Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 160 of 325
Found at i:51327745 original size:86 final size:85
Alignment explanation
Indices: 51327635--51327797 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
51327625 AGCTCATACA
* * * * * *
51327635 ATGCCATATCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCATTGTCCCAAACAGGGT
1 ATGCCATATCCCAGAAATGGTCTTACACGTAATCACAATA-CAATGCAAATGTCCCAAACAGGGT
51327699 CTTACATGAAATCGATTAACG
65 CTTACATGAAATCGATTAACG
* * *
51327720 ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTCAATACAATGCAAATGTCCCAAACATGGT
1 ATGCC-ATATCCCAGAAATGGTCTTACACGTAATCACAATACAATGCAAATGTCCCAAACAGGGT
*
51327785 CTTACATGTAATC
65 CTTACATGAAATC
51327798 ATATCTCGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
85 5 0.08
86 58 0.88
87 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (85 bp):
ATGCCATATCCCAGAAATGGTCTTACACGTAATCACAATACAATGCAAATGTCCCAAACAGGGTC
TTACATGAAATCGATTAACG
Found at i:51331288 original size:23 final size:24
Alignment explanation
Indices: 51331245--51331289 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
51331235 ATGCTCAGTT
*
51331245 TCATCTCTCGAATAAATCAAAATA
1 TCATCTATCGAATAAATCAAAATA
51331269 TCATCTAT-GAATACAA-CAAAA
1 TCATCTATCGAATA-AATCAAAA
51331290 AATAGATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (24 bp):
TCATCTATCGAATAAATCAAAATA
Found at i:51358537 original size:21 final size:20
Alignment explanation
Indices: 51358517--51358554 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51358507 AAAAAATAAT
51358517 TTAATTTTT-ATGATTTTTAA
1 TTAATTTTTAAT-ATTTTTAA
51358537 TTAATTTTTAATATTTTT
1 TTAATTTTTAATATTTTT
51358555 TATAAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTAATTTTTAATATTTTTAA
Found at i:51358675 original size:20 final size:19
Alignment explanation
Indices: 51358620--51358676 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
51358610 AAATTCTATA
51358620 AAATTTTATGATTTTTAAT
1 AAATTTTATGATTTTTAAT
* *
51358639 TAATTTCTAAT-AATTTTAAT
1 AAATTT-T-ATGATTTTTAAT
51358659 AAATTTTGATGATTTTTA
1 AAATTTT-ATGATTTTTA
51358677 TAATGGTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 8 0.27
20 20 0.67
21 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
AAATTTTATGATTTTTAAT
Found at i:51359364 original size:18 final size:18
Alignment explanation
Indices: 51359338--51359395 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
51359328 GGTTATTTCA
51359338 ATTTCAATTTTCATTTTG
1 ATTTCAATTTTCATTTTG
*
51359356 A-TTCTAATTTTGATTTTG
1 ATTTC-AATTTTCATTTTG
51359374 ATTTCAA-TTTCAATTTTG
1 ATTTCAATTTTC-ATTTTG
51359392 ATTT
1 ATTT
51359396 TGATTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.17
18 26 0.74
19 3 0.09
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTCAATTTTCATTTTG
Found at i:51359365 original size:24 final size:24
Alignment explanation
Indices: 51359332--51359425 Score: 137
Period size: 24 Copynumber: 4.2 Consensus size: 24
51359322 ATTTTGGGTT
*
51359332 ATTTCAATTTCAATTTTCATTTTG
1 ATTTCAATTTCAATTTTGATTTTG
51359356 A-TTC----T-AATTTTGATTTTG
1 ATTTCAATTTCAATTTTGATTTTG
51359374 ATTTCAATTTCAATTTTGATTTTG
1 ATTTCAATTTCAATTTTGATTTTG
51359398 ATTTCAATTTCAATTTTGATTTTG
1 ATTTCAATTTCAATTTTGATTTTG
51359422 ATTT
1 ATTT
51359426 TGGTTTTGGT
Statistics
Matches: 63, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
18 13 0.21
19 4 0.06
23 4 0.06
24 42 0.67
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (24 bp):
ATTTCAATTTCAATTTTGATTTTG
Found at i:51359427 original size:6 final size:6
Alignment explanation
Indices: 51359344--51359442 Score: 74
Period size: 6 Copynumber: 16.7 Consensus size: 6
51359334 TTCAATTTCA
* * * ** **
51359344 ATTTTC ATTTTG ATTCTA ATTTTG ATTTTG ATTTCA ATTTCA ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** ** * *
51359392 ATTTTG ATTTCA ATTTCA ATTTTG ATTTTG ATTTTG GTTTTG GTTTT-
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
51359439 ATTT
1 ATTT
51359443 GTTATTAATG
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
5 3 0.04
6 75 0.96
ACGTcount: A:0.20, C:0.06, G:0.11, T:0.63
Consensus pattern (6 bp):
ATTTTG
Found at i:51359779 original size:62 final size:61
Alignment explanation
Indices: 51359692--51359811 Score: 231
Period size: 62 Copynumber: 2.0 Consensus size: 61
51359682 TTGGTTATTG
51359692 TCTACCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTTGTATTGGTTACCA
1 TCTACCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTA-TTTTGTATTGGTTACCA
51359754 TCTACCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTATTGGTTA
1 TCTACCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTATTGGTTA
51359812 TTGTTTGACA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 14 0.24
62 44 0.76
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (61 bp):
TCTACCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTATTGGTTACCA
Found at i:51359942 original size:24 final size:24
Alignment explanation
Indices: 51359910--51359960 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
51359900 TTTAATGAGA
*
51359910 ATGAAGAAGAAATGTCTGGTAGTG
1 ATGAAGAAGAAATGTCTGATAGTG
*
51359934 ATGAAGAAGAAATGTTTGATAGTG
1 ATGAAGAAGAAATGTCTGATAGTG
51359958 ATG
1 ATG
51359961 TGTCTGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.31, T:0.27
Consensus pattern (24 bp):
ATGAAGAAGAAATGTCTGATAGTG
Found at i:51361895 original size:93 final size:94
Alignment explanation
Indices: 51361703--51361915 Score: 281
Period size: 96 Copynumber: 2.3 Consensus size: 94
51361693 GTGTGTGTGT
* * * *
51361703 ATGACTATTTTTT--TAATATGCATGCAGTGATTGTTGGTGTGTATGACTATTTTTTTAACATAC
1 ATGAGTATTTTTTAATAATATGCATACAGTGATTGTTGATGTATATGACTATTTTTTTAACATAC
51361766 ATGTTGTTGACTATTTCTTAATATGCATGCA
66 A--TTGTTGACTATTTCTTAATATGCATGCA
* * * *
51361797 GTGAGTATTTTTTAATAATATGCATACAGTGATTGTTGATTTATATGACTGTTTTTTTAATATAC
1 ATGAGTATTTTTTAATAATATGCATACAGTGATTGTTGATGTATATGACTATTTTTTTAACATAC
*
51361862 A-TGTTGACTATCTT-TTAATATGCATGTA
66 ATTGTTGACTAT-TTCTTAATATGCATGCA
51361890 ATGAGTATTTTTTTAATAATATGCAT
1 ATGAGTA-TTTTTTAATAATATGCAT
51361916 GTAGTGACTT
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
93 29 0.28
94 31 0.30
96 45 0.43
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.48
Consensus pattern (94 bp):
ATGAGTATTTTTTAATAATATGCATACAGTGATTGTTGATGTATATGACTATTTTTTTAACATAC
ATTGTTGACTATTTCTTAATATGCATGCA
Found at i:51362693 original size:21 final size:21
Alignment explanation
Indices: 51362667--51362718 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51362657 CAATAGTCTA
*
51362667 CCCCAACTCAGT-TACAAACTG
1 CCCCAACTCA-TCAACAAACTG
*
51362688 CCCCAACTCATCAACAAGCTG
1 CCCCAACTCATCAACAAACTG
51362709 CCCCAACTCA
1 CCCCAACTCA
51362719 CCAAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.33, C:0.44, G:0.08, T:0.15
Consensus pattern (21 bp):
CCCCAACTCATCAACAAACTG
Found at i:51362738 original size:24 final size:21
Alignment explanation
Indices: 51362685--51362730 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
51362675 CAGTTACAAA
* *
51362685 CTGCCCCAACTCATCAACAAG
1 CTGCCCCAACTCACCAAAAAG
51362706 CTGCCCCAACTCACCAAAAAG
1 CTGCCCCAACTCACCAAAAAG
51362727 CTGC
1 CTGC
51362731 TGCCCCAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.43, G:0.11, T:0.13
Consensus pattern (21 bp):
CTGCCCCAACTCACCAAAAAG
Found at i:51363455 original size:36 final size:36
Alignment explanation
Indices: 51363415--51363492 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
51363405 GGTTAGCCAT
*
51363415 ATATACCAACAGCCATGTATAACAATATAAACAACA
1 ATATACCAACAGCCATGTATAACAACATAAACAACA
*
51363451 ATATACCAACAGCCATGTATAACAACGTAAACAACA
1 ATATACCAACAGCCATGTATAACAACATAAACAACA
51363487 ATATAC
1 ATATAC
51363493 TAGCAACAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.19
Consensus pattern (36 bp):
ATATACCAACAGCCATGTATAACAACATAAACAACA
Found at i:51363500 original size:39 final size:38
Alignment explanation
Indices: 51363413--51363500 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 38
51363403 CTGGTTAGCC
*
51363413 ATATA-TACCAACAGCCATGTATAACAATATAAACAACA
1 ATATACTA-CAACAGCCATGTATAACAACATAAACAACA
*
51363451 ATATAC--CAACAGCCATGTATAACAACGTAAACAACA
1 ATATACTACAACAGCCATGTATAACAACATAAACAACA
51363487 ATATACTAGCAACA
1 ATATACTA-CAACA
51363501 ATATTACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 34 0.77
38 5 0.11
39 5 0.11
ACGTcount: A:0.51, C:0.23, G:0.07, T:0.19
Consensus pattern (38 bp):
ATATACTACAACAGCCATGTATAACAACATAAACAACA
Found at i:51363872 original size:15 final size:15
Alignment explanation
Indices: 51363852--51363881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51363842 TAGGCATCTC
51363852 CATTTTTCCTCTTCT
1 CATTTTTCCTCTTCT
*
51363867 CATTTTTCTTCTTCT
1 CATTTTTCCTCTTCT
51363882 TCTTCTCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (15 bp):
CATTTTTCCTCTTCT
Found at i:51364453 original size:5 final size:5
Alignment explanation
Indices: 51364443--51364473 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
51364433 ATATTTTTAA
51364443 TTATT TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT T
