374086 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
1 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
* *
38374151 TCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCAAGCG
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCT-CCAAGAG
* *
38374216 A-TGCAGTGGAAC
130 ATTACAGCGGAAC
*
38374228 AGATTAAAGCCA
1 AGATTGAAGCCA
38374240 CAACAGCGAA
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
142 137 0.96
143 5 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (142 bp):
AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTA
TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCAAGAGA
TTACAGCGGAAC
Found at i:38374286 original size:50 final size:50
Alignment explanation
Indices: 38374217--38374503 Score: 331
Period size: 50 Copynumber: 5.7 Consensus size: 50
38374207 TCCCAAGCGA
*
38374217 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCCGACAT
* ** * * * * * **
38374267 TGCGGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCGG
1 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCCGACAT
* * * *
38374317 TGCAGTAGAGCAGATTAAAGCCACAACAGTGAATCTTGCCTCCCTGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCCGACAT
* * * * *
38374367 TGCAGTGGAGCATATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCCGACAT
* *
38374417 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCCGACAT
** * **
38374467 TGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTT
1 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTT
38374504 ACTTTCCAAA
Statistics
Matches: 198, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 198 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCCGACAT
Found at i:38374321 original size:100 final size:100
Alignment explanation
Indices: 38374198--38374505 Score: 393
Period size: 100 Copynumber: 3.1 Consensus size: 100
38374188 TGAAGCCAGA
* *
38374198 AATCTTATCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCG
* * * *
38374263 ACATTGCGGTTCAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAACGGCG
* * * * * *
38374298 AATCTTACCTCCCAGGCGGTGCAGTAGAGCAGATTAAAGCCACAACAGTGAATCTTGCCTCCCTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCG
** ** * *
38374363 ACATTGCAGTGGAGCATATTAAAGCCACAACGGTG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAACGGCG
* * * *
38374398 AATCTTGCCTCCCTGAC-ATTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCC
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCC
*
38374462 GACATTGCAGTTAAAAAGATTAAAGCCACAATGGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAACGGCG
38374498 AATCTTAC
1 AATCTTAC
38374506 TTTCCAAAAG
Statistics
Matches: 172, Mismatches: 35, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
100 172 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (100 bp):
AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCCACAACGGCG
Found at i:38378474 original size:47 final size:45
Alignment explanation
Indices: 38378357--38378475 Score: 118
Period size: 47 Copynumber: 2.7 Consensus size: 45
38378347 TTTGTCGTAC
38378357 TGATATTTTTTTATAGTAAGTAATA---TTACATTTTGTTACATA
1 TGATATTTTTTTATAGTAAGTAATATTTTTACATTTTGTTACATA
** ** * * * * *
38378399 TGATATTTTTTTATTTTTTGTTACATTTTGTGATATTTTTTTACATG
1 TGATATTTTTTTATAGTAAGTAATATTTT-T-ACATTTTGTTACATA
38378446 TGATATTTTTTTATAGTAAGTAATATTTTT
1 TGATATTTTTTTATAGTAAGTAATATTTTT
38378476 TTAAATATAT
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
42 19 0.33
45 1 0.02
46 2 0.04
47 35 0.61
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (45 bp):
TGATATTTTTTTATAGTAAGTAATATTTTTACATTTTGTTACATA
Found at i:38380272 original size:36 final size:36
Alignment explanation
Indices: 38380232--38380311 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
38380222 GACAAGAAGG
* * *
38380232 AAGGAAAAATAAAAGAAAGAAATGAAAAAGAAAA-AT
1 AAGGAAAAACAAAA-AAACAAATGAAAAAGAAAAGAA
* **
38380268 AAGGAAGAACAAAAAAACAAATGATTAAGAAAAGAA
1 AAGGAAAAACAAAAAAACAAATGAAAAAGAAAAGAA
38380304 AAGGAAAA
1 AAGGAAAA
38380312 CGTTAATTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 16 0.44
36 20 0.56
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (36 bp):
AAGGAAAAACAAAAAAACAAATGAAAAAGAAAAGAA
Found at i:38386184 original size:22 final size:22
Alignment explanation
Indices: 38386148--38386189 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38386138 TTACCATTGT
*
38386148 TTTATTTTATATTTACTATTTA
1 TTTATTTCATATTTACTATTTA
* *
38386170 TTTATTTCATTTTTATTATT
1 TTTATTTCATATTTACTATT
38386190 ATTCTAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTTCATATTTACTATTTA
Found at i:38398383 original size:44 final size:44
Alignment explanation
Indices: 38398333--38398471 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
38398323 GACAAAGGAT
38398333 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
** * * * * * *
38398377 CTTGCCTCTT-TCGGTTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TTCT-GCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
* *
38398421 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
38398465 CTTGCCT
1 CTTGCCT
38398472 CTTTCGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 16 0.23
44 27 0.39
45 18 0.26
46 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:38398414 original size:43 final size:43
Alignment explanation
Indices: 38398365--38398502 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
38398355 GAAGCAGATC
38398365 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * * ** ** * * *
38398408 GAAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ACCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
38398453 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
38398496 GAAGACA
1 GAAGACA
38398503 AAAGATCTTG
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 25 0.37
44 24 0.36
45 18 0.27
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:38398468 original size:88 final size:88
Alignment explanation
Indices: 38398319--38398654 Score: 439
Period size: 88 Copynumber: 3.9 Consensus size: 88
38398309 GACAGATCAA
* * * *
38398319 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
**
38398384 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTGATAGAGCTGGT
*
38398407 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
**
38398472 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTGATAGAGCTGGT
*
38398495 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCC
* * * *
38398558 TCCATCGATTG-CAGTGGAGCTAGT
65 TCCATCGGTTGTGA-TAGAGCTGGT
* ** * * *
38398582 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
38398645 CCATCGGTTG
66 CCATCGGTTG
38398655 CATTGGAGCA
Statistics
Matches: 225, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
86 60 0.27
87 31 0.14
88 134 0.60
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CCATCGGTTGTGATAGAGCTGGT
Found at i:38398513 original size:44 final size:44
Alignment explanation
Indices: 38398377--38398515 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
