Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 230 of 240
Found at i:69345563 original size:14 final size:14
Alignment explanation
Indices: 69345546--69345588 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
69345536 TAAACTTTTT
* *
69345546 ACCCTAAACCCTTA
1 ACCCTTAACCCTAA
*
69345560 ACCCTTAATCCTAA
1 ACCCTTAACCCTAA
69345574 ACCCTTAACCCTAA
1 ACCCTTAACCCTAA
69345588 A
1 A
69345589 TTAACATAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (14 bp):
ACCCTTAACCCTAA
Found at i:69345639 original size:15 final size:14
Alignment explanation
Indices: 69345610--69345648 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
69345600 CCTTTTATCC
*
69345610 CTTAAACCCTAAAT
1 CTTAAACCATAAAT
69345624 CTTAAACCTATAAAT
1 CTTAAACC-ATAAAT
*
69345639 CATAAACCAT
1 CTTAAACCAT
69345649 GACCCTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (14 bp):
CTTAAACCATAAAT
Found at i:69345907 original size:14 final size:14
Alignment explanation
Indices: 69345883--69345927 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
69345873 ATCATAGAAC
69345883 ATATGTAAACCCTAA
1 ATAT-TAAACCCTAA
*
69345898 ATATTAAACCTTAA
1 ATATTAAACCCTAA
*
69345912 ATCTTAAACCCTAA
1 ATATTAAACCCTAA
69345926 AT
1 AT
69345928 CATAAAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (14 bp):
ATATTAAACCCTAA
Found at i:69345928 original size:14 final size:14
Alignment explanation
Indices: 69345888--69345933 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
69345878 AGAACATATG
*
69345888 TAAACCCTAAATAT
1 TAAACCCTAAATCT
*
69345902 TAAACCTTAAATCT
1 TAAACCCTAAATCT
*
69345916 TAAACCCTAAATCA
1 TAAACCCTAAATCT
69345930 TAAA
1 TAAA
69345934 ACATTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCCTAAATCT
Found at i:69345958 original size:53 final size:53
Alignment explanation
Indices: 69345861--69345961 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
69345851 AACCATATTC
* * * *
69345861 CTTAAACCCTAAATCATAGAACATATGTAAACCCTAAATATTAAACCTTAAAT
1 CTTAAACCCTAAATCATAAAACATATATAAACCATAAACATTAAACCTTAAAT
* * *
69345914 CTTAAACCCTAAATCATAAAACATTTATAAACTATAAACCTTAAACCT
1 CTTAAACCCTAAATCATAAAACATATATAAACCATAAACATTAAACCT
69345962 CAACCCTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.29
Consensus pattern (53 bp):
CTTAAACCCTAAATCATAAAACATATATAAACCATAAACATTAAACCTTAAAT
Found at i:69345971 original size:53 final size:53
Alignment explanation
Indices: 69345860--69345972 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
69345850 CAACCATATT
* * * * *
69345860 CCTTAAACCCTAAATCATAGAACATATGTAAACCCTAAATATTAAACCTTAAA
1 CCTTAAACCCTAAATCATAAAACATATATAAACCATAAACATTAAACCTCAAA
* * * * *
69345913 TCTTAAACCCTAAATCATAAAACATTTATAAACTATAAACCTTAAACCTCAAC
1 CCTTAAACCCTAAATCATAAAACATATATAAACCATAAACATTAAACCTCAAA
69345966 CCTTAAA
1 CCTTAAA
69345973 TAATAAAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (53 bp):
CCTTAAACCCTAAATCATAAAACATATATAAACCATAAACATTAAACCTCAAA
Found at i:69346588 original size:114 final size:114
Alignment explanation
Indices: 69346372--69346588 Score: 283
Period size: 114 Copynumber: 1.9 Consensus size: 114
69346362 TAAGATCTTC
* * * *
69346372 GCGGTGTTTCCGCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGTATTTCCGCGTAAGCGCCACTAATGCTAGTATACATAAAGACCAAACGCTGCGTTTTGGTT
* * ** *
69346437 AAGACATTTTGCGGCGCTTTTCGCCAACCGCCGCTAATACTATGCTTTA
66 AAGACACTTTGCGGCGCTTTACAACAACCGCCACTAATACTATGCTTTA
* * *
69346486 GCGGTATTTCC-CTTAAGTGCCACTAATGCTAGTATACATAAAGACTAACACGCTGCGTTTTGGT
1 GCGGTATTTCCGCGTAAGCGCCACTAATGCTAGTATACATAAAGACCAA-ACGCTGCGTTTTGGT
* * *
69346550 TAAGATACTTTGCGGCGCTTTACAATAAGCGCCACTAAT
65 TAAGACACTTTGCGGCGCTTTACAACAACCGCCACTAAT
69346589 TCTAGTGTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
113 32 0.37
114 55 0.63
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (114 bp):
GCGGTATTTCCGCGTAAGCGCCACTAATGCTAGTATACATAAAGACCAAACGCTGCGTTTTGGTT
AAGACACTTTGCGGCGCTTTACAACAACCGCCACTAATACTATGCTTTA
Found at i:69346949 original size:114 final size:115
Alignment explanation
Indices: 69346623--69347102 Score: 506
Period size: 114 Copynumber: 4.2 Consensus size: 115
69346613 TTGCATATTG
* ** * * *
69346623 GTTAAGATATG-TTGTGGCGCTTTTCAAAGCACGCCGCTAATACTATACTTTAGTGGCATTTTGT
1 GTTAAGAT-TGTTTGCGGCGCTTTTCACCGAACGCCGCTAATACTATGCTTTAGCGGCATTTTGT
* *** * * * *
69346687 CGTCGGCGCCACTAATTCTAGTATACATCAAGACTAAAACGCTGCGTTTTG
65 CATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTC
* ** * *
69346738 GTTAAGGTAT-TTTGCGGCGCTTCGCA-CTACACGCCGCTAAGACTATGCTTTAGCGGCATTTTG
1 GTTAAGAT-TGTTTGCGGCGCTTTTCACCGA-ACGCCGCTAATACTATGCTTTAGCGGCATTTTG
**
69346801 TCATAAACGCCACTAATTCTAATATACATCAAGATTAAAACGATGCGTTTTC
64 TCATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTC
*
69346853 GTTAAGATTGTTTGCGGCGCTTTTCACCGAACGCCGCTAATACT-TGCTTTAGCGGCGTTTTGTC
1 GTTAAGATTGTTTGCGGCGCTTTTCACCGAACGCCGCTAATACTATGCTTTAGCGGCATTTTGTC
* *
69346917 ATAAACGCCACTAATTCTAATATACATCAAGATCAAAACTATGCGTTTTC
66 ATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTC
* * * * * * * * *
69346967 GTTAAGATTGCTTACGGCGCTTTTAACCGAGCACCGCTAATACT-TGCTTTAGCAGCGTATT-CC
1 GTTAAGATTGTTTGCGGCGCTTTTCACCGAACGCCGCTAATACTATGCTTTAGCGGCATTTTGTC
* * * ** *
69347030 AATAATCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTATGTTTTG
66 -ATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTC
*
69347081 GTTAAGAGAT-TTTGCGGCGCTT
1 GTTAAGA-TTGTTTGCGGCGCTT
69347103 GAAGGTAAAC
Statistics
Matches: 314, Mismatches: 45, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
113 1 0.00
114 181 0.58
115 130 0.41
116 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (115 bp):
GTTAAGATTGTTTGCGGCGCTTTTCACCGAACGCCGCTAATACTATGCTTTAGCGGCATTTTGTC
ATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTC
Found at i:69347006 original size:229 final size:228
Alignment explanation
Indices: 69346623--69347102 Score: 508
Period size: 229 Copynumber: 2.1 Consensus size: 228
69346613 TTGCATATTG
* * *
69346623 GTTAAGATATG-TTGTGGCGCTTTTCAAAGCACGCCGCTAATACTATACTTTAGTGGCATTTTGT
1 GTTAAGAT-TGTTTGCGGCGCTTTTCAAAGAACGCCGCTAATACTATACTTTAGCGGCATTTTGT
* *** * * * *
69346687 CGTCGGCGCCACTAATTCTAGTATACATCAAGACTAAAACGCTGCGTTTTGGTTAAGGTATTTTG
65 CATAAACGCCACTAATTCTAATATACATCAAGACTAAAACGATGCGTTTTCGTTAAGGTATTTTA
* * * * *
69346752 CGGCGCTTCGCACTACACGCCGCTAAGACTATGCTTTAGCGGCATTTTGTC-ATAAACGCCACTA
130 CGGCGCTTCGAAC-ACACACCGCTAAGACT-TGCTTTAGCAGCATATT-CCAATAAACGCCACTA
** *
69346816 ATTCTAATATACATCAAGATTAAAACGATGCGTTTTC
192 ATTCTAATATACATCAAGACCAAAACGATACGTTTTC
** * *
69346853 GTTAAGATTGTTTGCGGCGCTTTTCACCGAACGCCGCTAATACT-TGCTTTAGCGGCGTTTTGTC
1 GTTAAGATTGTTTGCGGCGCTTTTCAAAGAACGCCGCTAATACTATACTTTAGCGGCATTTTGTC
*
69346917 ATAAACGCCACTAATTCTAATATACATCAAGA-TCAAAACTATGCGTTTTCGTTAA-G-ATTGCT
66 ATAAACGCCACTAATTCTAATATACATCAAGACT-AAAACGATGCGTTTTCGTTAAGGTATT--T
** * * *
69346979 TACGGCGCTTTTAAC-CGAGCACCGCTAATACTTGCTTTAGCAGCGTATTCCAATAATCGCCACT
128 TACGGCGCTTCGAACAC-A-CACCGCTAAGACTTGCTTTAGCAGCATATTCCAATAAACGCCACT
* * * *
69347043 AATTCTAGTATACATCAAGACCAAAACGCTATGTTTTG
191 AATTCTAATATACATCAAGACCAAAACGATACGTTTTC
*
69347081 GTTAAGAGAT-TTTGCGGCGCTT
1 GTTAAGA-TTGTTTGCGGCGCTT
69347103 GAAGGTAAAC
Statistics
Matches: 208, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
227 5 0.02
228 78 0.38
229 88 0.42
230 37 0.18
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (228 bp):
GTTAAGATTGTTTGCGGCGCTTTTCAAAGAACGCCGCTAATACTATACTTTAGCGGCATTTTGTC
ATAAACGCCACTAATTCTAATATACATCAAGACTAAAACGATGCGTTTTCGTTAAGGTATTTTAC
GGCGCTTCGAACACACACCGCTAAGACTTGCTTTAGCAGCATATTCCAATAAACGCCACTAATTC
TAATATACATCAAGACCAAAACGATACGTTTTC
Found at i:69355069 original size:15 final size:15
Alignment explanation
Indices: 69355049--69355078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69355039 TGCCAAACAC
*
69355049 GAAGACAGATACAAG
1 GAAGACAGAGACAAG
69355064 GAAGACAGAGACAAG
1 GAAGACAGAGACAAG
69355079 ATCCAAAGGT
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:0.53, C:0.13, G:0.30, T:0.03
Consensus pattern (15 bp):
GAAGACAGAGACAAG
Found at i:69355993 original size:11 final size:12
Alignment explanation
Indices: 69355977--69356009 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
69355967 AATTTTACGA
69355977 AAAAATTTCG-T
1 AAAAATTTCGTT
69355988 AAAAATTTCGTT
1 AAAAATTTCGTT
*
69356000 CAAAATTTCG
1 AAAAATTTCG
69356010 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (12 bp):
AAAAATTTCGTT
Found at i:69356938 original size:20 final size:21
Alignment explanation
Indices: 69356910--69356949 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
69356900 ATTTAATGCA
*
69356910 ATATTTTGACA-TTATTTGAT
1 ATATGTTGACATTTATTTGAT
*
69356930 ATATGTTGAGATTTATTTGA
1 ATATGTTGACATTTATTTGA
69356950 ACATAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (21 bp):
ATATGTTGACATTTATTTGAT
Found at i:69357235 original size:69 final size:70
Alignment explanation
Indices: 69357063--69357265 Score: 246
Period size: 69 Copynumber: 2.8 Consensus size: 70
69357053 AAGTACATTG
* * *