51364474 GATATAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:51365487 original size:6 final size:6
Alignment explanation
Indices: 51365476--51365503 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
51365466 TCTTCCATCA
51365476 TTTCTT TTTCTT TTTCTT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTC
51365504 AGTTTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:51366233 original size:15 final size:15
Alignment explanation
Indices: 51366215--51366246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51366205 TCTGATTTCC
*
51366215 ATGATCCTGATGATG
1 ATGATCATGATGATG
51366230 ATGATCATGATGATG
1 ATGATCATGATGATG
51366245 AT
1 AT
51366247 CAAAACAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (15 bp):
ATGATCATGATGATG
Found at i:51366239 original size:12 final size:12
Alignment explanation
Indices: 51366224--51366248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51366214 CATGATCCTG
51366224 ATGATGATGATC
1 ATGATGATGATC
51366236 ATGATGATGATC
1 ATGATGATGATC
51366248 A
1 A
51366249 AAACAGTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGATGATGATC
Found at i:51370398 original size:21 final size:22
Alignment explanation
Indices: 51370332--51370404 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
51370322 ATATTAGTAT
* *
51370332 TAATAATAATGATAATAATAATA
1 TAATAATAGTAATAA-AATAATA
* **
51370355 GAA-AATAAAAATAAAATAATA
1 TAATAATAGTAATAAAATAATA
*
51370376 TAGTAATAGTAATAAAA-AATA
1 TAATAATAGTAATAAAATAATA
51370397 TAATAATA
1 TAATAATA
51370405 ATAGTAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 19 0.46
22 20 0.49
23 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
TAATAATAGTAATAAAATAATA
Found at i:51370423 original size:22 final size:22
Alignment explanation
Indices: 51370393--51370434 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51370383 AGTAATAAAA
* *
51370393 AATATAATAATAATAGTAATTT
1 AATACAATAATAATAATAATTT
*
51370415 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
51370435 AAAAGGGTGA
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:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
AATACAATAATAATAATAATTT
Found at i:51370452 original size:3 final size:3
Alignment explanation
Indices: 51370263--51370436 Score: 110
Period size: 3 Copynumber: 60.0 Consensus size: 3
51370253 AAAACGATAG
* * * * * *
51370263 TAA TAA TAA TAT TGA TAA TAA TAC TAA TGA TAA TAA TAA GAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
51370311 TAA GAA TAT TAA TAT TAG TAT TAA TAA TAA TGA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
51370357 AAA TAA AAA TAA -AA TAA T-A TAG TAA TAG TAA TAA -AA -AA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
51370400 TAA TAA TAG TAA T-T TAA T-A CAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51370437 AAGGGTGATA
Statistics
Matches: 126, Mismatches: 38, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
2 12 0.10
3 112 0.89
4 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:51371124 original size:6 final size:7
Alignment explanation
Indices: 51371108--51371132 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51371098 AAATTTACTC
51371108 TTTTTAT
1 TTTTTAT
51371115 TTTTTAT
1 TTTTTAT
51371122 TTTTTAT
1 TTTTTAT
51371129 TTTT
1 TTTT
51371133 CAACACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:51374900 original size:15 final size:15
Alignment explanation
Indices: 51374880--51374908 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51374870 ATGTGGGAGC
51374880 GGCTGTTGCTGCTGA
1 GGCTGTTGCTGCTGA
51374895 GGCTGTTGCTGCTG
1 GGCTGTTGCTGCTG
51374909 CTGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.21, G:0.41, T:0.34
Consensus pattern (15 bp):
GGCTGTTGCTGCTGA
Found at i:51374962 original size:3 final size:3
Alignment explanation
Indices: 51374956--51374983 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
51374946 AGCTGTGGGA
51374956 GCT GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT G
51374984 TGGCATCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (3 bp):
GCT
Found at i:51374977 original size:27 final size:27
Alignment explanation
Indices: 51374902--51374965 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
51374892 TGAGGCTGTT
51374902 GCTGCTGCTGTTGTTGCAGCTGTGGAA
1 GCTGCTGCTGTTGTTGCAGCTGTGGAA
*
51374929 GCTGCTGCTGTTGTTGCAGCTGTGGGA
1 GCTGCTGCTGTTGTTGCAGCTGTGGAA
51374956 GCTGCTGCTG
1 GCTGCTGCTG
51374966 CTGCTGCTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.08, C:0.20, G:0.39, T:0.33
Consensus pattern (27 bp):
GCTGCTGCTGTTGTTGCAGCTGTGGAA
Found at i:51389645 original size:15 final size:15
Alignment explanation
Indices: 51389617--51389650 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51389607 GCGTTCAATT
51389617 GAATTAAATCGAATC
1 GAATTAAATCGAATC
* *
51389632 GAATTGAATTGAATC
1 GAATTAAATCGAATC
51389647 GAAT
1 GAAT
51389651 GAAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (15 bp):
GAATTAAATCGAATC
Found at i:51390292 original size:53 final size:52
Alignment explanation
Indices: 51390171--51390294 Score: 124
Period size: 53 Copynumber: 2.3 Consensus size: 52
51390161 AAATGTTTTT
* *
51390171 AGGTTTGGAAGGAAGTAAAAGTTTTGGGGAAAAGAAAAAGGAAAAAAATTTAA
1 AGGTTTGGGA-GAAGTAAAAATTTTGGGGAAAAGAAAAAGGAAAAAAATTTAA
* * ** **
51390224 AGGTTCTGGGGGAAGTAAAAATTTTGGGAGGAAAATAAAAA-GAAAAACTTTTGG
1 AGGTT-TGGGAGAAGTAAAAATTTT-GG-GGAAAAGAAAAAGGAAAAAAATTTAA
*
51390278 GGGTTTGGGAGAAGTAA
1 AGGTTTGGGAGAAGTAA
51390295 TTTTTTTAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
53 29 0.50
54 18 0.31
55 11 0.19
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (52 bp):
AGGTTTGGGAGAAGTAAAAATTTTGGGGAAAAGAAAAAGGAAAAAAATTTAA
Found at i:51396829 original size:28 final size:28
Alignment explanation
Indices: 51396760--51396829 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
51396750 AATGAGATTG
*
51396760 GCACTAAGTGTGCAAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
*
51396788 GCACTAAGTGTGCGAGTTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
51396816 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51396830 GACTTACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 33 0.87
29 4 0.11
30 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:51402889 original size:10 final size:10
Alignment explanation
Indices: 51402854--51402899 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
51402844 TATAGTCCGA
51402854 CACATATCAAT
1 CACATAT-AAT
*
51402865 CACATATAAG
1 CACATATAAT
51402875 CACATATAAT
1 CACATATAAT
* *
51402885 TACATACAAT
1 CACATATAAT
51402895 CACAT
1 CACAT
51402900 TTAGTCATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (10 bp):
CACATATAAT
Found at i:51406208 original size:49 final size:47
Alignment explanation
Indices: 51406034--51406299 Score: 415
Period size: 47 Copynumber: 5.6 Consensus size: 47
51406024 CCCTTCGGGA
* * * * * *
51406034 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51406081 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51406128 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51406175 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51406224 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51406273 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
51406300 ACCAACCCTT
Statistics
Matches: 205, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 109 0.53
49 96 0.47
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51406227 original size:96 final size:94
Alignment explanation
Indices: 51406034--51406299 Score: 415
Period size: 96 Copynumber: 2.8 Consensus size: 94
51406024 CCCTTCGGGA
* * * * * * * *
51406034 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
51406099 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
51406128 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
51406193 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
51406224 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51406289 ACTTTCACATT
64 ACTTTCACATT
51406300 ACCAACCCTT
Statistics
Matches: 158, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
94 46 0.29
96 65 0.41
98 47 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:51406629 original size:40 final size:41
Alignment explanation
Indices: 51406524--51406666 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 41
51406514 GCTACTCGTT
*
51406524 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
51406564 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
51406604 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
*
51406645 CAAA-GCCTTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
51406667 AGACATCATT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
39 4 0.04
40 73 0.81
41 13 0.14
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:51414053 original size:46 final size:46
Alignment explanation
Indices: 51413983--51414076 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
51413973 TTATGCATTT
*
51413983 TTTTATTAATAGTAACAGAGCATTATAATGAATTATAAACCATACA
1 TTTTATTAATAGTAACAGACCATTATAATGAATTATAAACCATACA