38398367 AGACACAAAC
38398377 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** ** * * * * *
38398421 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
38398465 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
38398509 CTTGCCT
1 CTTGCCT
38398516 TCCTACATTA
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 18 0.27
44 31 0.46
45 18 0.27
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:38398681 original size:86 final size:88
Alignment explanation
Indices: 38398319--38398717 Score: 393
Period size: 88 Copynumber: 4.6 Consensus size: 88
38398309 GACAGATCAA
* * * *
38398319 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
** * *
38398384 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTCATAGAGCAGGT
* * *
38398407 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
** * *
38398472 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTCATAGAGCAGGT
* * *
38398495 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACA-AAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACACAAACCTTGCC
* *
38398558 TCCATCGATTG-CAGTGGAGCTA-GT
65 TCCATCGGTTGTCA-TAGAGC-AGGT
* ** *
38398582 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
* *
38398645 CCATCGGTTG-CATTGGAGCAGAT
66 CCATCGGTTGTCA-TAGAGCAGGT
* * ** * * *
38398668 TGAAG-CCAGAGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAAGA
1 TGAAGACAAAAGATCTTGCCTTCCTG-CATTAACAGCGAAGCAGATCAAAGA
38398718 TAGTAATCCT
Statistics
Matches: 274, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
85 4 0.01
86 104 0.38
87 31 0.11
88 133 0.49
89 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
CCATCGGTTGTCATAGAGCAGGT
Found at i:38398871 original size:46 final size:46
Alignment explanation
Indices: 38398799--38399234 Score: 295
Period size: 46 Copynumber: 9.9 Consensus size: 46
38398789 GAAGATCACA
* * * * *
38398799 TCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATT
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* *
38398845 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* * * *
38398890 T-A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
** * * * * *
38398931 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* * * *
38398973 TCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* * *
38399019 GCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* * * *
38399064 T-A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
** * * * * * * *
38399105 AAAGGACCTTATCTCTCTGAAGTTACGGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* * * *
38399147 TCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
* * *
38399193 GCAGATCTTATCCCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG
38399235 CCAGAGGTCT
Statistics
Matches: 298, Mismatches: 70, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
41 56 0.19
42 10 0.03
43 60 0.20
44 60 0.20
45 5 0.02
46 107 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATT
Found at i:38398977 original size:174 final size:174
Alignment explanation
Indices: 38398677--38399234 Score: 903
Period size: 174 Copynumber: 3.2 Consensus size: 174
38398667 TTGAAGCCAG
* * *
38398677 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGAT
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAG-T
* * *
38398741 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
64 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* *
38398801 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
129 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
38398847 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTA
38398912 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
38398977 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
131 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
38399021 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTA
* *
38399086 CAGTGGAGCGGATTAAAATAAAGGACCTTATCTCTCTGAAGTTACGGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
* * **
38399151 GTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGC
131 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
* * *
38399195 AGATCTTATCCCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
38399235 CCAGAGGTCT
Statistics
Matches: 365, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
169 29 0.08
170 44 0.12
174 292 0.80
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (174 bp):
AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
Found at i:38399203 original size:87 final size:87
Alignment explanation
Indices: 38398761--38399270 Score: 397
Period size: 87 Copynumber: 5.8 Consensus size: 87
38398751 CGGATTAAAG
* * *
38398761 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
* * *
38398826 TGGAACAGACCAAAGAATTTCA
66 TGGAGCAGACCGAAGAATTACA
* * ** * ** * *
38398848 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** *
38398912 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTACA
* *
38398934 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACA
1 -GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
* *
38398999 GTGGAACAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTACA
* * ** * ** * *
38399022 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** *
38399086 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTACA
* * * *
38399108 GGACCTTATCTCTCTGAAGTTACGGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
* *
38399173 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTACA
* * * * * * * * *
38399196 GATCTTATCCCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGGTCTTATCTCCCTAAGATTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-TC--AGGTCTTATCTCCCTGAGGTTA
*
38399261 CAGCGGAGCA
63 CAGTGGAGCA
38399271 AGTCGAAGAC
Statistics
Matches: 318, Mismatches: 86, Indels: 35
0.72 0.20 0.08
Matches are distributed among these distances:
85 56 0.18
86 10 0.03
87 158 0.50
88 11 0.03
89 56 0.18
90 27 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTACA
Found at i:38399284 original size:21 final size:21
Alignment explanation
Indices: 38399260--38399303 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
38399250 CCCTAAGATT
38399260 ACAGCGGAGCA-AGTCGAAGAC
1 ACAGCGGAGCAGA-TCGAAGAC
*
38399281 ACAGCGGAGCGGATCGAAGAC
1 ACAGCGGAGCAGATCGAAGAC
38399302 AC
1 AC
38399304 TATCCTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.25, G:0.34, T:0.05
Consensus pattern (21 bp):
ACAGCGGAGCAGATCGAAGAC
Found at i:38401401 original size:22 final size:22
Alignment explanation
Indices: 38401365--38401406 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38401355 TTACCATTGT
*
38401365 TTTATTTTATATTTACTATTTA
1 TTTATTTCATATTTACTATTTA
* *
38401387 TTTATTTCATTTTTATTATT
1 TTTATTTCATATTTACTATT
38401407 ATTCTAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTTCATATTTACTATTTA
Found at i:38407307 original size:54 final size:54
Alignment explanation
Indices: 38407225--38407349 Score: 232