69357063 AATGTGAAAGGGGTTGCTAAGTGCTGATTTCCCGACTCATTGGTGGTTGCTATGTGCTGATTCCA
1 AATGTGAAGGGGGTTGCTAAGTGCTGA-TTCCC--C-CA-AGG-GGTTGCTAAGTGCTGATTCCA
*
69357128 CCGTAACTTTG
60 CCGTAACTTTA
*** *
69357139 AATACAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCACCGT-A
1 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCACCGTAA
*
69357203 TTTTA
66 CTTTA
* *
69357208 AATGTGAAGGGGGTTACTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCC
1 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCC
69357266 CCGAATCATT
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
69 56 0.50
70 23 0.21
71 2 0.02
72 2 0.02
73 1 0.01
75 5 0.04
76 23 0.21
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (70 bp):
AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCACCGTAA
CTTTA
Found at i:69363064 original size:23 final size:23
Alignment explanation
Indices: 69363030--69363073 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
69363020 TAGATTATAA
*
69363030 CATGTCTGCAAAATGTTTTTTCT
1 CATGTCTGCAAAAGGTTTTTTCT
*
69363053 CATGTCTTCAAAAGGTTTTTT
1 CATGTCTGCAAAAGGTTTTTT
69363074 TTTTAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.48
Consensus pattern (23 bp):
CATGTCTGCAAAAGGTTTTTTCT
Found at i:69363090 original size:20 final size:20
Alignment explanation
Indices: 69363062--69363100 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69363052 TCATGTCTTC
**
69363062 AAAAGGTTTTTTTTTTAATG
1 AAAAGGTTTCATTTTTAATG
*
69363082 AAAATGTTTCATTTTTAAT
1 AAAAGGTTTCATTTTTAAT
69363101 TATGTGCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (20 bp):
AAAAGGTTTCATTTTTAATG
Found at i:69370284 original size:18 final size:18
Alignment explanation
Indices: 69370261--69370389 Score: 177
Period size: 18 Copynumber: 7.2 Consensus size: 18
69370251 CCCAACTACT
*
69370261 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
69370279 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
69370297 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
69370315 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* *
69370333 ATATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
* * *
69370351 GTATACGTAAATAGTGCT
1 GTATACGTGAATAGTACC
69370369 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
69370387 GTA
1 GTA
69370390 AACGGTCGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 96 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:69371184 original size:19 final size:19
Alignment explanation
Indices: 69371162--69371200 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
69371152 TATTTACCAA
69371162 AATTTTATTTTCTTTATAT
1 AATTTTATTTTCTTTATAT
69371181 AATTTTATTTTCTTTATAT
1 AATTTTATTTTCTTTATAT
69371200 A
1 A
69371201 GAAATGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTATTTTCTTTATAT
Found at i:69376112 original size:12 final size:10
Alignment explanation
Indices: 69376077--69376116 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
69376067 TATACAATAC
69376077 TATATTGAAAA
1 TATA-TGAAAA
69376088 TATATGAAAA
1 TATATGAAAA
69376098 TATATGAAAA
1 TATATGAAAA
69376108 TATATGAAA
1 TATATGAAA
69376117 GAGATTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 25 0.86
11 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (10 bp):
TATATGAAAA
Found at i:69376288 original size:22 final size:21
Alignment explanation
Indices: 69376239--69376280 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
69376229 TATACTATGC
69376239 TTAT-TACTTAATAATAATTG
1 TTATATACTTAATAATAATTG
69376259 TTCATATACTTAATAATAATTG
1 TT-ATATACTTAATAATAATTG
69376281 GCTTTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 2 0.10
22 16 0.80
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (21 bp):
TTATATACTTAATAATAATTG
Found at i:69381719 original size:6 final size:6
Alignment explanation
Indices: 69381710--69381739 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
69381700 TTTTTATTTT
69381710 TATTCA TATTCA TATTCA TATTCA TATTCA
1 TATTCA TATTCA TATTCA TATTCA TATTCA
69381740 ACATCTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTCA
Found at i:69389712 original size:17 final size:16
Alignment explanation
Indices: 69389675--69389715 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
69389665 AATTTGCATT
*
69389675 CGTATATATTTAAATA
1 CGTATATATGTAAATA
69389691 CGTATATATGTACAATA
1 CGTATATATGTA-AATA
*
69389708 TGTATATA
1 CGTATATA
69389716 AAATAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (16 bp):
CGTATATATGTAAATA
Found at i:69389994 original size:23 final size:22
Alignment explanation
Indices: 69389955--69389999 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
69389945 GCTCAAAAAA
*
69389955 AATATATTTATGTTAAAAATATG
1 AATATATTTATGAT-AAAATATG
69389978 AATATATTATAT-ATAAAATATG
1 AATATATT-TATGATAAAATATG
69390000 GGTATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 9 0.45
24 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AATATATTTATGATAAAATATG
Found at i:69403508 original size:21 final size:21
Alignment explanation
Indices: 69403476--69403516 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
69403466 GAACATTTGG
69403476 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
69403497 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
69403517 CCTAGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:69407254 original size:7 final size:7
Alignment explanation
Indices: 69407242--69407273 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
69407232 AAAATATTTT
69407242 TATTTAA
1 TATTTAA
69407249 TATTTAA
1 TATTTAA
69407256 TATTTAA
1 TATTTAA
69407263 TATTT-A
1 TATTTAA
69407269 TATTT
1 TATTT
69407274 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAA
Found at i:69407257 original size:20 final size:20
Alignment explanation
Indices: 69407234--69407273 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69407224 TATTTTAGAA
*
69407234 AATATTTTTATTTAATATTT
1 AATATTTATATTTAATATTT
69407254 AATATTTAATATTT-ATATTT
1 AATATTT-ATATTTAATATTT
69407274 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATATTTATATTTAATATTT
Found at i:69407261 original size:14 final size:13
Alignment explanation
Indices: 69407234--69407273 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
69407224 TATTTTAGAA
*
69407234 AATATTTTTATTT
1 AATATTTATATTT
69407247 AATATTTAATATTT
1 AATATTT-ATATTT
69407261 AATATTTATATTT
1 AATATTTATATTT
69407274 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:69410454 original size:18 final size:18
Alignment explanation
Indices: 69410423--69410473 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
69410413 AACATACATT
*
69410423 TTAAATAT-TTTTATATTA
1 TTAAATATATATTAT-TTA
*
69410441 TTAAAT-TATATTATTTC
1 TTAAATATATATTATTTA
*
69410458 TTTAATATATATTATT
1 TTAAATATATATTATT
69410474 AACTTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATATATATTATTTA
Found at i:69419068 original size:153 final size:153
Alignment explanation
Indices: 69418682--69419047 Score: 556
Period size: 153 Copynumber: 2.4 Consensus size: 153
69418672 GATATTCCAC
* ** * *
69418682 GTGATATTTCTGGTCTATCCTGTTTGGAAAAACTTGATCTCAGTGGTAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTGGATTATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
* *
69418747 CCTGCATCTCTTACTCGACTCTCGAAGCTTGAAGATCTGATATTGTCAAATTGTAACATGTGCAC
66 CCTGCATCTCTTACTCGACTCTCGAAGCTTCAAGATCTGATATTGTCAAATTGCAACATGTGCAC
*
69418812 TTTTGGTGAAGCAGATACTCATA
131 TTCTGGTGAAGCAGATACTCATA
* *
69418835 GTGATATTTCTGGTCTATCCTCTTTGAATTATCTTGATCTTAGTGATAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTGGATTATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
* *
69418900 CCTGCATCTCTTACTCGACTCTCGAATCTTTCAA-ATCTTATATTGTCAAATTGCAACAT-TCGC
66 CCTGCATCTCTTACTCGACTCTCGAAGC-TTCAAGATCTGATATTGTCAAATTGCAACATGT-GC
*
69418963 ACTTCTGGTGAAGCAGATACTCATG
129 ACTTCTGGTGAAGCAGATACTCATA
* * *
69418988 GTGATATTTCTGGTCTATCCTCTTTGGGTTATCTTGATCTTACTGGTAAGAATTTCATCA
1 GTGATATTTCTGGTCTATCCTCTTTGGATTATCTTGATCTTAGTGGTAACAATTTCATCA
69419048 CCCTTCCTTT
Statistics
Matches: 193, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
152 1 0.01
153 188 0.97
154 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (153 bp):
GTGATATTTCTGGTCTATCCTCTTTGGATTATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
CCTGCATCTCTTACTCGACTCTCGAAGCTTCAAGATCTGATATTGTCAAATTGCAACATGTGCAC
TTCTGGTGAAGCAGATACTCATA
Found at i:69419108 original size:153 final size:152
Alignment explanation
Indices: 69418682--69419100 Score: 457
Period size: 153 Copynumber: 2.7 Consensus size: 152
69418672 GATATTCCAC
* * * * * * *
69418682 GTGATATTTCTGGTCTATCCTGTTTGGAA-AAACTTGATCTCAGTGGTAACAATTTCATCAGCAT
1 GTGATATTTCTGGTCTATCCTCTTT-GAATTATCTTGATCTTACTGATAACAATTTCATCACCAT
* * * * * * *
69418746 ACCTGCATCTCTTACTCGACTCTCGAAGCTTGAAGATCTGATATTGTCAAATTGTAACATGT-GC
65 ACCTGCAGCTCTTACTCAACTCTCCAAGCTTCAA-ATCTTAAATTGTCAAATTGCAACAT-TCGC
*
69418810 ACTTTTGGTGAAGCAGATACTCATA
128 ACTTCTGGTGAAGCAGATACTCATA
* *