51414029 TTTTATTAATAGTAACAGACCATTATAATGAATTATAAACCATACA
1 TTTTATTAATAGTAACAGACCATTATAATGAATTATAAACCATACA
51414075 TT
1 TT
51414077 CACTTTGTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (46 bp):
TTTTATTAATAGTAACAGACCATTATAATGAATTATAAACCATACA
Found at i:51424443 original size:40 final size:39
Alignment explanation
Indices: 51424399--51424498 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
51424389 ACAATTCTAA
51424399 TATATATGGCACTTAGTGTGAAAGTCAAGAAA-ACTTCAGC
1 TATATATGGCACTTAGTGTGAAAGTC--GAAAGACTTCAGC
* ** * *
51424439 TATATTTGGCACTTAGTGTGCGATTCGAAATGACTTCGGC
1 TATATATGGCACTTAGTGTGAAAGTCGAAA-GACTTCAGC
51424479 TATATATGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
51424499 TGAGACTGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.08
40 48 0.92
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (39 bp):
TATATATGGCACTTAGTGTGAAAGTCGAAAGACTTCAGC
Found at i:51432676 original size:79 final size:82
Alignment explanation
Indices: 51432565--51432749 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
51432555 GCTACTCGTT
* * *
51432565 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51432628 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
51432645 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
51432708 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
51432725 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51432750 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:51432749 original size:40 final size:40
Alignment explanation
Indices: 51432546--51432749 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
51432536 CGGAATTTAA
** *
51432546 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51432586 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
51432626 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51432665 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51432705 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51432745 CCGGA
1 CCGGA
51432750 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51440600 original size:79 final size:82
Alignment explanation
Indices: 51440489--51440673 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
51440479 GCTACTCGTT
* * *
51440489 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51440552 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
51440569 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
51440632 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
51440649 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51440674 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:51440673 original size:40 final size:40
Alignment explanation
Indices: 51440470--51440673 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
51440460 CGGAATTTAA
** *
51440470 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51440510 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
51440550 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51440589 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51440629 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51440669 CCGGA
1 CCGGA
51440674 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51444421 original size:14 final size:13
Alignment explanation
Indices: 51444401--51444432 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
51444391 AATATTTGAC
51444401 TTGTTCTTAATTA
1 TTGTTCTTAATTA
51444414 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
51444428 TTGTT
1 TTGTT
51444433 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:51445193 original size:19 final size:19
Alignment explanation
Indices: 51445158--51445195 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51445148 TTGCAATTTA
*
51445158 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
51445177 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
51445196 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:51452682 original size:14 final size:15
Alignment explanation
Indices: 51452663--51452692 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51452653 ATATTTCACT
51452663 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
51452677 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
51452692 T
1 T
51452693 TTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:51455245 original size:25 final size:25
Alignment explanation
Indices: 51455194--51455292 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
51455184 ACAAGGAATT
* ** **
51455194 TTTAGATCATCTGCCATTAAGAATC
1 TTTAGATAATCTGCCACAAAGGCTC
51455219 TTTAGATAATCTGCCACAAAGGCTC
1 TTTAGATAATCTGCCACAAAGGCTC
*
51455244 TTTAGATAATTTGCCACAAAGGCTC
1 TTTAGATAATCTGCCACAAAGGCTC
* * *
51455269 TTCAGATGAT-TCACCACAAAGGCT
1 TTTAGATAATCT-GCCACAAAGGCT
51455293 TGGTTTGGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 1 0.02
25 63 0.98
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (25 bp):
TTTAGATAATCTGCCACAAAGGCTC
Found at i:51458920 original size:27 final size:27
Alignment explanation
Indices: 51458887--51459030 Score: 159
Period size: 27 Copynumber: 5.3 Consensus size: 27
51458877 CCTTATGTGA
* * *
51458887 TAAAATGACTGAAATACCCCCATATGG
1 TAAAATGACCGAAATACCCCTATAAGG
51458914 TAAAATGACCGAAATA-CCCTCATAAGG
1 TAAAATGACCGAAATACCCCT-ATAAGG
51458941 TAAAATGACCGAAATACCCCTAT-AGG
1 TAAAATGACCGAAATACCCCTATAAGG
* * *
51458967 ATAGAATGACC-ACAATACCCCTGTAGGG
1 -TAAAATGACCGA-AATACCCCTATAAGG
* * *
51458995 TAAAATGACTGTAATACCCCTGTAAGG
1 TAAAATGACCGAAATACCCCTATAAGG
51459022 TAAAATGAC
1 TAAAATGAC
51459031 AGATTTGTTC
Statistics
Matches: 101, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.07
27 88 0.87
28 6 0.06
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.21
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCTATAAGG
Found at i:51459095 original size:22 final size:24
Alignment explanation
Indices: 51459065--51459110 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
51459055 ATGTATTTGA
51459065 GCATGCCATGT-T-ATATATATGTT
1 GCATGCCATGTATGATAT-TATGTT
51459088 GCAT-CCATGTATGATATTATGTT
1 GCATGCCATGTATGATATTATGTT
51459111 ACATTGCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (24 bp):
GCATGCCATGTATGATATTATGTT
Found at i:51459404 original size:18 final size:18
Alignment explanation
Indices: 51459381--51459455 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 18
51459371 TGCATATTGC
51459381 ATTGATTACTGTTACTAA
1 ATTGATTACTGTTACTAA
*
51459399 ATTGATCA-TGGTTAC-AA
1 ATTGATTACT-GTTACTAA
* **
51459416 CACTGATTACTGTTACTGC
1 -ATTGATTACTGTTACTAA
* *
51459435 ACTGATTAATGTTACTGAA
1 ATTGATTACTGTTACT-AA
51459454 AT
1 AT
51459456 GGGCTAAAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
17 3 0.07
18 38 0.88
19 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (18 bp):
ATTGATTACTGTTACTAA
Found at i:51459538 original size:34 final size:34
Alignment explanation
Indices: 51459444--51459538 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
51459434 CACTGATTAA
* *
51459444 TGTTACTGAAATGGGCTAAAGCCCAAACCGCTAC
1 TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
*
51459478 TGTTACTGAAATGGGCTAAGGCCCAGACTGCTAC
1 TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
* * *
51459512 TGTTACTGATATGGGCTTAGGTCCAGA
1 TGTTACTGAAATGGGCTAAGGCCCAGA
51459539 ATGTATTCGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (34 bp):
TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
Found at i:51460582 original size:6 final size:6
Alignment explanation
Indices: 51460571--51460599 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51460561 GTTTTTTTCC
51460571 AAAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAAT
51460600 CACCTGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:51462864 original size:40 final size:40
Alignment explanation
Indices: 51462770--51462994 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
51462760 TATTCGAATG
*
51462770 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
51462811 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
51462851 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
51462891 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
51462931 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
51462971 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
51462995 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:51462950 original size:80 final size:80
Alignment explanation
Indices: 51462770--51463030 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
51462760 TATTCGAATG
* * * *
51462770 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
51462835 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
51462851 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
51462916 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
51462931 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
51462996 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
51463010 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
51463031 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:51462984 original size:120 final size:120