Period size: 54 Copynumber: 2.3 Consensus size: 54
38407215 ATCACGGTCT
38407225 CGGGTGCGGGTGCTTCAACCGGTGGGTCGGCCTTCTCTTCTTCCCTGACTTCAA
1 CGGGTGCGGGTGCTTCAACCGGTGGGTCGGCCTTCTCTTCTTCCCTGACTTCAA
* *
38407279 CGGGTGCGGGTGCTTCAATCGGTGGGTCGGCCTTCTCTTCTTCCTTGACTTCAA
1 CGGGTGCGGGTGCTTCAACCGGTGGGTCGGCCTTCTCTTCTTCCCTGACTTCAA
38407333 CGGGTGCGGGTGCTTCA
1 CGGGTGCGGGTGCTTCA
38407350 GTTTCGACTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.09, C:0.29, G:0.32, T:0.30
Consensus pattern (54 bp):
CGGGTGCGGGTGCTTCAACCGGTGGGTCGGCCTTCTCTTCTTCCCTGACTTCAA
Found at i:38418434 original size:24 final size:25
Alignment explanation
Indices: 38418407--38418456 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
38418397 ACTAGTCATA
*
38418407 GAGAGAATTGAGGAG-GGATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
* *
38418431 GAGAGATTTGATGAGAGAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
38418456 G
1 G
38418457 GATTTAGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:38419355 original size:27 final size:27
Alignment explanation
Indices: 38419122--38419344 Score: 266
Period size: 27 Copynumber: 8.3 Consensus size: 27
38419112 AGAGGTCGAT
* *
38419122 AAATGATCGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
*
38419149 AACTGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
38419176 AAATAACCGAAATACCCCTGTAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
38419203 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
38419230 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
38419257 AAATTATCGAAATACCTTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
38419284 AAATGACTGAAATACTCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
**
38419311 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
38419338 AAATGAC
1 AAATGAC
38419345 TATTATACCC
Statistics
Matches: 166, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:38419369 original size:81 final size:79
Alignment explanation
Indices: 38419122--38419373 Score: 260
Period size: 81 Copynumber: 3.1 Consensus size: 79
38419112 AGAGGTCGAT
*
38419122 AAATGA-TCGAAATACCCCCATAGGATAAACTGACCGAAATACCCCCATAGGGTAAAATAACCGA
1 AAATGACT-GAAATA-CCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACCGA
*
38419186 AATACCCCT-GTAAGGTA
64 AATACCCCTAG-GA-GTA
* * * *
38419203 AAATGACTGAAATACCCCTATAGGGTAGAATGACCGAAATACCCCCATAGGGTAAAATTATCGAA
1 AAATGACTGAAATACCCC-ATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACCGAA
*
38419268 ATACCTTCATAGG-GTA
65 ATACC--CCTAGGAGTA
* ** * *
38419284 AAATGACTGAAATACTCTCATAGGATAAAATGACTAAAATACCCCCATAGGGTAAAATGA-CTAT
1 AAATGACTGAAATAC-CCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACCGA-
* *
38419348 TATACCCCTAGGAGATG
64 AATACCCCTAGGAG-TA
38419365 AAATGACTG
1 AAATGACTG
38419374 TTATGGCTTT
Statistics
Matches: 145, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
79 5 0.03
80 7 0.05
81 127 0.88
82 3 0.02
83 2 0.01
84 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (79 bp):
AAATGACTGAAATACCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACCGAAA
TACCCCTAGGAGTA
Found at i:38424535 original size:35 final size:35
Alignment explanation
Indices: 38424489--38424560 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
38424479 TTCAGAAATA
*
38424489 TCTCGCCTGCTTAGATAAAGAGTCGAAAGATATGG
1 TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
38424524 TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
1 TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
38424559 TC
1 TC
38424561 ATGTTGTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (35 bp):
TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
Found at i:38439809 original size:37 final size:34
Alignment explanation
Indices: 38439762--38439878 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 34
38439752 GCTTATCTAC
*
38439762 AATATAAATATTAAATTTAATTTAATATTAAGAT
1 AATATTAATATTAAATTTAATTTAATATTAAGAT
** *
38439796 AATCACTTTAATATTAAATTAATAAAATACTATTAAGAT
1 AAT-A--TTAATATTAAATT--TAATTTAATATTAAGAT
*
38439835 AAGTATTAA-ATTAAATTTAATATTAAACTATTAAAAT
1 AA-TATTAATATTAAATTTAAT-TT-AA-TATTAAGAT
38439872 AATATTA
1 AATATTA
38439879 TTTTTTGAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
34 6 0.09
35 2 0.03
36 14 0.21
37 26 0.39
39 17 0.26
40 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (34 bp):
AATATTAATATTAAATTTAATTTAATATTAAGAT
Found at i:38439831 original size:25 final size:25
Alignment explanation
Indices: 38439777--38439831 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
38439767 AAATATTAAA
*
38439777 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
38439802 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
38439826 TATTAA
1 T-TTAA
38439832 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:38445626 original size:13 final size:13
Alignment explanation
Indices: 38445608--38445634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38445598 TTCAACACTA
38445608 ACAGATTATCATG
1 ACAGATTATCATG
38445621 ACAGATTATCATG
1 ACAGATTATCATG
38445634 A
1 A
38445635 TACTATCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ACAGATTATCATG
Found at i:38448765 original size:75 final size:75
Alignment explanation
Indices: 38448685--38448824 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 75
38448675 TCCTCAAAGT
* *
38448685 ATACCATAAAG-CTAAACAAATTGGCTCTCATTTCTTTTTAC-CCTATACCACGTGGTAAAGCCT
1 ATACCATAAAGTC-AAACAAATTGGCTCTCATTTC-TTCTACTCCCATACCACGTGGTAAAGCCT
38448748 AGTTCCTTAGAG
64 AGTTCCTTAGAG
* * * * * *
38448760 ATACCATTAAGTCAATCAACTTGTCTTTCATTTCTTCTACTCCCATACCACGTGGTAGAGCCTAG
1 ATACCATAAAGTCAAACAAATTGGCTCTCATTTCTTCTACTCCCATACCACGTGGTAAAGCCTAG
38448825 CCTCTCAGGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 5 0.09
75 49 0.89
76 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (75 bp):
ATACCATAAAGTCAAACAAATTGGCTCTCATTTCTTCTACTCCCATACCACGTGGTAAAGCCTAG
TTCCTTAGAG
Found at i:38453942 original size:37 final size:35
Alignment explanation
Indices: 38453889--38453957 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
38453879 AAAGTTTGCG
* *
38453889 CTCTCTTTTACATTTTATTTGTTTATTGATGTGTT
1 CTCTCTTTTACATTTTATTTATTGATTGATGTGTT
*
38453924 CTCTCTCTTTACTTTTTTATTTATTGATTGATGT
1 CTCTCT-TTTAC-ATTTTATTTATTGATTGATGT
38453958 TTGTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 6 0.21
36 5 0.17
37 18 0.62
ACGTcount: A:0.14, C:0.13, G:0.10, T:0.62
Consensus pattern (35 bp):
CTCTCTTTTACATTTTATTTATTGATTGATGTGTT
Found at i:38457290 original size:516 final size:511
Alignment explanation
Indices: 38454958--38458986 Score: 7137
Period size: 511 Copynumber: 7.9 Consensus size: 511
38454948 TTGGGACGAA
* * **
38454958 AGTCGTCTACAAGCAAAGAAAAGGGAAAAGCGAAG-TTTGTTTAAAGCTTTCAACAAACCGGTGA
1 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTT-TTTAAAGCTTTCAATAAACTAGTGA
*
38455022 GTG-TTTGGGGTTCGCTGCTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTA
65 GTGTTTTGGGGTT-GCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTA
* * **
38455086 AAACACCTAATCTAATTCCCGAGTGTAAGTTTCTTACTTTAACTTTTGTATTTTGTGATAAATGT
129 AAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAAT-T
* * * * *
38455151 -TTGTGTTATATTATAAGAAGTTCACACATGCGAACCATAGTTCGCATATGTAGTTTAGTCGAGT
193 CTTGTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGT
* * *
38455215 ATAGGATCGCAGACATTATGCTGCAAAGTATGTGATTGTGATATGTGTTAAATATGAAAATTAAT
258 ATAGGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAAT
* * *
38455280 ATCTCTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTATTGGCATGCCAT
323 ATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCAT
38455345 AGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAA
388 AGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAA
38455410 AATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
453 AATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
38455469 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
1 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
38455534 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
66 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
* *
38455599 ACACCTAATCTAAGTCCTGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGGGATAAATTCTT
131 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
* *
38455664 GTGTTATGTTATAAGGAGTTCATACACGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
196 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
* * *
38455729 GGATCGCAGACATTATACTGTGAAGTATGTGATTGTGATATGTGTTAAATATGAAAACTAATATC
261 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
* *
38455794 AGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAATAACTGGATATTGTTGGCATGCCATAGG
326 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
38455859 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
391 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
*
38455924 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGGTGTGAACCTAATAG
456 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
38455980 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
1 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
* * *
38456045 TGTTTTTGGGCTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGATTGGTCTAAA
66 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
38456110 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
131 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
38456175 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
196 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
38456240 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
261 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
*
38456305 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTTGGCATGCCATAGG
326 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
*
38456370 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTTGGAAAAT
391 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
38456435 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
456 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
38456491 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
1 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
38456556 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
66 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
*
38456621 ACACCTAATCTAAGTCCTGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
131 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
* * *
38456686 GTGTTATGTTATAAGGAGTTCATACACGTGAACCATAGTTTGCATATATAGTTTAGCCGAGTATA
196 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
* *
38456751 GGATCGCAGACATTATACTGCGAAGTATGTGATTGTGATATGTGTTAAATATGAAAACTAATATC
261 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
*
38456816 AGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
326 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
* *
38456881 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAAGCCCTAGGATAGGTTAGGAAAAT
391 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
* *
38456946 ATTATGCTTCGTCTATTAGTAACTTGATTATATTTGTGAAGTTGTGAACCTAATAG
456 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
* *
38457002 AGTCGTCTACATGCAAAAAAAAAAGAAGGGAAAAACGAAGCTTTTTTAAAGCTTTCAATAAACTA
1 AGTCGTCTACATGC----AAAGAA-AAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTA
* * ** *
38457067 GTGAGTGTTTTGGGGTTACTGCTAGTATGAGCAAACCATTGTGTTAAACAAGAGCTTAGGTTGGT
61 GTGAGTGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGT
38457132 CTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAA
126 CTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAA
38457197 TTCTTGTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGA
191 TTCTTGTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGA
*
38457262 GTATAGGATCGCAGGCATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTA
256 GTATAGGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTA
* *
38457327 ATATCTCTAATTGTGGCTATTTTGGTACTACGATCTTTGAAATAACTGGATATTGTTGGCATGCC
321 ATATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCC
38457392 ATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGG
386 ATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGG
*
38457457 AAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGGTGTGAACCTAATAG
451 AAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
38457518 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
1 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
* * *
38457583 TGTTTTTGGGCTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGATTGGTCTAAA
66 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
38457648 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
131 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
38457713 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
196 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
38457778 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
261 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
*
38457843 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTTGGCATGCCATAGG
326 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
*
38457908 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTTGGAAAAT
391 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
38457973 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
456 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
38458029 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
1 AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
38458094 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
66 TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
* *
38458159 ACACCTAATCTAAGTCCTGGGTGTAAGTTTCTAACTTTAACTTTCATATTTTGTGATAAATTCTT
131 ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
* * *
38458224 GTGTTATGTTATAAGGAGTTCATACACGTGAACCATAGTTTGCATATATAGTTTAGCCGAGTATA