69418835 GTGATATTTCTGGTCTATCCTCTTTGAATTATCTTGATCTTAGTGATAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTGAATTATCTTGATCTTACTGATAACAATTTCATCACCATA
* * * * *
69418900 CCTGCATCTCTTACTCGACTCTCGAATCTTTCAAATCTTATATTGTCAAATTGCAACATTCGCAC
66 CCTGCAGCTCTTACTCAACTCTCCAAGC-TTCAAATCTTAAATTGTCAAATTGCAACATTCGCAC
*
69418965 TTCTGGTGAAGCAGATACTCATG
130 TTCTGGTGAAGCAGATACTCATA
** * * * *
69418988 GTGATATTTCTGGTCTATCCTCTTTGGGTTATCTTGATCTTACTGGTAAGAATTTCATCACCCTT
1 GTGATATTTCTGGTCTATCCTCTTTGAATTATCTTGATCTTACTGATAACAATTTCATCACCATA
*** * *
69419053 CCTTTGGCTCTTACTCAACTTTCCAGGC-TCAAATTGCTTAAATTGTCA
66 CCTGCAGCTCTTACTCAACTCTCCAAGCTTCAAA-T-CTTAAATTGTCA
69419101 GGTTGCAAGA
Statistics
Matches: 232, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
151 5 0.02
152 5 0.02
153 218 0.94
154 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (152 bp):
GTGATATTTCTGGTCTATCCTCTTTGAATTATCTTGATCTTACTGATAACAATTTCATCACCATA
CCTGCAGCTCTTACTCAACTCTCCAAGCTTCAAATCTTAAATTGTCAAATTGCAACATTCGCACT
TCTGGTGAAGCAGATACTCATA
Found at i:69423543 original size:100 final size:100
Alignment explanation
Indices: 69423370--69423571 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 100
69423360 TCAAGCACAA
69423370 GCAAATGCCAACCCCAACTAATATACCCAAACTTGCCACTGGAACCATGATCCAAACCCACAGTT
1 GCAAATGCCAACCCCAACTAATATACCCAAACTTGCCACTGGAACCATGATCCAAACCCACAGTT
69423435 GTTTGCCATTTCCTCCTATATCAGTATCAGAAAAC
66 GTTTGCCATTTCCTCCTATATCAGTATCAGAAAAC
*
69423470 GCAAATGGCAACCCCAACTAATATACCCAAACTTGCCACTGGAACCATGATCCAAACCCACAGTT
1 GCAAATGCCAACCCCAACTAATATACCCAAACTTGCCACTGGAACCATGATCCAAACCCACAGTT
69423535 GTTTGCCATTTCCTCCTATATCAGTATCAGAAAAC
66 GTTTGCCATTTCCTCCTATATCAGTATCAGAAAAC
69423570 GC
1 GC
69423572 CCACGATTTC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.23
Consensus pattern (100 bp):
GCAAATGCCAACCCCAACTAATATACCCAAACTTGCCACTGGAACCATGATCCAAACCCACAGTT
GTTTGCCATTTCCTCCTATATCAGTATCAGAAAAC
Found at i:69427583 original size:37 final size:37
Alignment explanation
Indices: 69427541--69427612 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
69427531 ATACATACTT
*
69427541 ACAATAATACTCACCGCCAATTAATATGGCATTTTTA
1 ACAATAATACTCACCACCAATTAATATGGCATTTTTA
69427578 ACAATAATACTCACCACCAATTAATATGGCATTTT
1 ACAATAATACTCACCACCAATTAATATGGCATTTT
69427613 AGTTATGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (37 bp):
ACAATAATACTCACCACCAATTAATATGGCATTTTTA
Found at i:69429160 original size:20 final size:20
Alignment explanation
Indices: 69429135--69429176 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
69429125 GAATTTCTTC
69429135 AACCTCATTAACTTTTGCTA
1 AACCTCATTAACTTTTGCTA
69429155 AACCTCATTAACTTTTGCTA
1 AACCTCATTAACTTTTGCTA
69429175 AA
1 AA
69429177 GCAACAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (20 bp):
AACCTCATTAACTTTTGCTA
Found at i:69430927 original size:43 final size:43
Alignment explanation
Indices: 69430879--69430977 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
69430869 GGAAAGTTTG
*
69430879 ATGGTAGTTATAA-CAACGTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACCAA-GCTAAATGTCCAATTAAGGC-ACACTA
*
69430922 ATGGTAATTATAACCAAGCTAAATGTCCAATTAAGGCACACTA
1 ATGGTAGTTATAACCAAGCTAAATGTCCAATTAAGGCACACTA
69430965 ATGGTAGTTATAA
1 ATGGTAGTTATAA
69430978 GAGAGAGCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 46 0.90
44 5 0.10
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTAGTTATAACCAAGCTAAATGTCCAATTAAGGCACACTA
Found at i:69433551 original size:3 final size:3
Alignment explanation
Indices: 69433543--69433587 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
69433533 TTTCCCCATT
* *
69433543 TTC TTC TTC TT- TTCC TTC TTC TTC TTC CTC TTC CTC TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
69433588 ATCATCCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:69433595 original size:18 final size:18
Alignment explanation
Indices: 69433559--69433596 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69433549 TTCTTTTCCT
* *
69433559 TCTTCTTCTTCCTCTTCC
1 TCTTCTTCTTCATCATCC
69433577 TCTTCTTCTTCATCATCC
1 TCTTCTTCTTCATCATCC
69433595 TC
1 TC
69433597 ATCATCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.42, G:0.00, T:0.53
Consensus pattern (18 bp):
TCTTCTTCTTCATCATCC
Found at i:69445614 original size:16 final size:16
Alignment explanation
Indices: 69445581--69445615 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
69445571 TTGTATTACT
*
69445581 CAACAAGGCTTATGTA
1 CAACAAGGCTTATATA
*
69445597 CAACAAGGCTTTTATA
1 CAACAAGGCTTATATA
69445613 CAA
1 CAA
69445616 ACCAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (16 bp):
CAACAAGGCTTATATA
Found at i:69445688 original size:103 final size:100
Alignment explanation
Indices: 69445512--69445718 Score: 308
Period size: 103 Copynumber: 2.0 Consensus size: 100
69445502 AGGCACTCCA
* *
69445512 ACAAATCAAATACAAGGAGCTAATATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
1 ACAAACCAAATACAAGGAGCTAACATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
* * *
69445577 TACTCAACAAGGCTTATGTACAACAAGGCTTTTAT
66 TACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
* *
69445612 ACAAACCAAATACAA-GAGTTAACATGCAAGGAAAGTGAGTGTAAGAGATCTAATGCTATAGCTT
1 ACAAACCAAATACAAGGAGCTAACATGCAAAGAAAGTGAGTGT-A-AGA-C-AATGCTATAGCTT
69445676 GTATTACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
62 GTATTACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
69445715 ACAA
1 ACAA
69445719 TGATTCATGT
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
99 24 0.25
100 15 0.16
101 3 0.03
102 1 0.01
103 53 0.55
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (100 bp):
ACAAACCAAATACAAGGAGCTAACATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
TACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
Found at i:69447108 original size:20 final size:20
Alignment explanation
Indices: 69447062--69447110 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
69447052 ATTAAATCAA
*
69447062 AAATCAA-TACAAACCGATT
1 AAATCAACTAAAAACCGATT
* *
69447081 AAACCAACTAAAAATCGATT
1 AAATCAACTAAAAACCGATT
*
69447101 TAATCAACTA
1 AAATCAACTA
69447111 TTGAACTGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATCAACTAAAAACCGATT
Found at i:69449712 original size:10 final size:10
Alignment explanation
Indices: 69449697--69449729 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
69449687 TCTCTCTCTC
69449697 TATATGTATG
1 TATATGTATG
69449707 TATATGTATG
1 TATATGTATG
69449717 --TATGTATG
1 TATATGTATG
69449725 TATAT
1 TATAT
69449730 ATGTACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (10 bp):
TATATGTATG
Found at i:69455121 original size:14 final size:14
Alignment explanation
Indices: 69455102--69455141 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
69455092 CAAGAGTTAT
69455102 ATAATAACAACAAA
1 ATAATAACAACAAA
*
69455116 ATAATAGCAACAAA
1 ATAATAACAACAAA
*
69455130 ATAGTAACAACA
1 ATAATAACAACA
69455142 TAATTGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (14 bp):
ATAATAACAACAAA
Found at i:69455200 original size:22 final size:24
Alignment explanation
Indices: 69455150--69455203 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
69455140 CATAATTGTG
*
69455150 AAATAAT-AGCAAAATAGTGAAAA
1 AAATAATAAGCAAAATAGTCAAAA
*
69455173 AAATAATAAGCAAAA-AG-CAACA
1 AAATAATAAGCAAAATAGTCAAAA
69455195 AAATAATAA
1 AAATAATAA
69455204 AAAAAGTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
23 9 0.32
24 7 0.25
ACGTcount: A:0.69, C:0.07, G:0.09, T:0.15
Consensus pattern (24 bp):
AAATAATAAGCAAAATAGTCAAAA
Found at i:69458156 original size:41 final size:41
Alignment explanation
Indices: 69458106--69458229 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
69458096 ATTCTAAATC
* *
69458106 CCTT-AGCATTAGCGGCGCTTTATCAAAATCGCCGCTAAAG
1 CCTTGAGCATTAGCGGCGCTTTATAAAAAACGCCGCTAAAG
* * * *
69458146 CCTTGAGCATTAGCGACGCTTTTTAAAAAACGTCGCTACAG
1 CCTTGAGCATTAGCGGCGCTTTATAAAAAACGCCGCTAAAG
* * * * * *
69458187 CCCTGAGCATTAGCGGTGCGTTCTTAAAAACACCGCTAAAG
1 CCTTGAGCATTAGCGGCGCTTTATAAAAAACGCCGCTAAAG
69458228 CC
1 CC
69458230 ACGAAAGCTC
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 4 0.06
41 64 0.94
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (41 bp):
CCTTGAGCATTAGCGGCGCTTTATAAAAAACGCCGCTAAAG
Found at i:69459348 original size:9 final size:9
Alignment explanation
Indices: 69459245--69459347 Score: 136
Period size: 9 Copynumber: 11.4 Consensus size: 9
69459235 GTAGTGATTC
*
69459245 AATTTGGTT
1 AATTCGGTT
69459254 AATTCGGTT
1 AATTCGGTT
*
69459263 AATTCGGGT
1 AATTCGGTT
69459272 AATTCGGTT
1 AATTCGGTT
*
69459281 AATTCGGGT
1 AATTCGGTT
69459290 AATTCGGTT
1 AATTCGGTT
69459299 AATTC-GTGT
1 AATTCGGT-T
*
69459308 AATTCGGGT
1 AATTCGGTT
*
69459317 AATTCGGCT
1 AATTCGGTT
69459326 AATTCGGTT
1 AATTCGGTT
*
69459335 AATTTGGTT
1 AATTCGGTT
69459344 AATT
1 AATT
69459348 TTTAACCAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
8 2 0.02
9 80 0.96
10 1 0.01
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:69461995 original size:3 final size:3