Alignment explanation
Indices: 51462770--51463030 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
51462760 TATTCGAATG
* * *
51462770 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
51462835 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
51462891 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
51462954 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
51463010 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
51463031 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:51467079 original size:30 final size:29
Alignment explanation
Indices: 51467033--51467253 Score: 118
Period size: 29 Copynumber: 7.6 Consensus size: 29
51467023 TGTTTCTTGA
* *
51467033 CAGAGATAGCCACAAAGGTTGTCCTTTAG
1 CAGAGATAGCCACAAAGGCTATCCTTTAG
* *
51467062 TAGAGATTAGCCGCAAAGGCTATCCTTTAG
1 CAGAGA-TAGCCACAAAGGCTATCCTTTAG
* * *
51467092 CAAAGATAGCCACAAAGGCT-TCATTTAA
1 CAGAGATAGCCACAAAGGCTATCCTTTAG
* * *
51467120 CATTCA-ATACTCACCACAAAGGCTTTCCTTTTAG
1 CA--GAGATA---GCCACAAAGGCTATCC-TTTAG
* * *
51467154 -AG-TATTGCCAAAAAGGC-ATTCCTTT--
1 CAGAGATAGCCACAAAGGCTA-TCCTTTAG
* * *
51467179 CAGAGATAGCCACGAAGGCGT-TCTTTTAA
1 CAGAGATAGCCACAAAGGC-TATCCTTTAG
* *
51467208 CAGAGATAGCCACAAAGACT-TCCTTATAA
1 CAGAGATAGCCACAAAGGCTATCCTT-TAG
*
51467237 TAGAGATAGCCACAAAG
1 CAGAGATAGCCACAAAG
51467254 ACTCACTTAT
Statistics
Matches: 148, Mismatches: 27, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
26 2 0.01
27 19 0.13
28 25 0.17
29 57 0.39
30 25 0.17
31 2 0.01
32 11 0.07
33 3 0.02
34 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (29 bp):
CAGAGATAGCCACAAAGGCTATCCTTTAG
Found at i:51467110 original size:29 final size:29
Alignment explanation
Indices: 51467036--51467111 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
51467026 TTCTTGACAG
* * * *
51467036 AGATAGCCACAAAGGTTGTCCTTTAGTAG
1 AGATAGCCACAAAGGCTATCCTTTAGCAA
*
51467065 AGATTAGCCGCAAAGGCTATCCTTTAGCAA
1 AGA-TAGCCACAAAGGCTATCCTTTAGCAA
51467095 AGATAGCCACAAAGGCT
1 AGATAGCCACAAAGGCT
51467112 TCATTTAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (29 bp):
AGATAGCCACAAAGGCTATCCTTTAGCAA
Found at i:51467216 original size:29 final size:29
Alignment explanation
Indices: 51467179--51467264 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
51467169 GCATTCCTTT
* * *
51467179 CAGAGATAGCCACGAAGGCGTT-CTTTTAA
1 CAGAGATAGCCACAAAGAC-TTCCTTATAA
51467208 CAGAGATAGCCACAAAGACTTCCTTATAA
1 CAGAGATAGCCACAAAGACTTCCTTATAA
*
51467237 TAGAGATAGCCACAAAGAC-TCACTTATA
1 CAGAGATAGCCACAAAGACTTC-CTTATA
51467265 CAGGAATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.08
29 47 0.92
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (29 bp):
CAGAGATAGCCACAAAGACTTCCTTATAA
Found at i:51475562 original size:47 final size:47
Alignment explanation
Indices: 51475508--51475749 Score: 331
Period size: 47 Copynumber: 5.1 Consensus size: 47
51475498 TTAGGATTTT
** *
51475508 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
* *
51475555 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATA--TGAGATAAGGCCGAATGGCCA
** * *
51475606 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
*
51475653 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
* * *
51475700 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
51475747 ATG
1 ATG
51475750 AGAAATGTGT
Statistics
Matches: 176, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 129 0.73
49 9 0.05
51 38 0.22
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
Found at i:51475610 original size:24 final size:24
Alignment explanation
Indices: 51475582--51475657 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
51475572 CTGTATATAT
51475582 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
51475606 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
51475629 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
51475653 ATGTG
1 ATGTG
51475658 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:51475785 original size:46 final size:47
Alignment explanation
Indices: 51475723--51475841 Score: 170
Period size: 46 Copynumber: 2.6 Consensus size: 47
51475713 GAACATGTAT
* *
51475723 ATATGTGGTAAGGCCGAATGGCTAATGA-GAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGACGAAACGTGTATGAGATAG
* *
51475769 ATATGAGGTAAAGCCGAATGGCTAAT-ACGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGACGAAACGTGTATGAGATAG
* *
51475815 ATATGTGGTAAAGTCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
51475842 TGAGATATGG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
45 1 0.02
46 63 0.98
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.25
Consensus pattern (47 bp):
ATATGTGGTAAAGCCGAATGGCTAATGACGAAACGTGTATGAGATAG
Found at i:51475856 original size:46 final size:46
Alignment explanation
Indices: 51475723--51475859 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
51475713 GAACATGTAT
* *
51475723 ATATGTGGTAAGGCCGAATGGCTAATGAGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATGG
* *
51475769 ATATGAGGTAAAGCCGAATGGCTAAT-ACGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGA-GAAATGTGTATGAGATGG
* * * * * *
51475815 ATATGTGGTAAAGTCAAATGGCTAATGTGAGATATGGATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATG
51475860 TGTATATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.01
46 76 0.99
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATGG
Found at i:51479023 original size:16 final size:17
Alignment explanation
Indices: 51478987--51479021 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
51478977 TTTTAAGCTC
51478987 TTAAAAAAATTACACAT
1 TTAAAAAAATTACACAT
*
51479004 TTAAAAAATTTACACAT
1 TTAAAAAAATTACACAT
51479021 T
1 T
51479022 AACTTACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATTACACAT
Found at i:51481363 original size:9 final size:9
Alignment explanation
Indices: 51481349--51481410 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
51481339 GTTACTAGTT
51481349 TTATTTTTA
1 TTATTTTTA
51481358 TTATTTTTA
1 TTATTTTTA
51481367 TTATTATGTTTA
1 TTA-T-T-TTTA
*
51481379 TTCTTGTTATGA
1 TTATT-TT-T-A
51481391 TTATTTTTA
1 TTATTTTTA
*
51481400 TCATTTTTA
1 TTATTTTTA
51481409 TT
1 TT
51481411 TTTCATTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 22 0.50
10 6 0.14
11 5 0.11
12 11 0.25
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (9 bp):
TTATTTTTA
Found at i:51481367 original size:15 final size:15
Alignment explanation
Indices: 51481347--51481413 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 15
51481337 TGGTTACTAG
51481347 TTTTATTTTTATTAT
1 TTTTATTTTTATTAT
51481362 TTTTA---TTATTAT
1 TTTTATTTTTATTAT
* * *
51481374 GTTTATTCTTGTTAT
1 TTTTATTTTTATTAT
** *
51481389 GATTATTTTTATCAT
1 TTTTATTTTTATTAT
51481404 TTTTATTTTT
1 TTTTATTTTT
51481414 CATTGCACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
12 11 0.27
15 30 0.73
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.73
Consensus pattern (15 bp):
TTTTATTTTTATTAT
Found at i:51481378 original size:21 final size:21
Alignment explanation
Indices: 51481349--51481410 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
51481339 GTTACTAGTT
51481349 TTATTTTTATTATTTTTATTA
1 TTATTTTTATTATTTTTATTA
* * * *
51481370 TTATGTTTATTCTTGTTATGA
1 TTATTTTTATTATTTTTATTA
*
51481391 TTATTTTTATCATTTTTATT
1 TTATTTTTATTATTTTTATT
51481411 TTTCATTGCA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATTTTTATTATTTTTATTA
Found at i:51490566 original size:42 final size:43
Alignment explanation
Indices: 51490467--51490575 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
51490457 GTACCAATAG
* * ** *
51490467 GATATGGTCTTACATGTAATCTCGTATCGTTGCCAATAGCCTA
1 GATATGGTCTTACACGTAATCTCATATCAATGCCAATAGCCCA
* *
51490510 GCTATGGTCTTACACG-AAGTCTCATATCAATGCC-ATATCCCA
1 GATATGGTCTTACACGTAA-TCTCATATCAATGCCAATAGCCCA
51490552 GATATGGTCTTACACGTAATCTCA
1 GATATGGTCTTACACGTAATCTCA
51490576 GTAACCCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
GATATGGTCTTACACGTAATCTCATATCAATGCCAATAGCCCA
Found at i:51495101 original size:18 final size:18
Alignment explanation
Indices: 51495078--51495115 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
51495068 TTAATGTGAC
51495078 ACGCTAGATTCGAGCCTA
1 ACGCTAGATTCGAGCCTA
*
51495096 ACGCTAGATTCGGGCCTA
1 ACGCTAGATTCGAGCCTA
51495114 AC
1 AC
51495116 TTTTGGGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (18 bp):
ACGCTAGATTCGAGCCTA
Found at i:51497161 original size:10 final size:10
Alignment explanation
Indices: 51497127--51497170 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
51497117 GAAAATAATC
* *
51497127 AAAATTAATC
1 AAAATTATTT
51497137 AAAATTTATTAT
1 AAAA-TTATT-T
51497149 AAAATTATTT
1 AAAATTATTT
51497159 AAAATTATTT
1 AAAATTATTT
51497169 AA
1 AA
51497171 GTCCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 17 0.57
11 9 0.30
12 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
AAAATTATTT
Found at i:51497215 original size:21 final size:22
Alignment explanation
Indices: 51497178--51497218 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
51497168 TAAGTCCAAA
*
51497178 ATAATTATTTTATAATAATTAT