196 GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
* *
38458289 GGATCGCAGACATTATACTGCGAAGTATGTGATTGTGATATGTGTTAAATATGAAAACTAATATC
261 GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
*
38458354 AGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
326 TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
* *
38458419 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAAGCCCTAGGATAGGTTAGGAAAAT
391 ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
* *
38458484 ATTATGCTTCGTCTATTAGTAACTTGATTATATTTGTGAAGTTGTGAACCTAATAG
456 AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
* **
38458540 AGTCGTCTACATGCAAAAAAAAAAAAAGAAGGGAAAAATGAAGCTTTTTTAAAGCTTTCAATAAA
1 AGTCGTCTACATGC-------AAAGAA-AAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAA
* ** *
38458605 CTAGTGAGTGTTTTGGGGTTACTACTAGTATGAGCAAACCATTGTGTTAAACAAGAGCTTAGGTT
58 CTAGTGAGTGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTT
38458670 GGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGAT
123 GGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGAT
38458735 AAATTCTTGTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGC
188 AAATTCTTGTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGC
38458800 CGAGTATAGGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAA
253 CGAGTATAGGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAA
* *
38458865 TTAATATCTCTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTTGGCAT
318 TTAATATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCAT
*
38458930 GCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCGAAAGGCCCTAG
383 GCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAG
38458987 TGTCACGGGA
Statistics
Matches: 3369, Mismatches: 133, Indels: 24
0.96 0.04 0.01
Matches are distributed among these distances:
510 1 0.00
511 2456 0.73
512 17 0.01
515 5 0.00
516 484 0.14
518 5 0.00
519 401 0.12
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (511 bp):
AGTCGTCTACATGCAAAGAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCAATAAACTAGTGAG
TGTTTTGGGGTTGCTACTAGTATGAGTGAACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAA
ACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTTGTGATAAATTCTT
GTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGTTTAGCCGAGTATA
GGATCGCAGACATTATACTGCGAAGTATGAGATTGTGATATGTGTTAAATATGAAAATTAATATC
TGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAACTGGATATTGTTGGCATGCCATAGG
ATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCAAAAGGCCCTAGGACAGGTTAGGAAAAT
AATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTGTGAACCTAATAG
Found at i:38460589 original size:512 final size:513
Alignment explanation
Indices: 38459624--38461182 Score: 2609
Period size: 512 Copynumber: 3.0 Consensus size: 513
38459614 CCTCGTGACA
*
38459624 CTAGGACAGGTTAGGAGAAATAATATGTTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTG
1 CTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTG
38459689 TGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCA
66 TGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCA
* *
38459754 ATAAACTAGTGAGTGGTTTGAGGTTGCTGCTAGTATGAGCGAACCATTGTGTTAAACGAGAGCTT
131 ATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGAACCATTGTGTTAAACGAGAGCTT
38459819 AGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTT
196 AGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTT
38459884 GTGATAAATTCTTGTGTTATGTTATAAGGCGTTCACACATGTGAACCATAGTTTGCATATGTAGT
261 GTGATAAATTCTTGTGTTATGTTATAAGGCGTTCACACATGTGAACCATAGTTTGCATATGTAGT
38459949 TTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGTGATTGTGATATGTGTTAAATAT
326 TTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGTGATTGTGATATGTGTTAAATAT
* * *
38460014 GAAAATTAATATCTGTAATTGTGGTTATTTTGGTACTATGATCTTTCAAACAATTGGATATTGTT
391 GAAAATTAATATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTT
*
38460079 GGCATGCCATAGGATTGTGAGTACTCACGTTTGTGTTTTATGATTTGGGCGAAAGGCC
456 GGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCGAAAGGCC
* * *
38460137 CTAGGACAGGTTAGCAGAAATAATATGCTTCATCTATTAGTAACTTGAGTATATTTGTGAAGTTC
1 CTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTG
*
38460202 TGAACCTAGCAGAGTCGTCTACAGGC-AAAAAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCA
66 TGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCA
*
38460266 ATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCAAACCATTGTGTTAAACGAGAGCTT
131 ATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGAACCATTGTGTTAAACGAGAGCTT
* *
38460331 AAGTTGGTCTAAAACACCTAATCTAAGTCCCAGGTGTAAGTTTCTTACTTTAACTTTCATATTTT
196 AGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTT
*
38460396 GTGATAAATTCTTGTGTTATGTTATAAGGAGTTCACACATGTGAACCATAGTTTGCATATGTAGT
261 GTGATAAATTCTTGTGTTATGTTATAAGGCGTTCACACATGTGAACCATAGTTTGCATATGTAGT
38460461 TTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGTGATTGTGATATGTGTTAAATAT
326 TTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGTGATTGTGATATGTGTTAAATAT
*
38460526 GAAAATTAATATCTGTAATGGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTT
391 GAAAATTAATATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTT
* *
38460591 GGCATGCCATAGGATTGTGAGTACTCTCCTTTGTGTTTTATGATTTGGGTGAAAGGCC
456 GGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCGAAAGGCC
*
38460649 CTTGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTG
1 CTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTG
* *
38460714 TGAACCTAACGGAGTCGTCTACAGGCAAAAAGAAAAAAAAAGGGAAAAGTGAAGCTTTTTTAAAG
66 TGAACCTAACAGAGTCGTCTACAGGC------AAAAAAAAAGGGAAAAGCGAAGCTTTTTTAAAG
38460779 CTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGAACCATTGTGTTAAACGA
125 CTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGAACCATTGTGTTAAACGA
*
38460844 GAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCTGGGTGTAAGTTTCTTACTTTAACTTTCA
190 GAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCA
*
38460909 TATTTTGTGATAAATTCTTGTGTTATGTTACAAGGCGTTCACACATGTGAACCATAGTTTGCATA
255 TATTTTGTGATAAATTCTTGTGTTATGTTATAAGGCGTTCACACATGTGAACCATAGTTTGCATA
* * *
38460974 TGTAGTTTAGCCGAGTGTAGGATCGCAGAGATTATACTGCGAAGTATGTGATTGTGATATGTGTT
320 TGTAGTTTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGTGATTGTGATATGTGTT
* ** * ** * * *
38461039 AAATATG-TAATTAATATGAGTAATTGTCGCTATTTTGGTGTTGCAATCTTTGAAA-ATGTTGGA
385 AAATATGAAAATTAATATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACA-ATTGGA
* *
38461102 TATTGTTGGCATG---T--CA-TG-GAGTACTCACCTTTGTGGTTTT-TGATTTGGGCGAGAGGC
449 TATTGTTGGCATGCCATAGGATTGTGAGTACTCACCTTTGT-GTTTTATGATTTGGGCGAAAGGC
38461159 C
513 C
* * *
38461160 ATGGGATAGGTTAGGAGAAATAA
1 CTAGGACAGGTTAGGAGAAATAA
38461183 GGGAATGATG
Statistics
Matches: 986, Mismatches: 51, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
511 51 0.05
512 500 0.51
513 87 0.09
515 1 0.00
517 1 0.00
518 57 0.06
519 289 0.29
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (513 bp):
CTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAGTATATTTGTGAAGTTG
TGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAAGGGAAAAGCGAAGCTTTTTTAAAGCTTTCA
ATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGAACCATTGTGTTAAACGAGAGCTT
AGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTTTCTTACTTTAACTTTCATATTTT
GTGATAAATTCTTGTGTTATGTTATAAGGCGTTCACACATGTGAACCATAGTTTGCATATGTAGT
TTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGTGATTGTGATATGTGTTAAATAT
GAAAATTAATATCTGTAATTGTGGCTATTTTGGTACTACGATCTTTGAAACAATTGGATATTGTT
GGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATGATTTGGGCGAAAGGCC
Found at i:38465469 original size:14 final size:14
Alignment explanation
Indices: 38465438--38465487 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
38465428 CCCCGAATCT
38465438 TTAAACCCTC-AA-C
1 TTAAA-CCTCAAACC
**
38465451 TTAAACCTTGAACC
1 TTAAACCTCAAACC
38465465 TTAAACCTCAAACC
1 TTAAACCTCAAACC
*
38465479 CTAAACCTC
1 TTAAACCTC
38465488 GAGGTTCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 21 0.68
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (14 bp):
TTAAACCTCAAACC
Found at i:38466495 original size:19 final size:19
Alignment explanation
Indices: 38466471--38466534 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
38466461 ATTAAAATAG
38466471 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
38466490 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
38466508 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
38466527 TTTAATTT
1 TTTAATTT
38466535 TAAAAAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:38466717 original size:82 final size:82
Alignment explanation
Indices: 38466627--38466783 Score: 296
Period size: 82 Copynumber: 1.9 Consensus size: 82
38466617 AAAAATAACA
* *
38466627 GAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACA
1 GAAACATAAACTATTTTATCTATTTATAAACTTAATATATTCTTAATAGACTTATAACATAAAAA
38466692 TGTTAGACTAAATATTG
66 TGTTAGACTAAATATTG
38466709 GAAACATAAACTATTTTATCTATTTATAAACTTAATATATTCTTAATAGACTTATAACATAAAAA
1 GAAACATAAACTATTTTATCTATTTATAAACTTAATATATTCTTAATAGACTTATAACATAAAAA
38466774 TGTTAGACTA
66 TGTTAGACTA
38466784 TTTTAATTAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (82 bp):
GAAACATAAACTATTTTATCTATTTATAAACTTAATATATTCTTAATAGACTTATAACATAAAAA
TGTTAGACTAAATATTG
Found at i:38466891 original size:18 final size:19
Alignment explanation
Indices: 38466852--38466947 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
38466842 ATTTTATATT
38466852 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
38466871 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
38466889 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
38466908 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
38466926 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
38466945 TTA
1 TTA
38466948 CTTAATTAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:38466893 original size:37 final size:37
Alignment explanation
Indices: 38466852--38466947 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
38466842 ATTTTATATT
*
38466852 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
38466889 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
38466926 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
38466948 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:38467652 original size:26 final size:28
Alignment explanation
Indices: 38467620--38467680 Score: 99
Period size: 26 Copynumber: 2.2 Consensus size: 28
38467610 TTTTGGGGGT
38467620 ATATTTTAGTAAAT-AAAAAAA-TTATA
1 ATATTTTAGTAAATAAAAAAAAGTTATA
*
38467646 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTAGTAAATAAAAAAAAGTTATA
38467674 ATATTTT
1 ATATTTT
38467681 GGTTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 13 0.41
27 7 0.22
28 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (28 bp):
ATATTTTAGTAAATAAAAAAAAGTTATA
Found at i:38467674 original size:28 final size:26
Alignment explanation
Indices: 38467620--38467683 Score: 101
Period size: 28 Copynumber: 2.4 Consensus size: 26
38467610 TTTTGGGGGT
*
38467620 ATATTTTAGTAAATAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAATTATA
38467646 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAA-TTATA
38467674 ATATTTTGGT
1 ATATTTTGGT
38467684 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 13 0.37
27 7 0.20
28 15 0.43
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAATTATA
Found at i:38470182 original size:28 final size:28
Alignment explanation
Indices: 38470151--38470216 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
38470141 TCTGGGTCGA
38470151 GCCCGACCCAATTTTTTTACTTGG-CTCG
1 GCCCGACCCAATTTTTTTACTTGGCCT-G
*
38470179 GCCCAACCCAATTTTTTTACTTGGCCTG
1 GCCCGACCCAATTTTTTTACTTGGCCTG
38470207 GCCCGACCCA
1 GCCCGACCCA
38470217 TGGACAACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.30
Consensus pattern (28 bp):
GCCCGACCCAATTTTTTTACTTGGCCTG
Found at i:38479936 original size:41 final size:41
Alignment explanation
Indices: 38479824--38479943 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 41
38479814 ACCGGCTTTT
* *
38479824 AGCCTGCTAGACTTATAGT-TCGAA-ACATATCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCT-GAATA-ATTTCACCGGCATCA
* *
38479865 AGCCTGCTAGACGTATATTCTGAATAATTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCTGAATAATTTCACCGGCATCA
* * *
38479906 AGCCTGCTAGACTTAAAGTCTGAATTATTTCACTGGCA
1 AGCCTGCTAGACTTATAGTCTGAATAATTTCACCGGCA
38479944 ATAAATCCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 66 0.97
42 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAATAATTTCACCGGCATCA
Found at i:38485484 original size:30 final size:29
Alignment explanation
Indices: 38485425--38485491 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
38485415 CTTTTCTTCG
**
38485425 TTTTCTTTTTCTCTCACTTTTTTGATTTCT
1 TTTTCTTTTTCTCTCACTTTCCT-ATTTCT
38485455 TTTTCTTTTTCTTCTTCACTTTCCT-TTTCT
1 TTTTCTTTTTC-TC-TCACTTTCCTATTTCT
38485485 TTTTCTT
1 TTTTCTT
38485492 CTTTTTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 23 0.70
31 2 0.06
32 8 0.24
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.72
Consensus pattern (29 bp):
TTTTCTTTTTCTCTCACTTTCCTATTTCT
Found at i:38488092 original size:24 final size:24
Alignment explanation
Indices: 38488065--38488139 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
38488055 ATTTGATATG
*
38488065 TTCTGTATGTGAAACTGAAATTGC
1 TTCTGTATATGAAACTGAAATTGC
* * *
38488089 TTCTGCATATGTAACTG-ATTTG-
1 TTCTGTATATGAAACTGAAATTGC
*
38488111 TTCTGTATCT-AAACT-AATATTGC
1 TTCTGTATATGAAACTGAA-ATTGC
38488134 TTCTGT
1 TTCTGT
38488140 TAGCTAACCG
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
21 5 0.12
22 11 0.28
23 10 0.25
24 14 0.35
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (24 bp):
TTCTGTATATGAAACTGAAATTGC
Found at i:38490284 original size:89 final size:90
Alignment explanation
Indices: 38490182--38490381 Score: 282