Alignment explanation
Indices: 69461987--69462015 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
69461977 ATTATTTTAA
69461987 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
69462016 AGAAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:69467023 original size:14 final size:14
Alignment explanation
Indices: 69467004--69467031 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69466994 AATCCTTTAT
69467004 CCATTTTAATGTGA
1 CCATTTTAATGTGA
69467018 CCATTTTAATGTGA
1 CCATTTTAATGTGA
69467032 GCAAATAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CCATTTTAATGTGA
Found at i:69467233 original size:51 final size:51
Alignment explanation
Indices: 69467169--69467278 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 51
69467159 TTTTACAGGT
* ** * * *
69467169 TAAATTTGTTAAATCAGGACCAAATTGACAAGATGTATAAA-TATTGTGAGC
1 TAAATTTGATAAATCAAAACCAAATTGACAAAATATATAAACT-TTGAGAGC
* *
69467220 TAAATTTGATAAATTAAAACCAAATTGACAAAATATATAAACTTTGAGGGC
1 TAAATTTGATAAATCAAAACCAAATTGACAAAATATATAAACTTTGAGAGC
69467271 TAAATTTG
1 TAAATTTG
69467279 TTATTATATG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.32
Consensus pattern (51 bp):
TAAATTTGATAAATCAAAACCAAATTGACAAAATATATAAACTTTGAGAGC
Found at i:69470661 original size:190 final size:194
Alignment explanation
Indices: 69470276--69470875 Score: 920
Period size: 190 Copynumber: 3.0 Consensus size: 194
69470266 TCACTCTCCT
* * *
69470276 CCCTCCCTTGTTAGCGTCCGCTGCTGAGAGCTAGGGTGGGTTTAGGCCTTATATCATCGTTTATT
1 CCCTCCCTTGTTAGCGTCCGCTACTAAGAGCTAGGGTGGGTTTA-GCCCT-TATCA-----TATT
69470341 TTTATTGGGCTTTTGAGTCTACATGCTTTATTTTTCTATATAAAGAGATATAAAATGAAAAAAAA
59 TTTATTGGGCTTTTGAGTCTACATGCTTTATTTTTCTATATAAAGAGATATAAAATGAAAAAAAA
69470406 TCTCAAGTAATACAATTTATTTTATAAAATAAGGATATATCCAATTGAGTTGGTGTCTGGTTAAC
124 TCTCAAGTAATACAATTTATTTTATAAAATAAGGATATATCCAATTGAGTTGGTGTCTGGTTAAC
69470471 GCGTAA
189 GCGTAA
69470477 CCCTCCCTTGTTAGCGTCCGCTACTAAGAGCTAGGGTGGGTTTAGCCC-T-T-A-ATTTTTATTG
1 CCCTCCCTTGTTAGCGTCCGCTACTAAGAGCTAGGGTGGGTTTAGCCCTTATCATATTTTTATTG
69470538 GGCTTTTGAGTCTACATGCTTTATTTTTCTATATAAAGAGATATAAAATGAAAAAAAATCTCAAG
66 GGCTTTTGAGTCTACATGCTTTATTTTTCTATATAAAGAGATATAAAATGAAAAAAAATCTCAAG
69470603 TAATACAATTTATTTTATAAAATAAGGATATATCCAATTGAGTTGGTGTCTGGTTAACGCGTAA
131 TAATACAATTTATTTTATAAAATAAGGATATATCCAATTGAGTTGGTGTCTGGTTAACGCGTAA
*
69470667 CCCTCCCTTGTTAGCGTCCGCTACTGAGAGCTAGGGTGGGTTTAGCCCTTATATCATCGTTTATT
1 CCCTCCCTTGTTAGCGTCCGCTACTAAGAGCTAGGGTGGGTTTAGCCC-T-TATCA-----TATT
* *
69470732 TTTATTGGGCTTTTGAGTCTACATACTTTATTTTTCTATTTAAAGAGATATAAAATGAAAAAAAA
59 TTTATTGGGCTTTTGAGTCTACATGCTTTATTTTTCTATATAAAGAGATATAAAATG-AAAAAAA
*
69470797 ATCTCAAGTAATACAATTTATTTTATAAAATAAGAATATTTTTATATCCAATTGAGTTGGTGTCT
123 ATCTCAAGTAATACAATTTATTTTATAAAATAAG--GA----TATATCCAATTGAGTTGGTGTCT
69470862 GGTTAACGCGTAA
182 GGTTAACGCGTAA
69470875 C
1 C
69470876 ACCTATTCAG
Statistics
Matches: 374, Mismatches: 7, Indels: 29
0.91 0.02 0.07
Matches are distributed among these distances:
190 186 0.50
193 1 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 1 0.00
198 1 0.00
200 3 0.01
201 100 0.27
202 41 0.11
204 1 0.00
208 37 0.10
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (194 bp):
CCCTCCCTTGTTAGCGTCCGCTACTAAGAGCTAGGGTGGGTTTAGCCCTTATCATATTTTTATTG
GGCTTTTGAGTCTACATGCTTTATTTTTCTATATAAAGAGATATAAAATGAAAAAAAATCTCAAG
TAATACAATTTATTTTATAAAATAAGGATATATCCAATTGAGTTGGTGTCTGGTTAACGCGTAA
Found at i:69474495 original size:2 final size:2
Alignment explanation
Indices: 69474483--69474514 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
69474473 CAAGTATGAG
*
69474483 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69474515 GAGAACACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69475134 original size:15 final size:17
Alignment explanation
Indices: 69475107--69475147 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
69475097 AATATAAATA
69475107 TTTATTT-AATTT-GT-
1 TTTATTTAAATTTGGTG
69475121 TTTATTTAAATTTGGTG
1 TTTATTTAAATTTGGTG
69475138 TTT-TTTAAAT
1 TTTATTTAAAT
69475148 AAATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 9 0.38
17 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (17 bp):
TTTATTTAAATTTGGTG
Found at i:69475681 original size:21 final size:21
Alignment explanation
Indices: 69475639--69475681 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
69475629 TTGTAAAAAT
* * **
69475639 AAATATATTATATATTTTTTA
1 AAATATATTAAAAATTAATTA
69475660 AAATATATTAAAAATTAATTA
1 AAATATATTAAAAATTAATTA
69475681 A
1 A
69475682 TTACTTATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATATATTAAAAATTAATTA
Found at i:69502819 original size:13 final size:14
Alignment explanation
Indices: 69502801--69502830 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
69502791 TAACTTCTCA
69502801 TTTGTTT-TTTTTT
1 TTTGTTTCTTTTTT
69502814 TTTGTTTCTTTTTT
1 TTTGTTTCTTTTTT
69502828 TTT
1 TTT
69502831 TTCGAGTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTGTTTCTTTTTT
Found at i:69504108 original size:17 final size:19
Alignment explanation
Indices: 69504073--69504115 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
69504063 ATTAGTTTAA
* *
69504073 TTAAAAATTAGATTTA-TT
1 TTAAAAATTAGAGTAATTT
69504091 TTAAAAATT-GAGTAATTT
1 TTAAAAATTAGAGTAATTT
69504109 TTAAAAA
1 TTAAAAA
69504116 ATAATAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
TTAAAAATTAGAGTAATTT
Found at i:69509704 original size:18 final size:18
Alignment explanation
Indices: 69509677--69509715 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
69509667 TAATAAATAA
* *
69509677 AATTATCCAACCCAACTC
1 AATTACCCAACCCAACCC
69509695 AATTACCCAACCCAACCC
1 AATTACCCAACCCAACCC
69509713 AAT
1 AAT
69509716 AAAACTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (18 bp):
AATTACCCAACCCAACCC
Found at i:69509906 original size:37 final size:37
Alignment explanation
Indices: 69509865--69509939 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
69509855 TGTTAATTTC
69509865 AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
*
69509902 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
69509939 A
1 A
69509940 TTCGGATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (37 bp):
AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:69509929 original size:17 final size:17
Alignment explanation
Indices: 69509874--69509930 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
69509864 CAAGACTTAC
69509874 GTAATGTTTTTAATTAT
1 GTAATGTTTTTAATTAT
* ***
69509891 GTAGTGATTCAAAGACTTAT
1 GTAATG-TTTTTA-A-TTAT
69509911 GTAATGTTTTTAATTAT
1 GTAATGTTTTTAATTAT
69509928 GTA
1 GTA
69509931 GTGATTCAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 12 0.41
18 4 0.14
19 4 0.14
20 9 0.31
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.49
Consensus pattern (17 bp):
GTAATGTTTTTAATTAT
Found at i:69509952 original size:9 final size:9
Alignment explanation
Indices: 69509938--69509977 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
69509928 GTAGTGATTC
*
69509938 AATTCGGAT
1 AATTCGGTT
69509947 AATTCGGTT
1 AATTCGGTT
*
69509956 AATTCAGTT
1 AATTCGGTT
69509965 AATTCGGTT
1 AATTCGGTT
69509974 AATT
1 AATT
69509978 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:69517933 original size:24 final size:22
Alignment explanation
Indices: 69517901--69517962 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 22
69517891 AGTGTATTGT
69517901 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTA-ATTTATCA
* *
69517924 TGTTTTATTATTTGTAATTTATCA
1 -ATATTATTATTT-TAATTTATCA
69517948 ATATTATTATTTTAA
1 ATATTATTATTTTAA
69517963 ATTCATCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.09
23 10 0.30
24 18 0.55
25 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (22 bp):
ATATTATTATTTTAATTTATCA
Found at i:69517965 original size:23 final size:23
Alignment explanation
Indices: 69517901--69518022 Score: 86
Period size: 23 Copynumber: 5.2 Consensus size: 23
69517891 AGTGTATTGT
*
69517901 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTAAATTTATCA
* *
69517924 TGTTTTATTATTTGT-AATTTATCA
1 -ATATTATTATTT-TAAATTTATCA
* *
69517948 ATATTATTATTTTAAATTCATCT
1 ATATTATTATTTTAAATTTATCA
* ** *
69517971 TTAACATTATCTTAAATTTATC-
1 ATATTATTATTTTAAATTTATCA
* *
69517993 ATGTATATCTATTTCAAATTTATCA
1 ATAT-TAT-TATTTTAAATTTATCA
*
69518018 TTATT
1 ATATT
69518023 TTTAAATTTA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.03
23 36 0.49
24 32 0.44
25 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (23 bp):
ATATTATTATTTTAAATTTATCA
Found at i:69518149 original size:24 final size:23
Alignment explanation
Indices: 69518091--69518149 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
69518081 CATCAAAATT
69518091 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
69518114 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
69518139 TTGTAAATTAT
1 TT-TAAATTAT
69518150 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:69519456 original size:14 final size:14