1 ATAATTATTTGATAATAATTAT
51497200 ATAATT-TTTGATAATAATT
1 ATAATTATTTGATAATAATT
51497219 TTACCGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATTATTTGATAATAATTAT
Found at i:51499038 original size:6 final size:6
Alignment explanation
Indices: 51498976--51499021 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
51498966 ATTTTAATTC
* * *
51498976 TTTTCT TTTTCT TTTTCT TTTTCT CTTTCT TTTTGT TTTTGT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
51499022 AGTTGTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:51512232 original size:42 final size:42
Alignment explanation
Indices: 51512186--51512269 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
51512176 AGCACGAGTA
51512186 AGTCAATTTTATGGGTAACAATTCTAAACCTTAGAACAACCC
1 AGTCAATTTTATGGGTAACAATTCTAAACCTTAGAACAACCC
51512228 AGTCAATTTTATGGGTAACAATTCTAAACCTTAGAACAACCC
1 AGTCAATTTTATGGGTAACAATTCTAAACCTTAGAACAACCC
51512270 CTATAACAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (42 bp):
AGTCAATTTTATGGGTAACAATTCTAAACCTTAGAACAACCC
Found at i:51514998 original size:3 final size:3
Alignment explanation
Indices: 51514984--51515052 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
51514974 GGCCATTTCC
*
51514984 TTA TTT TTA TTA TTA TT- TTA TTA TTA -TA TTTA GTTA TTTA GTTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA -TTA TTA
* *
51515030 TTA TTA TTA CTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
51515053 TTTTGTATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 6 0.11
3 36 0.68
4 11 0.21
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:51515001 original size:12 final size:12
Alignment explanation
Indices: 51514984--51515055 Score: 65
Period size: 12 Copynumber: 5.7 Consensus size: 12
51514974 GGCCATTTCC
51514984 TTATTTTTATTA
1 TTATTTTTATTA
51514996 TTA-TTTTATTA
1 TTATTTTTATTA
*
51515007 TTATATTTAGTTA
1 TTATTTTTA-TTA
51515020 TTTAGTTATTTTATTA
1 -TTA--T-TTTTATTA
* *
51515036 TTACTGTTATTA
1 TTATTTTTATTA
51515048 TTATTTTT
1 TTATTTTT
51515056 TGTATAGTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 11 0.23
12 20 0.42
13 3 0.06
14 3 0.06
15 3 0.06
16 4 0.08
17 4 0.08
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:51515020 original size:16 final size:15
Alignment explanation
Indices: 51514990--51515052 Score: 53
Period size: 17 Copynumber: 4.1 Consensus size: 15
51514980 TTCCTTATTT
51514990 TTATTA-TTATTTTA
1 TTATTAGTTATTTTA
51515004 TTATTA--TA-TTTA
1 TTATTAGTTATTTTA
51515016 GTTATTTAGTTATTTTA
1 -TTA-TTAGTTATTTTA
51515033 TTATTACTGTTATTATTA
1 TTATTA--GTTATT-TTA
51515051 TT
1 TT
51515053 TTTTGTATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.10
13 5 0.12
14 9 0.22
15 3 0.07
16 5 0.12
17 10 0.24
18 5 0.12
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (15 bp):
TTATTAGTTATTTTA
Found at i:51517163 original size:58 final size:58
Alignment explanation
Indices: 51517049--51517165 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
51517039 TTGTTTATAC
* * *
51517049 GATAAATTCCCTGAATTGTTTTTTGTGTTTAAATAATTTTCTCACACCTGTCATTAGA
1 GATAAATTCCCTAAATTGTTCTTTGTGTTTAAATAATTTTCTCACACCTCTCATTAGA
* *
51517107 GATAAATTCCCTAAATTGTTCTTTGTGTTTAAGTACTTTTCTCACACCTACT-ATTAGA
1 GATAAATTCCCTAAATTGTTCTTTGTGTTTAAATAATTTTCTCACACCT-CTCATTAGA
51517165 G
1 G
51517166 TTAATTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 52 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (58 bp):
GATAAATTCCCTAAATTGTTCTTTGTGTTTAAATAATTTTCTCACACCTCTCATTAGA
Found at i:51521902 original size:40 final size:40
Alignment explanation
Indices: 51521856--51522087 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
51521846 TATAACTACA
* * * *
51521856 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACT
* * *
51521896 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACT
* *
51521936 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
51521976 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
*
51522016 AGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
* *
51522056 AGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATA
51522088 TCATTCAAAT
Statistics
Matches: 179, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 175 0.98
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
Found at i:51529787 original size:57 final size:58
Alignment explanation
Indices: 51529710--51529832 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 58
51529700 GGTGAATATA
*
51529710 GAGAAATGAGAAATATTTGGAAATTGTTAT-T-ATTTTCTCCAAAATGAAAATGAAAATG
1 GAGAAATGAGAAATATTTGGAAA-TG-AATGTGATTTTCTCCAAAATGAAAATGAAAATG
*
51529768 GAGAAAT-AG-AATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAAT-
1 GAGAAATGAGAAAT-ATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAATGAAAATG
*
51529824 GAAAAATGA
1 GAGAAATGA
51529833 CCTAGAAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
55 2 0.03
56 12 0.21
57 37 0.64
58 7 0.12
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (58 bp):
GAGAAATGAGAAATATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAATGAAAATG
Found at i:51529841 original size:51 final size:56
Alignment explanation
Indices: 51529742--51529845 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 56
51529732 ATTGTTATTA
* * *
51529742 TTTTCTCCAAAATGAAAATGAAAATGGAGAAATAGAATCATTTGGAAATGAATGTGG
1 TTTTCTCCAAAATGAAAATGAAAATGGAAAAATAGAATCA-CTAGAAATGAATGTGG
51529799 TTTTCTCCAAAATGAAAATGAAAAT-GAAAAAT-G-A-C-CTAGAAATGAAT
1 TTTTCTCCAAAATGAAAATGAAAATGGAAAAATAGAATCACTAGAAATGAAT
51529846 TTATGTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
51 10 0.23
53 1 0.02
54 1 0.02
55 1 0.02
56 6 0.14
57 25 0.57
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (56 bp):
TTTTCTCCAAAATGAAAATGAAAATGGAAAAATAGAATCACTAGAAATGAATGTGG
Found at i:51532265 original size:18 final size:19
Alignment explanation
Indices: 51532217--51532266 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
51532207 AAGCTAAACA
*
51532217 AATCGAGTTATT-TGAGTT
1 AATCGAGTTATTCAGAGTT
*
51532235 AATCGAATTATTCAG-GTT
1 AATCGAGTTATTCAGAGTT
51532253 AATCGAGTTATTCA
1 AATCGAGTTATTCA
51532267 AGTCAACTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (19 bp):
AATCGAGTTATTCAGAGTT
Found at i:51532337 original size:9 final size:9
Alignment explanation
Indices: 51532320--51532383 Score: 83
Period size: 9 Copynumber: 7.1 Consensus size: 9
51532310 TGAGTTTTCA
*
51532320 AATTCGAAT
1 AATTCAAAT
* *
51532329 AACTCGAAT
1 AATTCAAAT
51532338 AATTCAAAT
1 AATTCAAAT
51532347 AATTCAAAT
1 AATTCAAAT
*
51532356 AACTCAAAT
1 AATTCAAAT
51532365 AATTCAAAT
1 AATTCAAAT
*
51532374 AATTCGAAT
1 AATTCAAAT
51532383 A
1 A
51532384 TCAAACTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (9 bp):
AATTCAAAT
Found at i:51532356 original size:27 final size:27
Alignment explanation
Indices: 51532320--51532383 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
51532310 TGAGTTTTCA
*
51532320 AATTCGAATAACTCGAATAATTCAAAT
1 AATTCGAATAACTCAAATAATTCAAAT
*
51532347 AATTCAAATAACTCAAATAATTCAAAT
1 AATTCGAATAACTCAAATAATTCAAAT
51532374 AATTCGAATA
1 AATTCGAATA
51532384 TCAAACTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (27 bp):
AATTCGAATAACTCAAATAATTCAAAT
Found at i:51532777 original size:20 final size:20
Alignment explanation
Indices: 51532738--51532777 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51532728 TTTATTCCCA
*
51532738 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
51532758 AAAC-TTTTATTTCTCACCCT
1 AAACTTTTTATTT-TCACCCT
51532778 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:51534810 original size:96 final size:96
Alignment explanation
Indices: 51534646--51534842 Score: 394
Period size: 96 Copynumber: 2.1 Consensus size: 96
51534636 ATGCATACAT
51534646 AGTCTATCATCCACTCAGGATTTAGGTAGGCCACACTATGAACATCACAAGTGAATAAATCTATA
1 AGTCTATCATCCACTCAGGATTTAGGTAGGCCACACTATGAACATCACAAGTGAATAAATCTATA
51534711 AATGAATTCAGGATGTATTCTTTTTGAATCC
66 AATGAATTCAGGATGTATTCTTTTTGAATCC
51534742 AGTCTATCATCCACTCAGGATTTAGGTAGGCCACACTATGAACATCACAAGTGAATAAATCTATA
1 AGTCTATCATCCACTCAGGATTTAGGTAGGCCACACTATGAACATCACAAGTGAATAAATCTATA
51534807 AATGAATTCAGGATGTATTCTTTTTGAATCC
66 AATGAATTCAGGATGTATTCTTTTTGAATCC
51534838 AGTCT
1 AGTCT
51534843 GATGTATTGT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 101 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (96 bp):
AGTCTATCATCCACTCAGGATTTAGGTAGGCCACACTATGAACATCACAAGTGAATAAATCTATA
AATGAATTCAGGATGTATTCTTTTTGAATCC
Found at i:51544630 original size:24 final size:22
Alignment explanation
Indices: 51544538--51544631 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 22
51544528 TTTCAATATT
*
51544538 TAATTAAAATAAT-TTTAAAAAA
1 TAATTAAATTAATATTT-AAAAA
* ** *
51544560 TAATAAAATGT-A-ATTTACTAT
1 TAATTAAAT-TAATATTTAAAAA
* *
51544581 TAATTACATTAATCTTTAAAAA
1 TAATTAAATTAATATTTAAAAA
51544603 TAATTAAATTAAATATTTAAAAAA
1 TAATTAAATT-AATATTT-AAAAA
51544627 TAATT
1 TAATT
51544632 GGTGTTAATT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
20 1 0.02
21 10 0.19
22 25 0.47
23 7 0.13
24 10 0.19
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