Period size: 89 Copynumber: 2.3 Consensus size: 90
38490172 CCCTCAAATT
* * *
38490182 AAAAAAA-AAATTAAGCCCCT-CTTTTTTTTTGCACTCAATTGAGTAGTTTAACTTTCAAAATGC
1 AAAAAAAGAAATTAAGCCCCTGCTTTTTTTTTGCACTCAACTGAGTACTTGAACTTTCAAAATGC
*
38490245 ATAAAAAAAACCCTCAAACTTCTTC
66 ATAAAAAAAACCCTCAAAATTCTTC
* *
38490270 AAAAAAAGAAATTAAG-CCCTGCTTTTTTTTTTCACTCAACTGGGTACTTGAACTTTCAAAATGC
1 AAAAAAAGAAATTAAGCCCCTGCTTTTTTTTTGCACTCAACTGAGTACTTGAACTTTCAAAATGC
* *
38490334 ATAAAAAAGACCCTCAAAATTTTTC
66 ATAAAAAAAACCCTCAAAATTCTTC
* *
38490359 -AAAACAGCAATTAAGCCCCTGCT
1 AAAAAAAGAAATTAAGCCCCTGCT
38490382 CTTATTAAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
88 24 0.24
89 75 0.76
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (90 bp):
AAAAAAAGAAATTAAGCCCCTGCTTTTTTTTTGCACTCAACTGAGTACTTGAACTTTCAAAATGC
ATAAAAAAAACCCTCAAAATTCTTC
Found at i:38490406 original size:7 final size:7
Alignment explanation
Indices: 38490384--38490437 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
38490374 CCCCTGCTCT
38490384 TATTAAA
1 TATTAAA
*
38490391 AATTTAAA
1 TA-TTAAA
38490399 TATTAAA
1 TATTAAA
38490406 TATTAAA
1 TATTAAA
38490413 TATTATAA
1 TATTA-AA
38490421 -A--AAA
1 TATTAAA
38490425 TATTAAA
1 TATTAAA
*
38490432 TTTTAA
1 TATTAA
38490438 TAGAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 27 0.69
8 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATTAAA
Found at i:38490460 original size:28 final size:28
Alignment explanation
Indices: 38490414--38490476 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
38490404 AATATTAAAT
38490414 ATTATAAAAAATATTAAATTTTAATAGAA
1 ATTATAAAAAATATTAAA-TTTAATAGAA
* *
38490443 A-TATAACAAAT-TTAAAATTTATTAGAA
1 ATTATAAAAAATATT-AAATTTAATAGAA
38490470 ATTATAA
1 ATTATAA
38490477 TTTTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 12 0.40
28 17 0.57
29 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (28 bp):
ATTATAAAAAATATTAAATTTAATAGAA
Found at i:38490468 original size:27 final size:29
Alignment explanation
Indices: 38490414--38490476 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
38490404 AATATTAAAT
*
38490414 ATTATAAAAAATATTAAATTTTAATAGAA
1 ATTATAAAAAATATTAAAATTTAATAGAA
* *
38490443 A-TATAACAAAT-TTAAAATTTATTAGAA
1 ATTATAAAAAATATTAAAATTTAATAGAA
38490470 ATTATAA
1 ATTATAA
38490477 TTTTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 15 0.50
28 14 0.47
29 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTATAAAAAATATTAAAATTTAATAGAA
Found at i:38490755 original size:29 final size:28
Alignment explanation
Indices: 38490723--38490818 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 28
38490713 TTACATTTTG
38490723 TATAATTATTTTATGAATTTATAAAATTT
1 TATAATT-TTTTATGAATTTATAAAATTT
* *
38490752 TATATATTTTTTAT--ATTTCTATATATTT
1 TATA-ATTTTTTATGAATTTATA-AAATTT
* * *
38490780 TATAAATTTTTTACGATTTTTATAAAATTG
1 TAT-AATTTTTTATGA-ATTTATAAAATTT
*
38490810 TACAATTTT
1 TATAATTTT
38490819 ATATATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
27 6 0.11
28 16 0.30
29 17 0.32
30 9 0.17
31 5 0.09
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TATAATTTTTTATGAATTTATAAAATTT
Found at i:38490760 original size:9 final size:9
Alignment explanation
Indices: 38490748--38490789 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
38490738 AATTTATAAA
38490748 ATTTTATAT
1 ATTTTATAT
*
38490757 ATTTTTTAT
1 ATTTTATAT
38490766 ATTTCTATAT
1 ATTT-TATAT
*
38490776 ATTTTATAA
1 ATTTTATAT
38490785 ATTTT
1 ATTTT
38490790 TTACGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTATAT
Found at i:38490780 original size:28 final size:28
Alignment explanation
Indices: 38490702--38490792 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
38490692 TTTTACGAAA
* * *
38490702 TTTATATTTCTTTACATTTTGTATAATTAT
1 TTTATATTTCTATAAATTTTATAT-ATT-T
*
38490732 TTTATGAATT-TATAAAATTTTATATATTT
1 TTTAT-ATTTCTAT-AAATTTTATATATTT
* *
38490761 TTTATATTTCTATATATTTTATAAATTT
1 TTTATATTTCTATAAATTTTATATATTT
38490789 TTTA
1 TTTA
38490793 CGATTTTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
28 20 0.39
29 9 0.18
30 10 0.20
31 12 0.24
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATATTTCTATAAATTTTATATATTT
Found at i:38490788 original size:19 final size:18
Alignment explanation
Indices: 38490740--38490789 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
38490730 ATTTTATGAA
38490740 TTTATAAAATTTTATATAT
1 TTTAT-AAATTTTATATAT
* *
38490759 TTTTTATATTTCTATATAT
1 TTTATAAATTT-TATATAT
38490778 TTTATAAATTTT
1 TTTATAAATTTT
38490790 TTACGATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATAAATTTTATATAT
Found at i:38490802 original size:20 final size:20
Alignment explanation
Indices: 38490777--38490852 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 20
38490767 TTTCTATATA
38490777 TTTTATAAATTTTTTACGAT
1 TTTTATAAATTTTTTACGAT
* * *
38490797 TTTTATAAA-ATTGTACAAT
1 TTTTATAAATTTTTTACGAT
*
38490816 TTTATATATATTATTTTACGAT
1 TTT-TATAAATT-TTTTACGAT
38490838 TTTTAATAAATTTTT
1 TTTT-ATAAATTTTT
38490853 AATATCTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
19 10 0.23
20 14 0.32
21 4 0.09
22 16 0.36
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTATAAATTTTTTACGAT
Found at i:38491075 original size:86 final size:88
Alignment explanation
Indices: 38490951--38491123 Score: 251
Period size: 86 Copynumber: 2.0 Consensus size: 88
38490941 TTTTTTTTTA
* ** *
38490951 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGTAGGG
1 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAAAACAGAG
*
38491016 GCTTAATTGCTTTTTTTGAAAAG
66 GCTTAATTGCTTTTTTTAAAAAG
* * * *
38491039 GTTTGAGGG-CTTTTT-ATGCATTTTTAAAGTTTAAGTACCGAAATGAGTGTAAAAAAAACAGAG
1 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAAAACAGAG
38491102 GCTTAATTGCTTTTTTTAAAAA
66 GCTTAATTGCTTTTTTTAAAAA
38491124 AAAGAATTTG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
86 61 0.80
87 6 0.08
88 9 0.12
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (88 bp):
GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAAAACAGAG
GCTTAATTGCTTTTTTTAAAAAG
Found at i:38494791 original size:20 final size:21
Alignment explanation
Indices: 38494758--38494815 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
38494748 TACAAATCAA
*
38494758 TAAAAGTT-ATAAAAATTA-T
1 TAAAATTTAATAAAAATTATT
* *
38494777 TAAACTTTAATAAAAAATATT
1 TAAAATTTAATAAAAATTATT
*
38494798 TAAAATTTACTAAAAATT
1 TAAAATTTAATAAAAATT
38494816 GAAAAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 6 0.19
20 9 0.29
21 16 0.52
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATTTAATAAAAATTATT
Found at i:38495142 original size:10 final size:10
Alignment explanation
Indices: 38495098--38495143 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
38495088 TATTTTTTCT
38495098 ATATTTCTAT-
1 ATATTT-TATA
38495108 ATATTTTATA
1 ATATTTTATA
*
38495118 AT-TTTTAAA
1 ATATTTTATA
*
38495127 AAATTTTATA
1 ATATTTTATA
38495137 ATATTTT
1 ATATTTT