Alignment explanation
Indices: 69519437--69519466 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69519427 ACAAATTGAC
*
69519437 ATGATATTACATAT
1 ATGATAATACATAT
69519451 ATGATAATACATAT
1 ATGATAATACATAT
69519465 AT
1 AT
69519467 ACCATATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
ATGATAATACATAT
Found at i:69524689 original size:25 final size:24
Alignment explanation
Indices: 69524643--69524717 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
69524633 TTTATTATTG
*
69524643 TATTATTATTTTAAAAGTTTTTTTATA
1 TATTATTATTTT--AAG-TTTTTCATA
*
69524670 TATGTATTATTTTAAGTTTTTCATT
1 TAT-TATTATTTTAAGTTTTTCATA
* * *
69524695 TATAATTATTTTTAGTTTATCAT
1 TATTATTATTTTAAGTTTTTCAT
69524718 CATAATTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
24 17 0.40
25 10 0.24
26 3 0.07
27 3 0.07
28 9 0.21
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (24 bp):
TATTATTATTTTAAGTTTTTCATA
Found at i:69524702 original size:24 final size:23
Alignment explanation
Indices: 69524675--69524725 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
69524665 TTATATATGT
* *
69524675 ATTATTTTAAGTTTTTCATTTATA
1 ATTATTTTAAGTTTATCA-TCATA
*
69524699 ATTATTTTTAGTTTATCATCATA
1 ATTATTTTAAGTTTATCATCATA
69524722 ATTA
1 ATTA
69524726 CTCTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTATTTTAAGTTTATCATCATA
Found at i:69528946 original size:17 final size:17
Alignment explanation
Indices: 69528926--69528962 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
69528916 GTTAGAATTT
* *
69528926 TTTTTAAAATTTTAAAA
1 TTTTTAAAAATATAAAA
69528943 TTTTTAAAAATATAAAA
1 TTTTTAAAAATATAAAA
69528960 TTT
1 TTT
69528963 GAAATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTAAAAATATAAAA
Found at i:69528971 original size:24 final size:25
Alignment explanation
Indices: 69528930--69528979 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
69528920 GAATTTTTTT
69528930 TAAAATTTTAAAATTTTTAAAAATA
1 TAAAATTTTAAAATTTTTAAAAATA
* *
69528955 TAAAA-TTTGAAATTTTTATAAATA
1 TAAAATTTTAAAATTTTTAAAAATA
69528979 T
1 T
69528980 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAAAATTTTAAAATTTTTAAAAATA
Found at i:69528987 original size:19 final size:20
Alignment explanation
Indices: 69528960--69529007 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
69528950 AAATATAAAA
69528960 TTTGAAATTTTT-ATAAA-TAT
1 TTTG-AATTTTTGA-AAATTAT
69528980 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTTGAAAATTAT
69529000 TTTGAATT
1 TTTGAATT
69529008 CTTTTTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTGAATTTTTGAAAATTAT
Found at i:69531009 original size:12 final size:12
Alignment explanation
Indices: 69530987--69531021 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
69530977 AATATAAATA
69530987 AATAGGTAATAAT
1 AATA-GTAATAAT
69531000 AATAGTAATAAT
1 AATAGTAATAAT
*
69531012 AATAATAATA
1 AATAGTAATA
69531022 GGACTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:69532582 original size:44 final size:42
Alignment explanation
Indices: 69532529--69533094 Score: 146
Period size: 44 Copynumber: 12.8 Consensus size: 42
69532519 CCTTTATTTT
* *
69532529 AATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTC
1 AATCTACTCCACTGTAATCTCAGG-AGATAAGA-TACTATCTTC
* * *
69532573 AATCTACTCCGCTGTAATCTCAGGGAGATAAGA-CCTGA--TAC
1 AATCTACTCCACTGTAATCTCA-GGAGATAAGATACT-ATCTTC
* * * *
69532614 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGAT-C--CCCT-
1 AATCTACTCCACTGTAATC-TCAG-GAGATAAGATACTATCTTC
* *
69532653 AAT-TCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTC
1 AATCT-ACTCCACTGTAATCTC-AGGAGATAAGA-TACTATCTTC
* *
69532697 AATCTACTCCATTGTAATCTCAAGGAGATAAGAT-CTGAAATTTTTC
1 AATCTACTCCACTGTAATCTC-AGGAGATAAGATACT---A-TCTTC
** ** *
69532743 GGTCTGTTCCACTGTAATCTCAAGGAGATAAGAT-CTCTGGCTTC
1 AATCTACTCCACTGTAATCTC-AGGAGATAAGATACTAT--CTTC
*
69532787 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGAT-CTTTTTAT-TTT
1 AATC-----T-A-CT-C-C-ACTGTAATC-TCAG-GAGATAAGATAC----TATCTTC
* * *
69532842 AATCTGCTCCACTGTAA-CTTCAGAGAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATC-TCAG-GAGATAAGA-TACTATCTTC
* * *
69532886 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGA-AATTCTTC
1 AATCTACTCCACTGTAATCTCA-GGAGATAAGA--T-ACTA-TCTTC
** ** * * * *
69532932 GGTCTGTTCCACTGTAATCTCAGGGGAATAAGA-CCTA-GTGC
1 AATCTACTCCACTGTAATCTCAGGAG-ATAAGATACTATCTTC
* * * * *
69532973 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TGGTTTT
1 AATCTACTCCACTGTAATC-TCAG-GAGATAAGATACTAT--CTTC
** * * *
69533017 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTC
1 AATCTACTCCACTGTAATCTCA-GGAGATAAGA-TACTATCTTC
* *
69533061 AATCTACTCCGCTGTAATCTCTGGGAGATAAGAT
1 AATCTACTCCACTGTAATCTC-AGGAGATAAGAT
69533095 CTGAAATTCT
Statistics
Matches: 390, Mismatches: 73, Indels: 119
0.67 0.13 0.20
Matches are distributed among these distances:
38 1 0.00
39 22 0.06
40 7 0.02
41 55 0.14
42 10 0.03
43 8 0.02
44 143 0.37
45 38 0.10
46 66 0.17
47 2 0.01
48 2 0.01
49 1 0.00
50 1 0.00
51 1 0.00
52 1 0.00
53 4 0.01
54 20 0.05
55 6 0.02
58 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
AATCTACTCCACTGTAATCTCAGGAGATAAGATACTATCTTC
Found at i:69532706 original size:124 final size:125
Alignment explanation
Indices: 69532463--69532734 Score: 359
Period size: 124 Copynumber: 2.2 Consensus size: 125
69532453 CACTGCAACA
* * **
69532463 TCAGGGGGATAAGACCTGACACGATCTCCTCTACTGTAACCTCAAAGAGATAAAATCCTTTATTT
1 TCAGGGAGATAAGACCTGACACGATCTACTCTACTGTAACCTCAAAGAGATAAAATCC----TCC
*
69532528 TAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGTAATC
62 TAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCCACTGTAATC
* * * *
69532592 TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC-CCTAAT
1 TCAGGGAGATAAGACCTGACACGATCTACTCTACTGTAACCTCAAAGAGATAAAATCCTCCTAAT
* * *
69532656 TCGCTCCACTGTAATCTCAAGG-AGATAGGATTACTATCTTCAATCTACTCCATTGTAATC
66 CCACTCCACTGTAATCTC-AGGCAGATAGGATTACTATCTTCAATCTACTCCACTGTAATC
* *
69532716 TCAAGGAGATAAGATCTGA
1 TCAGGGAGATAAGACCTGA
69532735 AATTTTTCGG
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
124 73 0.57
125 3 0.02
129 52 0.41
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (125 bp):
TCAGGGAGATAAGACCTGACACGATCTACTCTACTGTAACCTCAAAGAGATAAAATCCTCCTAAT
CCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCCACTGTAATC
Found at i:69532935 original size:189 final size:174
Alignment explanation
Indices: 69532584--69533107 Score: 625
Period size: 189 Copynumber: 2.9 Consensus size: 174
69532574 ATCTACTCCG
*
69532584 CTGTAATCTCAGG-GAGATAAGACCT-GATACGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAATCTCAGGAGA-ATAAGACCTAG-TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
** * *
69532647 TCCCCTA----ATTCGCTCCACTGTAATCTCA-AGGAGATAGGATTACTATCTTCAATCTACTCC
64 TCCTTTATTTTAATCGCTCCACTGTAATCTCAGA-GAGATAGGATTACTAGCTTCAATCTACTCC
** * *
69532707 ATTGTAATCTCAAGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
128 GCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCA
*
69532754 CTGTAATCTCAAGGAG-ATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTC
1 CTGTAATCTC-AGGAGAATAAGA---C---C-T--A---G-TGCGATCTACTCTACTGTAACTTC
*
69532818 AGAGAGATAAGATCTTTTTATTTTAATCTGCTCCACTGTAA-CTTCAGAGAGATAGGATTACTAG
52 AGAGAGATAAGATC-CTTTATTTTAATC-GCTCCACTGTAATC-TCAGAGAGATAGGATTACTAG
* *
69532882 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTGTTCCA
114 CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCA
*
69532943 CTGTAATCTCAGGGGAATAAGACCTAGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGAGAATAAGACCTAGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
** * *
69533008 CTTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTACTCCGC
66 CTTTATTTTAAT-CGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
*
69533073 TGTAATCTCTGGGAGATAAGATCTGAAATTCTTCG
130 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
69533108 ATCTACTTCG
Statistics
Matches: 305, Mismatches: 23, Indels: 47
0.81 0.06 0.13
Matches are distributed among these distances:
170 16 0.05
171 3 0.01
172 1 0.00
173 1 0.00
175 88 0.29
176 40 0.13
177 2 0.01
180 1 0.00
182 1 0.00
183 39 0.13
184 2 0.01
186 1 0.00
188 8 0.03
189 101 0.33
190 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (174 bp):
CTGTAATCTCAGGAGAATAAGACCTAGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTTATTTTAATCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCT
GTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCA
Found at i:69538287 original size:29 final size:30
Alignment explanation
Indices: 69538233--69538303 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
69538223 AAAAATTAAA
**
69538233 AAAATTACATTTTGACCCCTGTACTTTTTG
1 AAAATTACATTTTGACCCCTAAACTTTTTG
* *
69538263 AAATTTACATTTTGACCCC-AAACTTTTTT
1 AAAATTACATTTTGACCCCTAAACTTTTTG
69538292 AAAATTACATTT
1 AAAATTACATTT
69538304 CAACCCTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTTTG
Found at i:69538857 original size:11 final size:11
Alignment explanation