TAATTAAATTAATATTTAAAAA
Found at i:51551208 original size:21 final size:22
Alignment explanation
Indices: 51551157--51551208 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
51551147 AATAAAGTCT
*
51551157 ATGTA-CAAATATCATCATCTC
1 ATGTATCATATATCATCATCTC
* *
51551178 ATGTTTTCATATATCAT-ATGTC
1 ATG-TATCATATATCATCATCTC
51551200 ATGTATCAT
1 ATGTATCAT
51551209 CATTTACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.32
22 8 0.32
23 9 0.36
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (22 bp):
ATGTATCATATATCATCATCTC
Found at i:51551519 original size:57 final size:57
Alignment explanation
Indices: 51551425--51551572 Score: 149
Period size: 57 Copynumber: 2.6 Consensus size: 57
51551415 ATTATACAAT
* ** * * * *
51551425 AGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTG-AAGAGCTTGATCT-
1 AGGATTACCTGTCTGGGCTAAATCC-TTTCATAACATATGCTC-GAAAG-GATTGATATC
* *
51551483 A-GATTACCTGTCTGGGCTAAATCCAATTCATAACATATGCTCGAAAGGATTTATATC
1 AGGATTACCTGTCTGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGATTGATATC
*
51551540 AGGATTACCTGTTTGGGCTAAATCCTTTCATAA
1 AGGATTACCTGTCTGGGCTAAATCCTTTCATAA
51551573 ATGAGGTCGA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
56 7 0.09
57 45 0.60
58 23 0.31
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (57 bp):
AGGATTACCTGTCTGGGCTAAATCCTTTCATAACATATGCTCGAAAGGATTGATATC
Found at i:51552364 original size:19 final size:20
Alignment explanation
Indices: 51552340--51552377 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51552330 TATCAACAAC
51552340 ATTTCAT-TTTCTACCATAA
1 ATTTCATATTTCTACCATAA
*
51552359 ATTTCATATTTCTAGCATA
1 ATTTCATATTTCTACCATA
51552378 TTCATCCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTCATATTTCTACCATAA
Found at i:51560781 original size:25 final size:25
Alignment explanation
Indices: 51560741--51560812 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
51560731 TAAGGCTCCC
51560741 CAAATAATTCGCCACATA-GGCTTTT
1 CAAATAATTCGCCACA-AGGGCTTTT
* * *
51560766 CAAATAATTTGGCACAAGGGCTTTA
1 CAAATAATTCGCCACAAGGGCTTTT
* * * *
51560791 CAGACAACTCGCCACAAAGGCT
1 CAAATAATTCGCCACAAGGGCT
51560813 CTGTTTGGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (25 bp):
CAAATAATTCGCCACAAGGGCTTTT
Found at i:51569657 original size:107 final size:106
Alignment explanation
Indices: 51569463--51569659 Score: 268
Period size: 107 Copynumber: 1.8 Consensus size: 106
51569453 ACCTAAAATA
* * *
51569463 ATAATAATATTAAGAATGCTAATAAATTATATAATATTTTATTAAATTGTATTAATAATTGTGTT
1 ATAATAATATTAAGAATACTAATAAATTATATAATATTTTATTAAATTATATTAATAATTATGTT
51569528 AAAATATGATTAAATTATTTATTATGATTTTTTTTAATTCAT
66 AAAATATGATTAAA-TATTTATTATGATTTTTTTTAATTCAT
* * * *
51569570 ATAATTATATTAAGAATATTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTA
1 ATAATAATATTAAGAATACTAATAAATTATATAATATTTTATTAAATTATA--T--TAATAATTA
*
51569635 TGTTAAAATATGATGAAATTATTTA
62 TGTTAAAATATGATTAAA-TATTTA
51569660 CTTTTTTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 45 0.58
109 1 0.01
111 32 0.41
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (106 bp):
ATAATAATATTAAGAATACTAATAAATTATATAATATTTTATTAAATTATATTAATAATTATGTT
AAAATATGATTAAATATTTATTATGATTTTTTTTAATTCAT
Found at i:51569666 original size:107 final size:106
Alignment explanation
Indices: 51569463--51569699 Score: 265
Period size: 107 Copynumber: 2.2 Consensus size: 106
51569453 ACCTAAAATA
* ** * * *
51569463 ATAATAATATTAAGAATGCTAATAAATTATATAATATTTTATTAAATTGTATTAATAATTGTGTT
1 ATAATTATATTAAGAATATTATTAAATTATATAATATTTTATTAAATTATATTAATAATTATGTT
*
51569528 AAAATATGATTAAATTATTTATTATGATTTTTT-TT-AATTCAT
66 AAAATATGATGAAATTATTTA-TAT-ATTTTTTATTAAATT-AT
*
51569570 ATAATTATATTAAGAATATTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTA
1 ATAATTATATTAAGAATATTATTAAATTATATAATATTTTATTAAATTATA--T--TAATAATTA
*
51569635 TGTTAAAATATGATGAAATTATTTA-CT-TTTTTTATTAAATTAT
62 TGTTAAAATATGATGAAATTATTTATATATTTTTTATTAAATTAT
*
51569678 AT--TTA-A-TAATAATATTATTAAA
1 ATAATTATATTAAGAATATTATTAAA
51569700 ATTTAATAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
104 15 0.13
105 1 0.01
106 3 0.03
107 51 0.45
108 6 0.05
109 6 0.05
111 32 0.28
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (106 bp):
ATAATTATATTAAGAATATTATTAAATTATATAATATTTTATTAAATTATATTAATAATTATGTT
AAAATATGATGAAATTATTTATATATTTTTTATTAAATTAT
Found at i:51569699 original size:58 final size:57
Alignment explanation
Indices: 51569570--51569701 Score: 185
Period size: 58 Copynumber: 2.3 Consensus size: 57
51569560 TTTAATTCAT
* *
51569570 ATAATTATATTAAGAATATTATTAAATTATATATTATTTTATTAAATTATATTTAATA
1 ATAATTATATTAA-AATATGATGAAATTATATATTATTTTATTAAATTATATTTAATA
* * *
51569628 ATAATTATGTTAAAATATGATGAAATTATTTACTTTTTTTATTAAATTATATTTAATA
1 ATAATTATATTAAAATATGATGAAATTATATA-TTATTTTATTAAATTATATTTAATA
51569686 ATAA-TATTATTAAAAT
1 ATAATTA-TATTAAAAT
51569702 TTAATAACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 18 0.27
58 48 0.73
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (57 bp):
ATAATTATATTAAAATATGATGAAATTATATATTATTTTATTAAATTATATTTAATA
Found at i:51569889 original size:16 final size:16
Alignment explanation
Indices: 51569868--51569921 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
51569858 TTAATTACTG
51569868 ATTACATCTCTATTCC
1 ATTACATCTCTATTCC
* *
51569884 ATTACAACTGTATTCC
1 ATTACATCTCTATTCC
* *
51569900 ATTACATTTCTATTTC
1 ATTACATCTCTATTCC
51569916 ATTACA
1 ATTACA
51569922 GTCTTTTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTACATCTCTATTCC
Found at i:51576754 original size:46 final size:44
Alignment explanation
Indices: 51576612--51576754 Score: 98
Period size: 45 Copynumber: 3.1 Consensus size: 44
51576602 CGCATCCACA
* * *
51576612 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
51576661 --CGAACTCGGACTCAACTCAAC-AGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
51576703 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
51576750 AGTGA
1 AGTGA
51576755 CATGTCACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
44 4 0.05
45 20 0.27
46 18 0.24
47 20 0.27
48 7 0.09
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:51578625 original size:26 final size:26
Alignment explanation
Indices: 51578594--51578675 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
51578584 TGAAATTTCC
51578594 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
51578620 ATCATGGAACATTTACCCAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51578646 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51578672 ATCA
1 ATCA
51578676 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:51585694 original size:26 final size:26
Alignment explanation
Indices: 51585664--51585771 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
51585654 TGAAATTCCC
51585664 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51585690 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
51585716 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
51585742 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51585768 ATCA
1 ATCA
51585772 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:51586234 original size:45 final size:45
Alignment explanation
Indices: 51586162--51586293 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
51586152 GTGCTTTCAT
*
51586162 ATGATGTCATAGCATCTTTTAGGTATGGTCTTACTAATTCTT-ATA
1 ATGATGTCATAGCATCTTTTAGCTATGGTCTTACTAATT-TTAATA
* * * * *
51586207 ATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTTAATC
1 ATGATGTCATAGCATCTTTTAGCTATGGTCTTACTAATTTTAATA
* ** *
51586252 ATAATGTCATAATATCTTTTAGCTATGGTCTTACTCATTTTA
1 ATGATGTCATAGCATCTTTTAGCTATGGTCTTACTAATTTTA
51586294 GGAATATAGC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 2 0.03
45 72 0.97
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (45 bp):
ATGATGTCATAGCATCTTTTAGCTATGGTCTTACTAATTTTAATA
Found at i:51592752 original size:25 final size:25
Alignment explanation
Indices: 51592724--51592771 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
51592714 ATACATAGTT
**
51592724 TTAAAAATATGTACATAATATAGCG
1 TTAAAAATACATACATAATATAGCG
51592749 TTAAAAATACATACATAATATAG
1 TTAAAAATACATACATAATATAG
51592772 TTATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGCG
Found at i:51592780 original size:25 final size:25
Alignment explanation
Indices: 51592718--51592780 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 25
51592708 AAGTGTATAC
**
51592718 ATAGTT-TTAAAAATATGTACATAAT
1 ATAGTTATT-AAAATACATACATAAT
51592743 ATAGCGTTA--AAAATACATACATAAT
1 ATA--GTTATTAAAATACATACATAAT
51592768 ATAGTTATTAAAA
1 ATAGTTATTAAAA
51592781 AATATATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
23 4 0.13
25 24 0.77
27 3 0.10
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (25 bp):
ATAGTTATTAAAATACATACATAAT
Found at i:51592836 original size:29 final size:30
Alignment explanation
Indices: 51592777--51592836 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
51592767 TATAGTTATT
* *
51592777 AAAAAATATATACATAAGATAATATGCAAG
1 AAAAAATATATAAATAAGATAATATGAAAG
* * *
51592807 AAAAAA-ATATAAATAATATAGTATTAAAG