38495144 TTTTCTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 10 0.33
10 20 0.67
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTTATA
Found at i:38499307 original size:25 final size:26
Alignment explanation
Indices: 38499247--38499331 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
38499237 AATTTTCTCG
* *
38499247 AAATTTTA-CAGGAGGCAAAATCGCCA
1 AAATTTTACCAGGA-GTAAAATAGCCA
38499273 AAATTTTACCAGGAGTAAAATAGCC-
1 AAATTTTACCAGGAGTAAAATAGCCA
* *
38499298 AAATTTTACCAAGG-GTAAAATTGTCA
1 AAATTTTACC-AGGAGTAAAATAGCCA
38499324 AAATTTTA
1 AAATTTTA
38499332 TTGGGGTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
25 19 0.37
26 28 0.54
27 5 0.10
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (26 bp):
AAATTTTACCAGGAGTAAAATAGCCA
Found at i:38502276 original size:16 final size:15
Alignment explanation
Indices: 38502234--38502276 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
38502224 GGACGAATAC
*
38502234 ATTTCTCG-ATGTCG
1 ATTTCTCGAATGTTG
38502248 ATTTCTC-AATGTTG
1 ATTTCTCGAATGTTG
38502262 ATTTTCTCGAATGTT
1 A-TTTCTCGAATGTT
38502277 TACAGGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
15 6 0.24
16 6 0.24
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (15 bp):
ATTTCTCGAATGTTG
Found at i:38506073 original size:18 final size:18
Alignment explanation
Indices: 38506032--38506073 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38506022 TTCATGATTC
38506032 ATAA-TTTTTAATTTTTA
1 ATAATTTTTTAATTTTTA
*
38506049 ATTATTTTTTCAATTTTT-
1 ATAATTTTTT-AATTTTTA
38506067 ATAATTT
1 ATAATTT
38506074 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 11 0.52
19 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATAATTTTTTAATTTTTA
Found at i:38507748 original size:50 final size:51
Alignment explanation
Indices: 38507689--38507829 Score: 178
Period size: 51 Copynumber: 2.8 Consensus size: 51
38507679 AAAGTGATGG
* * *
38507689 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-ATAGA
* * * *
38507739 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATAGA
* *
38507790 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
38507830 AACATCATTG
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
50 38 0.49
51 39 0.50
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATAGA
Found at i:38507820 original size:51 final size:50
Alignment explanation
Indices: 38507689--38507822 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
38507679 AAAGTGATGG
* * *
38507689 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
* * * *
38507739 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-G-ATAGA
38507790 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
38507823 TGAACCGAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 2 0.03
50 38 0.52
51 33 0.45
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
Found at i:38507882 original size:45 final size:45
Alignment explanation
Indices: 38507826--38507920 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
38507816 TACTATGTGA
* *
38507826 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
38507871 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
38507916 ACCGA
1 ACCGA
38507921 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:38510143 original size:30 final size:28
Alignment explanation
Indices: 38510084--38510160 Score: 104
Period size: 30 Copynumber: 2.7 Consensus size: 28
38510074 TTTTAAAATT
38510084 TTATAAAA-ATTCAAAAATAAATAAAAA
1 TTATAAAATATTCAAAAATAAATAAAAA
38510111 TTATAAAATATTCCAAATATATAAAT-AAAA
1 TTATAAAATATT-CAAA-A-ATAAATAAAAA
*
38510141 TTATAAAATATTAAAAAATA
1 TTATAAAATATTCAAAAATA
38510161 TTACTAATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 11 0.24
28 4 0.09
29 7 0.16
30 17 0.38
31 6 0.13
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (28 bp):
TTATAAAATATTCAAAAATAAATAAAAA
Found at i:38517100 original size:22 final size:22
Alignment explanation
Indices: 38517071--38517134 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
38517061 AGTTAATGAA
38517071 AATG-AAATAACAATACTTGTTG
1 AATGAAAATAACAATAC-TGTTG
* *
38517093 AAT-AAAATAACAA-GCTATT-
1 AATGAAAATAACAATACTGTTG
38517112 AATGAAAATAACAATACATGTTG
1 AATGAAAATAACAATAC-TGTTG
38517135 TACACCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
19 3 0.09
20 13 0.39
21 2 0.06
22 15 0.45
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (22 bp):
AATGAAAATAACAATACTGTTG
Found at i:38520776 original size:28 final size:29
Alignment explanation
Indices: 38520731--38520785 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
38520721 TTCTGTTATT
38520731 TTAATAAGATTTAATATTAAATTTAATAC
1 TTAATAAGATTTAATATTAAATTTAATAC
* *
38520760 TTAATAA-CTTTATTATTAAATTTAAT
1 TTAATAAGATTTAATATTAAATTTAAT
38520786 CTAATAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (29 bp):
TTAATAAGATTTAATATTAAATTTAATAC
Found at i:38521970 original size:3 final size:3
Alignment explanation
Indices: 38521962--38521996 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
38521952 GACAATGAGA
38521962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38521997 AGTATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:38529969 original size:17 final size:17
Alignment explanation
Indices: 38529947--38529984 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38529937 TATTATTTAT
38529947 TTAATTAATTGAATTAA
1 TTAATTAATTGAATTAA
* *
38529964 TTAATTAATTTACTTAA
1 TTAATTAATTGAATTAA
38529981 TTAA
1 TTAA
38529985 ATTATTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAATTAATTGAATTAA
Found at i:38539242 original size:43 final size:43
Alignment explanation
Indices: 38539128--38539247 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 43
38539118 CATAGGATTC
* * *
38539128 CGATATGTGATTACGTGTAAGACCATGCCTGAGACATCGGCGT
1 CGATATATGATTACGTGTAAGACCATGTCTGGGACATCGGCGT
* *
38539171 CG-TATATGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCGT
1 CGATATATGATTACGTGTAAGACCATGTCTGGGACA-TCGGCGT
* * *
38539213 CGATATTTGATTACATGTAAGATCATGTCTGGGAC
1 CGATATATGATTACGTGTAAGACCATGTCTGGGAC
38539248 GTTGGCATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 35 0.54
43 30 0.46
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
CGATATATGATTACGTGTAAGACCATGTCTGGGACATCGGCGT
Found at i:38542839 original size:64 final size:61
Alignment explanation
Indices: 38542770--38542890 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 61
38542760 TTAGATTATA
38542770 TATCATTAAATTAAATTATTTAAATATTTTATGTATCATTATATTGAATTATTTAAATATAATT
1 TATCATTAAATTAAATTATTTAAAT-TTTT-T-TATCATTATATTGAATTATTTAAATATAATT
* * * * *
38542834 TATCATTATATTAAATTATTTAAATTTTTTTATTATTATATTTACTTTTTTAAATAT
1 TATCATTAAATTAAATTATTTAAATTTTTTTATCATTATATTGAATTATTTAAATAT
38542891 TTTATATGTC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 23 0.44
62 1 0.02
63 4 0.08
64 24 0.46
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (61 bp):
TATCATTAAATTAAATTATTTAAATTTTTTTATCATTATATTGAATTATTTAAATATAATT
Done.