Indices: 69538841--69538866 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69538831 GGCCGGCCAT
69538841 CGGCGAACCAC
1 CGGCGAACCAC
69538852 CGGCGAACCAC
1 CGGCGAACCAC
69538863 CGGC
1 CGGC
69538867 AGCAGCACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.46, G:0.31, T:0.00
Consensus pattern (11 bp):
CGGCGAACCAC
Found at i:69538921 original size:3 final size:3
Alignment explanation
Indices: 69538913--69538973 Score: 54
Period size: 3 Copynumber: 19.3 Consensus size: 3
69538903 GAGCAAACGG
69538913 AGA AGA AGA AGA AGA AGAA AGA A-A AGAA AGAA AGAA AGAA AGA AGA
1 AGA AGA AGA AGA AGA AG-A AGA AGA AG-A AG-A AG-A AG-A AGA AGA
*
69538959 A-A AGA GGA AGA AGA A
1 AGA AGA AGA AGA AGA A
69538974 AGAAAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 4 0.08
3 30 0.58
4 18 0.35
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:69538927 original size:9 final size:10
Alignment explanation
Indices: 69538913--69538977 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 10
69538903 GAGCAAACGG
69538913 AGAAGAAG-A
1 AGAAGAAGAA
69538922 AGAAGAAGAA
1 AGAAGAAGAA
69538932 AGAA-AAGAA
1 AGAAGAAGAA
69538941 AGAAAGAAAGAA
1 AG-AAG-AAGAA
69538953 AGAAGAA-AA
1 AGAAGAAGAA
69538962 GAGGAAGAAGAA
1 -A-GAAGAAGAA
69538974 AGAA
1 AGAA
69538978 AAAAAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
9 17 0.35
10 13 0.27
11 10 0.20
12 9 0.18
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAAGAAGAA
Found at i:69538936 original size:4 final size:4
Alignment explanation
Indices: 69538927--69538989 Score: 62
Period size: 4 Copynumber: 16.5 Consensus size: 4
69538917 GAAGAAGAAG
* *
69538927 AAGA AAGAA AAGA AAGA AAGA AAGA AAG- AAGA AA-A GAGG AAG- AAGA
1 AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
69538973 AAGA AA-A AAAA AAGA AA
1 AAGA AAGA AAGA AAGA AA
69538990 ATTTTTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
3 11 0.22
4 35 0.70
5 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:69538948 original size:8 final size:8
Alignment explanation
Indices: 69538927--69538989 Score: 62
Period size: 7 Copynumber: 8.2 Consensus size: 8
69538917 GAAGAAGAAG
69538927 AAGAAAGAA
1 AAGAAAG-A
69538936 AAGAAAGA
1 AAGAAAGA
69538944 AAGAAAGA
1 AAGAAAGA
69538952 AAG-AAGA
1 AAGAAAGA
* *
69538959 AA-AGAGG
1 AAGAAAGA
69538966 AAG-AAGA
1 AAGAAAGA
69538973 AAGAAA-A
1 AAGAAAGA
*
69538980 AAAAAAGA
1 AAGAAAGA
69538988 AA
1 AA
69538990 ATTTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
7 21 0.47
8 17 0.38
9 7 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AAGAAAGA
Found at i:69539189 original size:19 final size:19
Alignment explanation
Indices: 69539165--69539203 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
69539155 CATTTTCAGT
69539165 AGGCCCAA-CTCAGCAGGCC
1 AGGCCCAAGC-CAGCAGGCC
69539184 AGGCCCAAGCCAGCAGGCC
1 AGGCCCAAGCCAGCAGGCC
69539203 A
1 A
69539204 CCAGCAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.41, G:0.28, T:0.03
Consensus pattern (19 bp):
AGGCCCAAGCCAGCAGGCC
Found at i:69539290 original size:7 final size:7
Alignment explanation
Indices: 69539275--69539309 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
69539265 GCCCAGCAGA
69539275 AAAAAAG
1 AAAAAAG
*
69539282 AAAAGAG
1 AAAAAAG
69539289 AAGAAAAG
1 AA-AAAAG
69539297 AAAAAAG
1 AAAAAAG
69539304 AAAAAA
1 AAAAAA
69539310 AGTTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:69539295 original size:15 final size:15
Alignment explanation
Indices: 69539272--69539311 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
69539262 TTAGCCCAGC
*
69539272 AGAAAAAAAGAAAAG
1 AGAAAAAAAGAAAAA
*
69539287 AGAAGAAAAGAAAAA
1 AGAAAAAAAGAAAAA
69539302 AGAAAAAAAG
1 AGAAAAAAAG
69539312 TTTAATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGAAAAA
Found at i:69539450 original size:8 final size:8
Alignment explanation
Indices: 69539437--69539477 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
69539427 CATTTTATGC
69539437 ATTTTTAT
1 ATTTTTAT
69539445 ATTTTTAT
1 ATTTTTAT
*
69539453 ATTTTTGT
1 ATTTTTAT
69539461 A--TTTAT
1 ATTTTTAT
69539467 ATTTTTA-
1 ATTTTTAT
69539474 ATTT
1 ATTT
69539478 AATTCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
6 5 0.17
7 4 0.14
8 20 0.69
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:69539892 original size:18 final size:18
Alignment explanation
Indices: 69539852--69540260 Score: 299
Period size: 18 Copynumber: 22.8 Consensus size: 18
69539842 TTTGTGTAAA
69539852 AAAAATCTTTC-TGTGTTTC
1 AAAAAT-TTTCGTGT-TTTC
* *
69539871 AAAAATCTTCGTGTTTTT
1 AAAAATTTTCGTGTTTTC
69539889 AAAAA-TTTCG-GTGTTTC
1 AAAAATTTTCGTGT-TTTC
* * *
69539906 AAAAATTTCCGCGTTTCC
1 AAAAATTTTCGTGTTTTC
** **
69539924 AAAAATTTAGGTGATTTAA
1 AAAAATTTTCGTG-TTTTC
*
69539943 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
69539961 AAAAA-CTTCAGTG-TTTC
1 AAAAATTTTC-GTGTTTTC
*
69539978 -AAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
**
69539995 AAAAAAATTCCCGTGTTTT-
1 --AAAAATTTTCGTGTTTTC
69540014 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
69540032 AAAAACTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
69540049 -AAAATTTTCATGTTTTAAA
1 AAAAATTTTCGTGTTTT--C
*
69540068 AAAAATTCTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
*
69540085 AAAAATTTCCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
69540103 AAAAATTTTCGTGCTTTC
1 AAAAATTTTCGTGTTTTC
*
69540121 AAAAA-TTTCG-GTGATTC
1 AAAAATTTTCGTGT-TTTC
*
69540138 AAAAATTTTTGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** *
69540156 AAAAAAATTCCCCTG-TTTC
1 --AAAAATTTTCGTGTTTTC
*
69540175 -AAAATTGTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
69540192 AAAAATTTTCGTGTTTTT
1 AAAAATTTTCGTGTTTTC
* *
69540210 AAGAATTTTTGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
69540227 TAAAATTCTCGTGTTTTAA
1 AAAAATTTTCGTGTTTT-C
69540246 AAAAATTTTCGTGTT
1 AAAAATTTTCGTGTT
69540261 CTAAAAAACA
Statistics
Matches: 306, Mismatches: 58, Indels: 52
0.74 0.14 0.12
Matches are distributed among these distances:
16 27 0.09
17 93 0.30
18 107 0.35
19 43 0.14
20 36 0.12
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:69540025 original size:71 final size:70
Alignment explanation
Indices: 69539864--69540129 Score: 286
Period size: 71 Copynumber: 3.7 Consensus size: 70
69539854 AAATCTTTCT
* * * * * *
69539864 GTGTTTCAAAAATCTTCGTGTTTTTAAAAATTTCGGTGTTTCAAAAATTTC-CGCGTTTC-CAAA
1 GTGTTTTAAAAATCTTCGTGTTTTCAAAAACTTC-GTGTTTCAAAAATTTCATG-TTTTCAAAAA
* *
69539927 AATTTAG
64 AATTCAC
* *
69539934 GTGATTTAAAAAAATCTTCGTGTTTTCAAAAACTTCAGTGTTTCAAAATTTTCATGTTTTCAAAA
1 GTG-TTT-TAAAAATCTTCGTGTTTTCAAAAACTTC-GTGTTTCAAAAATTTCATGTTTTCAAAA
*
69539999 AAATTCCC
63 AAATTCAC
* * *
69540007 GTGTTTTAAAAATTTTCGTGTTTTCAAAAACTCTCGTGTTTCAAAATTTTCATGTTTTAAAAAAA
1 GTGTTTTAAAAATCTTCGTGTTTTCAAAAACT-TCGTGTTTCAAAAATTTCATGTTTTCAAAAAA
*
69540072 ATTCTC
65 ATTCAC
*
69540078 GTGTTTTAAAAAT-TTCCGTGTTTTCAAAAATTTTCGTGCTTTCAAAAATTTC
1 GTGTTTTAAAAATCTT-CGTGTTTTCAAAAA-CTTCGTG-TTTCAAAAATTTC
69540130 GGTGATTCAA
Statistics
Matches: 171, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
70 5 0.03
71 93 0.54
72 62 0.36
73 11 0.06
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (70 bp):
GTGTTTTAAAAATCTTCGTGTTTTCAAAAACTTCGTGTTTCAAAAATTTCATGTTTTCAAAAAAA
TTCAC
Found at i:69540108 original size:89 final size:88
Alignment explanation
Indices: 69539864--69540267 Score: 342
Period size: 89 Copynumber: 4.5 Consensus size: 88
69539854 AAATCTTTCT
* * * * *
69539864 GTGTTTCAAAAATCTTCGTGTTTT-TAAAAATT-TCGGTGTTTCAAAAATTTCCGCGTTTCCAAA
1 GTGTTTCAAAAATTTTCGTGTTTTAAAAAAATTCTC-GTGTTTTAAAAATTTCCGTGTTTTCAAA
** **
69539927 AATTTAGGTGATTTAAAAAAATCTTC
65 AATTTTCGTG-TTTTCAAAAATC-TC
* * * * *
69539953 GTGTTTTCAAAAA-CTTCAGTG-TTT--CAAAATTTTCATGTTTTCAAAAAAATTCCCGTGTTTT
1 GTG-TTTCAAAAATTTTC-GTGTTTTAAAAAAATTCTCGTGTTTT---AAAAATTTCCGTGTTTT
69540014 -AAAAATTTTCGTGTTTTCAAAAACTCTC
61 CAAAAATTTTCGTGTTTTCAAAAA-TCTC
*
69540042 GTGTTTC-AAAATTTTCATGTTTTAAAAAAAATTCTCGTGTTTTAAAAATTTCCGTGTTTTCAAA
1 GTGTTTCAAAAATTTTCGTGTTTT-AAAAAAATTCTCGTGTTTTAAAAATTTCCGTGTTTTCAAA
* *
69540106 AATTTTCGTGCTTTCAAAAATTTC
65 AATTTTCGTGTTTTCAAAAATCTC
* * * * *
69540130 GGTGATTCAAAAATTTTTGTGTTTTCAAAAAAATTCCCCTG-TTTCAAAATTGT-CGTGTTTTCA
1 -GTGTTTCAAAAATTTTCGTGTTTT-AAAAAAATTCTCGTGTTTTAAAAATT-TCCGTGTTTTCA
* * * *
69540193 AAAATTTTCGTGTTTTTAAGAATTTTT
63 AAAATTTTCGTGTTTTCAA-AAATCTC
* * * *
69540220 GTGTTTCTAAAATTCTCGTGTTTTAAAAAAATTTTCGTGTTCTAAAAA
1 GTGTTTCAAAAATTTTCGTGTTTTAAAAAAATTCTCGTGTTTTAAAAA
69540268 ACATAATTAT
Statistics
Matches: 259, Mismatches: 38, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
87 6 0.02
88 52 0.20
89 115 0.44
90 58 0.22
91 28 0.11
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (88 bp):
GTGTTTCAAAAATTTTCGTGTTTTAAAAAAATTCTCGTGTTTTAAAAATTTCCGTGTTTTCAAAA
ATTTTCGTGTTTTCAAAAATCTC
Found at i:69540142 original size:71 final size:68
Alignment explanation
Indices: 69539860--69540260 Score: 271
Period size: 71 Copynumber: 5.6 Consensus size: 68