1 AAAAAATATATAAATAAGATAATATGAAAG
51592836 A
1 A
51592837 TATATACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.25
Consensus pattern (30 bp):
AAAAAATATATAAATAAGATAATATGAAAG
Found at i:51592847 original size:29 final size:29
Alignment explanation
Indices: 51592755--51592872 Score: 70
Period size: 30 Copynumber: 4.1 Consensus size: 29
51592745 AGCGTTAAAA
*
51592755 ATACAT-ACATAATATAGTTATTAAAAAATAT
1 ATACATAAGATAATATAG-TATT--AAAATAT
* **
51592786 ATACATAAGATAATAT-GCAAGAAAA-A-
1 ATACATAAGATAATATAGTATTAAAATAT
*
51592812 A-ATATAA-ATAATATAGTATTAAAGATAT
1 ATACATAAGATAATATAGTATTAAA-ATAT
* *
51592840 ATACATAATATATATATA-TATAAAAATCAT
1 ATACATAAGATA-ATATAGTATTAAAAT-AT
51592870 ATA
1 ATA
51592873 TACATGACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
24 7 0.10
25 10 0.15
26 2 0.03
27 2 0.03
28 5 0.07
29 7 0.10
30 15 0.22
31 12 0.18
32 8 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (29 bp):
ATACATAAGATAATATAGTATTAAAATAT
Found at i:51592856 original size:15 final size:16
Alignment explanation
Indices: 51592836--51592888 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
51592826 AGTATTAAAG
51592836 ATATATACAT-AATAT
1 ATATATACATAAATAT
* *
51592851 ATATATATATAAAAAT
1 ATATATACATAAATAT
*
51592867 CATATATACATGACATAT
1 -ATATATACAT-AAATAT
51592885 ATAT
1 ATAT
51592889 TAGCAACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 9 0.30
16 4 0.13
17 13 0.43
18 4 0.13
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATATACATAAATAT
Found at i:51592974 original size:24 final size:24
Alignment explanation
Indices: 51592945--51593071 Score: 103
Period size: 23 Copynumber: 5.4 Consensus size: 24
51592935 AAATACGTAC
*
51592945 ATATATAAATAATAATGGTATTAGAA
1 ATATAT-AATAATAATAGTATTA-AA
*
51592971 ATATACAAT-AT-ATAGTATTAGAA
1 ATATATAATAATAATAGTATTA-AA
51592994 ATATATACATAA-AATAGTA-T-AA
1 ATATATA-ATAATAATAGTATTAAA
51593016 ATATAT-ATAACTAAT-GATATTAAA
1 ATATATAATAA-TAATAG-TATTAAA
51593040 ATATATACATAATAATA-TA-TAAA
1 ATATATA-ATAATAATAGTATTAAA
51593063 A-ATATAATA
1 ATATATAATA
51593072 TTAAAAAATA
Statistics
Matches: 87, Mismatches: 3, Indels: 27
0.74 0.03 0.23
Matches are distributed among these distances:
20 4 0.05
21 4 0.05
22 18 0.21
23 23 0.26
24 15 0.17
25 14 0.16
26 9 0.10
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATAATAATAATAGTATTAAA
Found at i:51593060 original size:62 final size:62
Alignment explanation
Indices: 51593002--51593128 Score: 143
Period size: 62 Copynumber: 2.0 Consensus size: 62
51592992 AAATATATAC
* * *
51593002 ATAAAATAGTATAAATATATAT-AAC-TAATGATATTAAAATATATACATAATAATATATAAAA
1 ATAAAATAGTA-AAAAATATATGAACATAA-CATATAAAAATATATACATAATAATATATAAAA
* * * *
51593064 ATATAATATTAAAAAATATATGTACATAACATATAAAAATATATACATAAT-ATAGTATTAAA
1 ATAAAATAGTAAAAAATATATGAACATAACATATAAAAATATATACATAATAATA-TATAAAA
51593126 ATA
1 ATA
51593129 TTTACATAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
61 12 0.22
62 40 0.73
63 3 0.05
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (62 bp):
ATAAAATAGTAAAAAATATATGAACATAACATATAAAAATATATACATAATAATATATAAAA
Found at i:51593072 original size:13 final size:15
Alignment explanation
Indices: 51593051--51593083 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
51593041 TATATACATA
51593051 ATAATA-TATAAAAAT
1 ATAATATTA-AAAAAT
51593066 ATAATATTAAAAAAT
1 ATAATATTAAAAAAT
51593081 ATA
1 ATA
51593084 TGTACATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATTAAAAAAT
Found at i:51593092 original size:23 final size:22
Alignment explanation
Indices: 51592992--51593344 Score: 128
Period size: 23 Copynumber: 16.3 Consensus size: 22
51592982 ATAGTATTAG
*
51592992 AAATATATACATAAAATAGTATAA
1 AAATATATACAT--AATATTATAA
* *
51593016 ATATATATA-ACTAATGA-TATTA
1 AAATATATACA-TAAT-ATTATAA
* *
51593038 AAATATATACATAATAATATAT
1 AAATATATACATAATATTATAA
51593060 AAA-A-AT--ATAATATTA-AA
1 AAATATATACATAATATTATAA
*
51593077 AAATATATGTACATAACA-TATAA
1 AAATATA--TACATAATATTATAA
*
51593100 AAATATATACATAATATAGTATTA
1 AAATATATACATAATAT--TATAA
*
51593124 AAATATTTACATAATA-TAT--
1 AAATATATACATAATATTATAA
* * *
51593143 ACATAT-TAGA-AATA--AAAA
1 AAATATATACATAATATTATAA
* * *
51593161 ACGACTAT-TA-ATAATATTACAT
1 A--AATATATACATAATATTATAA
51593183 AAATATATACAT-ATATATATTAA
1 AAATATATACATAATAT-TA-TAA
*
51593206 AGATATATACAT-ATA--AT-A
1 AAATATATACATAATATTATAA
*
51593224 AAACATATAC-TAATATTAATAA
1 AAATATATACATAATATT-ATAA
* ** *
51593246 TAATA-ATA-AGGATAATATAA
1 AAATATATACATAATATTATAA
* *
51593266 AAATATATACATGAAATAGTAAAAA
1 AAATATATACAT--AATA-TTATAA
* *
51593291 AAAAATATA-ACTAATAATACTAA
1 AAATATATACA-TAATATTA-TAA
51593314 AAATATATACATAATATATATAA
1 AAATATATACATAATAT-TATAA
51593337 AACATATA
1 AA-ATATA
51593345 CGATATATAT
Statistics
Matches: 247, Mismatches: 41, Indels: 82
0.67 0.11 0.22
Matches are distributed among these distances:
16 1 0.00
17 9 0.04
18 25 0.10
19 8 0.03
20 24 0.10
21 32 0.13
22 40 0.16
23 56 0.23
24 40 0.16
25 12 0.05
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.33
Consensus pattern (22 bp):
AAATATATACATAATATTATAA
Found at i:51593482 original size:21 final size:24
Alignment explanation
Indices: 51593458--51593507 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
51593448 ATACTAGTAC
51593458 TAATAATAT-TA-ATA-ATGAATA
1 TAATAATATATATATATATGAATA
*
51593479 TAATAATATATATATATATGCATA
1 TAATAATATATATATATATGAATA
51593503 TAATA
1 TAATA
51593508 GTAAAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 2 0.08
23 3 0.12
24 11 0.44
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
TAATAATATATATATATATGAATA
Found at i:51595359 original size:86 final size:88
Alignment explanation
Indices: 51595141--51595459 Score: 371
Period size: 87 Copynumber: 3.6 Consensus size: 88
51595131 CAATCTTTAT
* * * *
51595141 CCTCGGCGTGTGACCTGAGGCTCAACTCACCTATCT-CAATATGAGTTGACTTTTTTTGAAAAAC
1 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCT-TGAAATATGAGTTGA---TTTTTGAAAAAC
* * *
51595205 ATATATTAAAAACAAATTTTGAAAATA
62 AGAAATTAAAAACAAAATTTGAAAATA
* * * *
51595232 CCTCAGCATATGGCCCGAGGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTTG-AAAACAGA
1 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTT-GAAATATGAGTTGATTTTTGAAAAACAGA
* *
51595295 CATTAAAAACAAAAATTG-AAATA
65 AATTAAAAACAAAATTTGAAAATA
** * *
51595318 CCTCGGTGTGTGACCCAAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTGAAAAATAGAA
1 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTGAAAAACAGAA
*
51595383 ATT-AAAACAGAATTTGAAAATA
66 ATTAAAAACAAAATTTGAAAATA
*
51595405 CCTCGGCATGTGACCCGAGGCTCAACTCACCTC-TCACAATATGAGTTGATTTTTG
1 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGA-AATATGAGTTGATTTTTG
51595460 GAATAACTGA
Statistics
Matches: 198, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
86 63 0.32
87 87 0.44
88 6 0.03
89 1 0.01
90 1 0.01
91 40 0.20
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (88 bp):
CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTGAAAAACAGAA
ATTAAAAACAAAATTTGAAAATA
Found at i:51595447 original size:173 final size:175
Alignment explanation
Indices: 51595141--51595459 Score: 457
Period size: 173 Copynumber: 1.8 Consensus size: 175
51595131 CAATCTTTAT
** *
51595141 CCTCGGCGTGTGACCTGAGGCTCAACTCACCTATCTCAATATGAGTTGACTTTTTTTGAAAAACA
1 CCTCGGCGTGTGACCCAAGGCTCAACTCACCTATCTAAATATGAGTTGA--TTTTTTGAAAAACA
* * * * *
51595206 TATATTAAAAACAAATTTTGAAAATACCTCAGCATATGGCCCGAGGCTCAACTCACCTTTCGCAA
64 GAAATTAAAAACAAATTTTGAAAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTCACAA
51595271 TATGAGTTGATTTTTGAAAACAGACATTAAAAACAAAAATTGAAATA
129 TATGAGTTGATTTTTGAAAACAGACATTAAAAACAAAAATTGAAATA
* * *
51595318 CCTCGGTGTGTGACCCAAGGCTCAACTCACCTCT-TGAAATATGAGTTGA-TTTTTGAAAAATAG
1 CCTCGGCGTGTGACCCAAGGCTCAACTCACCTATCT-AAATATGAGTTGATTTTTTGAAAAACAG
* *
51595381 AAATT-AAAACAGAA-TTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAA
65 AAATTAAAAACA-AATTTTGAAAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTCACAA
51595444 TATGAGTTGATTTTTG
129 TATGAGTTGATTTTTG
51595460 GAATAACTGA
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
173 66 0.52
174 18 0.14
176 1 0.01
177 42 0.33
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (175 bp):
CCTCGGCGTGTGACCCAAGGCTCAACTCACCTATCTAAATATGAGTTGATTTTTTGAAAAACAGA
AATTAAAAACAAATTTTGAAAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTCACAATA
TGAGTTGATTTTTGAAAACAGACATTAAAAACAAAAATTGAAATA
Found at i:51607164 original size:27 final size:25
Alignment explanation
Indices: 51607034--51607444 Score: 149
Period size: 25 Copynumber: 16.3 Consensus size: 25
51607024 AACGATATAT
51607034 AAATATATACAT-ATAT-GTATT-A
1 AAATATATACATAATATAGTATTAA
* *
51607056 AAATATATACGTAATAATAAG-AATAA
1 AAATATATACATAAT-AT-AGTATTAA
*
51607082 AAAGTGTATAC-----ATAGTATTAA
1 AAA-TATATACATAATATAGTATTAA
**
51607103 AAATATATACATAATATAGCGTTAA
1 AAATATATACATAATATAGTATTAA
*
51607128 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG-TATT-AA
* **
51607155 AAATATATACATAAGATAATATGCAAGAAA
1 AAATATATACAT-A-AT-ATA-G-TATTAA
*
51607185 AAAGTATATAAATAATATAGTATTAA