69539850 AAAAAAATCT
* * * *
69539860 TTCT-GTGTTTCAAAAATCTTCGTGTTTTTAAAAATTTCGGTGTTTCAAAAATTTC-CGCGTTTC
1 TTCTCGTGTTTTAAAAAT-TTCGTGTTTTCAAAAATTTC-GTGTTTCAAAAATTTCATG-TTTTC
*
69539923 CAAAAA
63 AAAAAA
* * * *
69539929 TT-TAGGTGATTTAAAAAAATCTTCGTGTTTTCAAAAACTTCAGTGTTTCAAAATTTTCATGTTT
1 TTCT-CGTG-TTT-TAAAAAT-TTCGTGTTTTCAAAAATTTC-GTGTTTCAAAAATTTCATGTTT
69539993 TCAAAAAAA
61 TC-AAAAAA
* * * *
69540002 TTCCCGTGTTTTAAAAATTTTCGTGTTTTCAAAAACTCTCGTGTTTCAAAATTTTCATGTTTTAA
1 TTCTCGTGTTTTAAAAA-TTTCGTGTTTTCAAAAA-TTTCGTGTTTCAAAAATTTCATGTTTT-C
69540067 AAAAAA
63 AAAAAA
* *
69540073 TTCTCGTGTTTTAAAAATTTCCGTGTTTTCAAAAATTTTCGTGCTTTCAAAAATTTC-GGTGATT
1 TTCTCGTGTTTTAAAAATTT-CGTGTTTTCAAAAA-TTTCGTG-TTTCAAAAATTTCATGT-TTT
69540137 C-AAAAA
62 CAAAAAA
* * * * *
69540143 TTTTTGTGTTTTCAAAAAAATTCCCCTG-TTTC-AAAATTGTCGTGTTTTCAAAAATTTTCGTGT
1 TTCTCGTGTTTT---AAAAATT-TCGTGTTTTCAAAAATT-TCGTG-TTTCAAAAA-TTTCATGT
* *
69540206 TTT-TAAGAA
59 TTTCAAAAAA
* * *
69540215 TTTTTGTGTTTCT-AAAATTCTCGTGTTTTAAAAAAATTTTCGTGTT
1 TTCTCGTGTTT-TAAAAATT-TCGTGTTTT-CAAAAA-TTTCGTGTT
69540261 CTAAAAAACA
Statistics
Matches: 274, Mismatches: 32, Indels: 50
0.77 0.09 0.14
Matches are distributed among these distances:
68 1 0.00
69 12 0.04
70 26 0.09
71 111 0.41
72 98 0.36
73 26 0.09
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (68 bp):
TTCTCGTGTTTTAAAAATTTCGTGTTTTCAAAAATTTCGTGTTTCAAAAATTTCATGTTTTCAAA
AAA
Found at i:69540265 original size:19 final size:19
Alignment explanation
Indices: 69540228--69540268 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
69540218 TTGTGTTTCT
*
69540228 AAAATTCTCGTGTTTTAAA
1 AAAATTCTCGTGTTCTAAA
*
69540247 AAAATTTTCGTGTTCTAAA
1 AAAATTCTCGTGTTCTAAA
69540266 AAA
1 AAA
69540269 CATAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
AAAATTCTCGTGTTCTAAA
Found at i:69540859 original size:44 final size:42
Alignment explanation
Indices: 69540809--69540923 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 42
69540799 TATGTGTTAT
* *
69540809 CGTGTAAGACCATATCTGGGACGTTGGCATCGACT-TGTGACTTA
1 CGTGTAAGACCATGTCTGGGACG-TGGCATCGA-TATATGA-TTA
*
69540853 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATATGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTGGCATCGATATATGATTA
* *
69540896 CATGTAAGACCACGTCTGGGACGATGGC
1 CGTGTAAGACCATGTCTGGGACG-TGGC
69540924 GTTGTACAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
42 1 0.02
43 27 0.44
44 33 0.53
45 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTGGCATCGATATATGATTA
Found at i:69543690 original size:21 final size:21
Alignment explanation
Indices: 69543664--69543707 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
69543654 CCATTTCTGA
69543664 TGGTAAAGTGTGATGGCTTGC
1 TGGTAAAGTGTGATGGCTTGC
*
69543685 TGGTAAGGTGTGATGGCTTGC
1 TGGTAAAGTGTGATGGCTTGC
69543706 TG
1 TG
69543708 TTCAGAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.41, T:0.34
Consensus pattern (21 bp):
TGGTAAAGTGTGATGGCTTGC
Found at i:69547701 original size:61 final size:61
Alignment explanation
Indices: 69547605--69547726 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 61
69547595 CTAAGCTGAT
*
69547605 TGCATTGTAAGCGTGGTCTGATCACAGGAAACCAACAGCATCGGGCATGATCCATTACCAA
1 TGCATTGTAAGCGTGGTCTGATCACAGGAAACCAACAGCATCAGGCATGATCCATTACCAA
* * * * *
69547666 TGCATTGTAAGCGTGGTCTGATCATATGAAGCCAACAGCATCAGTCATGGTCCATTACCAA
1 TGCATTGTAAGCGTGGTCTGATCACAGGAAACCAACAGCATCAGGCATGATCCATTACCAA
69547727 CTAGACTCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (61 bp):
TGCATTGTAAGCGTGGTCTGATCACAGGAAACCAACAGCATCAGGCATGATCCATTACCAA
Found at i:69549026 original size:45 final size:46
Alignment explanation
Indices: 69548953--69549068 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
69548943 TACGTATGAT
* *
69548953 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGGTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
69548996 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
69549042 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
69549069 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
43 10 0.15
44 4 0.06
45 20 0.30
46 32 0.48
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:69560953 original size:15 final size:15
Alignment explanation
Indices: 69560933--69561040 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
69560923 TTTATGGAAA
69560933 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
69560948 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
69560962 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
69560978 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
69560992 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
69561008 GTCAAATAT-TGGAA
1 ATCAAAGATATGGGT
69561022 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
69561038 ATC
1 ATC
69561041 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:69560962 original size:30 final size:30
Alignment explanation
Indices: 69560926--69561040 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
69560916 ATCCATATTT
*
69560926 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
69560956 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
69560986 TTGGAAAGTCAAAGATATGGGTGTCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
69561016 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
69561041 GAGATATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:69565455 original size:15 final size:15
Alignment explanation
Indices: 69565435--69565512 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
69565425 TTTATGGAAA
69565435 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
69565450 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
69565464 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
69565480 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
69565494 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
69565510 ATC
1 ATC
69565513 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:69565464 original size:30 final size:30
Alignment explanation
Indices: 69565428--69565512 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
69565418 ATCCATATTT
*
69565428 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
69565458 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
69565488 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
69565513 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:69566354 original size:16 final size:16
Alignment explanation
Indices: 69566321--69566354 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69566311 CACTCAAACC
**
69566321 CATATCGTTATGTTAT
1 CATATCGTTATGAAAT
69566337 CATATCGTTATGAAAT
1 CATATCGTTATGAAAT
69566353 CA
1 CA
69566355 ATTATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (16 bp):
CATATCGTTATGAAAT
Found at i:69570496 original size:13 final size:13
Alignment explanation
Indices: 69570478--69570525 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
69570468 AGCATCCATT
69570478 AATTTTTTATATA
1 AATTTTTTATATA
*
69570491 AATTTTTAATAAATA
1 AATTTTT--TATATA
*
69570506 TATTTTTTATAT-
1 AATTTTTTATATA
69570518 AATTTTTT
1 AATTTTTT
69570526 TCACCTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 7 0.24
13 11 0.38
15 11 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTTTTTATATA
Found at i:69570973 original size:22 final size:20
Alignment explanation
Indices: 69570943--69570982 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
69570933 AATAACGTAT
69570943 AATTAATTAATAAAATAAATCA
1 AATTAATT-A-AAAATAAATCA
*
69570965 AATTGATTAAAAATAAAT
1 AATTAATTAAAAATAAAT
69570983 GTTAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 1 0.06
22 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AATTAATTAAAAATAAATCA
Found at i:69576415 original size:3 final size:3
Alignment explanation
Indices: 69576407--69576441 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
69576397 GAGGGAGAAT
69576407 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69576442 CATTGAATTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:69587802 original size:88 final size:88
Alignment explanation
Indices: 69587653--69587825 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 88
69587643 TTTTTAATAT
* *
69587653 GAGAAGATAATAACTAAATTTCAATTCTAATTCCTCTAGTTTCTATGGTTAAATTTCAGTTTTGA
1 GAGAAGATAATAACTAAATTTCAATTCTAATTCCTCAAATTTCTATGGTTAAATTTCAGTTTTGA
*
69587718 TCCTTATATATCACTCAAATTTC
66 TCCCTATATATCACTCAAATTTC
** * *
69587741 GAGAAGATAATTGCTAAATTTCAATTCTAA-TCATTCAAATTTTTATGGTTAAATATT-AGTTTT
1 GAGAAGATAATAACTAAATTTCAATTCTAATTC-CTCAAATTTCTATGGTTAAAT-TTCAGTTTT
* *
69587804 GATCCCTATATTTCAGTCAAAT
64 GATCCCTATATATCACTCAAAT
69587826 CTATAACCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.03
88 70 0.95
89 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (88 bp):
GAGAAGATAATAACTAAATTTCAATTCTAATTCCTCAAATTTCTATGGTTAAATTTCAGTTTTGA
TCCCTATATATCACTCAAATTTC
Found at i:69590328 original size:30 final size:31
Alignment explanation