1 AAA-TATATACATAATATAGTATTAA
* *
51607211 AGATATATACATAATATA-TATAAAA
1 AAATATATACATAATATAGTAT-TAA
51607236 AATCATATATACATGATATATA-TATTAGCA
1 AA--ATATATACAT-A-ATATAGTATTA--A
51607266 ACAATAATGATACA-AA-A-AG-A--AA
1 A-AAT-AT-ATACATAATATAGTATTAA
* * *
51607288 CAACTATAATACAATAA-ATACGTACATAT
1 -AAATAT-ATAC-ATAATATA-GTA-TTAA
* * *
51607317 ATATATATAAATAATA-ACGGTATTAG
1 AAATATATACATAATATA--GTATTAA
* *
51607343 AAATATACA-AT-ATATAGTATTAG
1 AAATATATACATAATATAGTATTAA
*
51607366 AAATATATACATAAAATAGTA-TAA
1 AAATATATACATAATATAGTATTAA
51607390 AAATATAT--ATAACTA-ATGATATT-A
1 AAATATATACATAA-TATA-G-TATTAA
51607414 AAATATATACATAATA-A-TATATAA
1 AAATATATACATAATATAGTAT-TAA
51607438 AAATATA
1 AAATATA
51607445 ATATTAAAAA
Statistics
Matches: 298, Mismatches: 39, Indels: 102
0.68 0.09 0.23
Matches are distributed among these distances:
20 8 0.03
21 15 0.05
22 23 0.08
23 24 0.08
24 41 0.14
25 60 0.20
26 33 0.11
27 38 0.13
28 11 0.04
29 16 0.05
30 13 0.04
31 16 0.05
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (25 bp):
AAATATATACATAATATAGTATTAA
Found at i:51607401 original size:22 final size:25
Alignment explanation
Indices: 51607319--51607444 Score: 106
Period size: 24 Copynumber: 5.2 Consensus size: 25
51607309 GTACATATAT
* ** *
51607319 ATATATAAATAATAACGGTATTAGA
1 ATATATACATAATAATAGTATTAAA
51607344 A-ATATAC--AATATATAGTATTAGAA
1 ATATATACATAATA-ATAGTATTA-AA
51607368 ATATATACATAA-AATAGTA-TAAA
1 ATATATACATAATAATAGTATTAAA
*
51607391 A-ATATATATAACTAAT-GATATTAAA
1 ATATATACATAA-TAATAG-TATTAAA
*
51607416 ATATATACATAATAATA-TATAAAA
1 ATATATACATAATAATAGTATTAAA
51607440 ATATA
1 ATATA
51607445 ATATTAAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 23
0.73 0.06 0.20
Matches are distributed among these distances:
22 13 0.16
23 11 0.13
24 25 0.30
25 22 0.27
26 10 0.12
27 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATAATAGTATTAAA
Found at i:51607436 original size:64 final size:64
Alignment explanation
Indices: 51607376--51607506 Score: 151
Period size: 64 Copynumber: 2.0 Consensus size: 64
51607366 AAATATATAC
* * *
51607376 ATAAAATAGTATAAAAATATATATA-ACTAATGATAT-TAAAATATATACATAATAATATATAAA
1 ATAAAATAGTAAAAAAATATATATACA-TAA-CATATAAAAAATATATACATAATAATATATAAA
51607439 A
64 A
* * * *
51607440 ATATAATATTAAAAAAATATATGTACATAACATATAAAAAATATATACATAAT-ATAGTATTAAA
1 ATAAAATAGTAAAAAAATATATATACATAACATATAAAAAATATATACATAATAATA-TATAAAA
51607504 ATA
1 ATA
51607507 TTTACATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
63 7 0.12
64 49 0.86
65 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (64 bp):
ATAAAATAGTAAAAAAATATATATACATAACATATAAAAAATATATACATAATAATATATAAAA
Found at i:51607447 original size:18 final size:16
Alignment explanation
Indices: 51607427--51607460 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51607417 TATATACATA
*
51607427 ATAATA-TATAAAAAT
1 ATAATATTAAAAAAAT
51607442 ATAATATTAAAAAAAT
1 ATAATATTAAAAAAAT
51607458 ATA
1 ATA
51607461 TGTACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATATTAAAAAAAT
Found at i:51607483 original size:22 final size:22
Alignment explanation
Indices: 51607366--51607521 Score: 119
Period size: 24 Copynumber: 6.9 Consensus size: 22
51607356 ATAGTATTAG
51607366 AAATATATACATAAAATAGTATAAA
1 AAATATATACAT--AATA-TATAAA
*
51607391 AATATATATA-ACTAATGATAT-TA
1 AA-ATATATACA-TAAT-ATATAAA
*
51607414 AAATATATACATAATAATATATA
1 AAATATATACATAAT-ATATAAA
51607437 AAA-ATATA-AT-AT-TA-AAA
1 AAATATATACATAATATATAAA
*
51607454 AAATATATGTACATAACATATAAA
1 AAATATA--TACATAATATATAAA
*
51607478 AAATATATACATAATATAGTATTA
1 AAATATATACATAATATA-TA-AA
*
51607502 AAATATTTACATAATATATA
1 AAATATATACATAATATATA
51607522 CATATTATGT
Statistics
Matches: 110, Mismatches: 7, Indels: 30
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.05
18 5 0.05
20 4 0.04
21 4 0.04
22 31 0.28
23 15 0.14
24 34 0.31
25 4 0.04
26 8 0.07
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (22 bp):
AAATATATACATAATATATAAA
Found at i:51607493 original size:11 final size:11
Alignment explanation
Indices: 51607415--51607525 Score: 57
Period size: 11 Copynumber: 10.1 Consensus size: 11
51607405 ATGATATTAA
51607415 AATATATACAT
1 AATATATACAT
*
51607426 AATA-ATATAT
1 AATATATACAT
*
51607436 AAAAATATA-AT
1 -AATATATACAT
* * * *
51607447 ATTAAAAAAAT
1 AATATATACAT
*
51607458 -ATATGTACAT
1 AATATATACAT
* * *
51607468 AACATATAAAA
1 AATATATACAT
51607479 AATATATACAT
1 AATATATACAT
* *
51607490 AATATAGTATTAA
1 AATATA-TA-CAT
*
51607503 AATATTTACAT
1 AATATATACAT
51607514 AATATATACAT
1 AATATATACAT
51607525 A
1 A
51607526 TTATGTAATA
Statistics
Matches: 70, Mismatches: 24, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
10 14 0.20
11 43 0.61
12 7 0.10
13 6 0.09
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (11 bp):
AATATATACAT
Found at i:51608259 original size:25 final size:25
Alignment explanation
Indices: 51608225--51608274 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
51608215 ATCGGTAAAA
51608225 ATACCTAATAGTCATAAGTACATGT
1 ATACCTAATAGTCATAAGTACATGT
51608250 ATACCTAATAGTCATAAGTACATGT
1 ATACCTAATAGTCATAAGTACATGT
51608275 TAGAGTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
ATACCTAATAGTCATAAGTACATGT
Found at i:51608638 original size:19 final size:19
Alignment explanation
Indices: 51608616--51608673 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
51608606 AATTTAAGTA
51608616 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
51608635 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
51608652 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
51608670 ATAT
1 ATAT
51608674 GAAGATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:51608658 original size:35 final size:35
Alignment explanation
Indices: 51608619--51608685 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
51608609 TTAAGTAATA
*
51608619 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
51608654 TAATGTTATTTATATGATATGAAGATTATTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
51608686 TATGAAATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:51615533 original size:19 final size:19
Alignment explanation
Indices: 51615511--51615568 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
51615501 AATTTAAGTA
51615511 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
51615530 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
*
51615547 AT-TAATTTTATTTATATG
1 ATATAATGTTATTTATATG
51615565 ATAT
1 ATAT
51615569 GAAGATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 6 0.21
19 11 0.38
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:51615558 original size:35 final size:35
Alignment explanation
Indices: 51615514--51615580 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
51615504 TTAAGTAATA
*
51615514 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
51615549 TAATTTTATTTATATGATATGAAGATTATTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
51615581 TATGAAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:51617423 original size:23 final size:23
Alignment explanation
Indices: 51617352--51617458 Score: 89
Period size: 23 Copynumber: 4.6 Consensus size: 23
51617342 AATAGTAAGG
*
51617352 ATAATA-TAAAAATATATACATG
1 ATAATATTAAAAATATATACATA
* *
51617374 A-AATAGTAAAAAATATATATAACTA
1 ATAATA-TTAAAAATATATA-CA-TA
51617399 ATAATATTAAAAATATATACATA
1 ATAATATTAAAAATATATACATA
*
51617422 AT-ATA-TATAAAACATATACGAT-
1 ATAATATTA-AAAATATATAC-ATA
51617444 ATATATATTAAAAAT
1 ATA-ATATTAAAAAT
51617459 GATAATAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
21 6 0.09
22 16 0.24
23 17 0.25
24 9 0.13
25 16 0.24
26 4 0.06
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (23 bp):
ATAATATTAAAAATATATACATA
Found at i:51617438 original size:22 final size:21
Alignment explanation
Indices: 51617399--51617469 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 21
51617389 TATATAACTA
51617399 ATAATAT-TA-AAAATATATAC
1 ATAATATATATAAAA-ATATAC
51617419 ATAATATATATAAAACATATAC
1 ATAATATATATAAAA-ATATAC
51617441 GAT-ATATATATTAAAAATGATA-
1 -ATAATATATA-TAAAAAT-ATAC
51617463 ATAATAT
1 ATAATAT
51617470 GAAAAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 23 0.52
23 10 0.23
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAATATATATAAAAATATAC
Found at i:51617568 original size:3 final size:3
Alignment explanation
Indices: 51617553--51617594 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
51617543 ATACTAGTAC
* *
51617553 TAA TAA TAT TAA TAA TGAA T-A TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
51617595 ATATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:51618894 original size:29 final size:29
Alignment explanation
Indices: 51618861--51618919 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
51618851 ATTTGTGTTA
51618861 TACTTGTTCAATCAAAATTCTTCTATCTC
1 TACTTGTTCAATCAAAATTCTTCTATCTC
51618890 TACTTGTTCAATCAAAATTCTTCTATCTC
1 TACTTGTTCAATCAAAATTCTTCTATCTC
51618919 T
1 T
51618920 CCTTATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (29 bp):
TACTTGTTCAATCAAAATTCTTCTATCTC
Done.