Indices: 69590256--69590333 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
69590246 ATTCTATATT
*
69590256 AAATATAAATATAAATTTATTATTATTTAATCA
1 AAATATAATTAT-AA-TTATTATTATTTAATCA
*
69590289 AAATGTAATTATAATT-TTATTATTTAAT-A
1 AAATATAATTATAATTATTATTATTTAATCA
*
69590318 CAAATATAATTTTAAT
1 -AAATATAATTATAAT
69590334 AATTTGAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.62
31 2 0.05
32 2 0.05
33 10 0.25
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
AAATATAATTATAATTATTATTATTTAATCA
Found at i:69592486 original size:14 final size:15
Alignment explanation
Indices: 69592467--69592496 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
69592457 TCGGCTCTCC
69592467 ACTTA-TTAATTACA
1 ACTTATTTAATTACA
69592481 ACTTATTTAATTACA
1 ACTTATTTAATTACA
69592496 A
1 A
69592497 AGTTATTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTTATTTAATTACA
Found at i:69600467 original size:20 final size:20
Alignment explanation
Indices: 69600442--69600482 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69600432 GCTTTCTCTT
69600442 TCCTTGTGTACTTTTTGGTA
1 TCCTTGTGTACTTTTTGGTA
69600462 TCCTTGTGTACTTTTTGGTA
1 TCCTTGTGTACTTTTTGGTA
69600482 T
1 T
69600483 AATATGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (20 bp):
TCCTTGTGTACTTTTTGGTA
Found at i:69600490 original size:19 final size:20
Alignment explanation
Indices: 69600448--69600491 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
69600438 TCTTTCCTTG
** *
69600448 TGTACTTTTTGGTATCCTTG
1 TGTACTTTTTGGTATCAATA
69600468 TGTACTTTTTGGTAT-AATA
1 TGTACTTTTTGGTATCAATA
69600487 TGTAC
1 TGTAC
69600492 ATCCAAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (20 bp):
TGTACTTTTTGGTATCAATA
Found at i:69602884 original size:81 final size:81
Alignment explanation
Indices: 69602742--69603360 Score: 704
Period size: 81 Copynumber: 7.6 Consensus size: 81
69602732 AATGTCATCA
* * * * *
69602742 TGAAGAAAGAAACTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGCACCTAG
1 TGAAGAGAGAAACTCCGAGA-GGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
69602807 TGGTTTTAATATCATTG
65 TGGTTTTAATATCATTG
* * ** * *
69602824 TGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATTCTAATATTCTGTTGGCACCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * *
69602889 GGTTTAAACATCATCG
66 GGTTTTAATATCATTG
* * * * *
69602905 TGAAGAGAGAAACTCC-AGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCATCTAC
1 TGAAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
69602969 TGGTTTTAATATCATTG
65 TGGTTTTAATATCATTG
* * * ** **
69602986 TGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTCTAATCCTCCATTGGTTCCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * *
69603051 GGTTTAAACATCATCG
66 GGTTTTAATATCATTG
* * * * * *
69603067 TGAAGAGAGAAGCTCC-AGGAGGACCAAATCCTATTCAAAATTCTAATCCTCTGCTAGCACTTAG
1 TGAAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
*
69603131 TGGTTTTAATGTCATTG
65 TGGTTTTAATATCATTG
* * * * * *
69603148 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAA-CCATAATCCTCCACAGGCACCTAG
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTC-TAATCCTCCGCTGGCACCTAG
*
69603212 TGGTTTTAATGTCATTG
65 TGGTTTTAATATCATTG
* * * *
69603229 TGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACAGACACCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
*
69603294 GGTTTTAATGTCATTG
66 GGTTTTAATATCATTG
* * * * *
69603310 TGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTC
69603361 TGCTAGCTCC
Statistics
Matches: 454, Mismatches: 77, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
80 2 0.00
81 433 0.95
82 19 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (81 bp):
TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
GGTTTTAATATCATTG
Found at i:69603030 original size:162 final size:162
Alignment explanation
Indices: 69602736--69603360 Score: 831
Period size: 162 Copynumber: 3.9 Consensus size: 162
69602726 TAAAAAAATG
* * * *
69602736 TCATCATGAAGAAAGAAACTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGC
1 TCATCGTGAAGAGAGAAACTCCAGGA-GGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGC
* * * *
69602801 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATT
65 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATT
** **
69602866 CTAATATTCTGTTGGCACCTAGTGGTTTAAACA
130 CTAATCCTCCATTGGCACCTAGTGGTTTAAACA
*
69602899 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCA
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
* * * * *
69602964 TCTACTGGTTTTAATATCATTGTGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTC
66 CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
**
69603029 TAATCCTCCATTGGTTCCTAGTGGTTTAAACA
131 TAATCCTCCATTGGCACCTAGTGGTTTAAACA
* * * * *
69603061 TCATCGTGAAGAGAGAAGCTCCAGGAGGACCAAATCCTATTCAAAATTCTAATCCTCTGCTAGCA
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
* * * *
69603126 CTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAA-CC
66 CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
** * **
69603190 ATAATCCTCCACAGGCACCTAGTGGTTTTAATG
131 -TAATCCTCCATTGGCACCTAGTGGTTTAAACA
* * * *
69603223 TCATTGTGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCAC-AGAC
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAG-C
* * * *
69603287 ACCTAGTGGTTTTAATGTCATTGTGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACT
65 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATT
69603352 CTAATCCTC
130 CTAATCCTC
69603361 TGCTAGCTCC
Statistics
Matches: 411, Mismatches: 48, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
161 3 0.01
162 384 0.93
163 24 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (162 bp):
TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
TAATCCTCCATTGGCACCTAGTGGTTTAAACA
Found at i:69603197 original size:243 final size:242
Alignment explanation
Indices: 69602742--69603367 Score: 788
Period size: 243 Copynumber: 2.6 Consensus size: 242
69602732 AATGTCATCA
* * * * *
69602742 TGAAGAAAGAAACTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGCACCTAG
1 TGAAGAGAGAAACTCCGGGA-GGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAG
* * * *
69602807 TGGTTTTAATATCATTGTGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATTCTAATA
65 TGGTTTTAATATCATTGTGAAGAGAGAAACTCCG-GAGGACCAAATCCTCTTCAAAATTCTAATC
* * *
69602872 TTCTGTTGGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
129 CTCTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
* * ** *
69602937 CTTCATAACTCTAATCCTCTGCTA-GCATCTACTGGTTTTAATATCATTG
194 ATTCACAACTCTAATCCTCCAC-AGGCACCTACTGGTTTTAATATCATTG
* * * **
69602986 TGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTCTAATCCTCCATTGGTTCCTAGT
1 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAGT
* * * * *
69603051 GGTTTAAACATCATCGTGAAGAGAGAAGCTCCAGGAGGACCAAATCCTATTCAAAATTCTAATCC
66 GGTTTTAATATCATTGTGAAGAGAGAAACTCC-GGAGGACCAAATCCTCTTCAAAATTCTAATCC
* * ** * *
69603116 TCTGCTAGCACTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTA
130 TCTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTA
* *
69603181 TTCACAAC-CATAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTG
195 TTCACAACTC-TAATCCTCCACAGGCACCTACTGGTTTTAATATCATTG
** * *
69603229 TGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACAGACACCTAGT
1 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAGT
* * * * *
69603294 GGTTTTAATGTCATTGTGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCC
66 GGTTTTAATATCATTGTGAAGAGAGAAACTCC-GGAGGACCAAATCCTCTTCAAAATTCTAATCC
69603359 TCTGCTAGC
130 TCTGCTAGC
69603368 TCCGCTTCCG
Statistics
Matches: 324, Mismatches: 55, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
242 2 0.01
243 303 0.94
244 19 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (242 bp):
TGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAGT
GGTTTTAATATCATTGTGAAGAGAGAAACTCCGGAGGACCAAATCCTCTTCAAAATTCTAATCCT
CTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTAT
TCACAACTCTAATCCTCCACAGGCACCTACTGGTTTTAATATCATTG
Found at i:69607161 original size:19 final size:19
Alignment explanation
Indices: 69607137--69607179 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
69607127 TTTTTTTAAC
69607137 AATTAAAAAAATAATTTCA
1 AATTAAAAAAATAATTTCA
69607156 AATTAAAAAAATAATTTCA
1 AATTAAAAAAATAATTTCA
69607175 AATTA
1 AATTA
69607180 TTTCCTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAAAAAATAATTTCA
Found at i:69608242 original size:31 final size:29
Alignment explanation
Indices: 69608207--69608283 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
69608197 TTAATAGCTC
*
69608207 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
69608238 AGTGACAAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
69608267 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
69608284 CTAAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:69609266 original size:81 final size:81
Alignment explanation
Indices: 69609110--69609318 Score: 319
Period size: 81 Copynumber: 2.5 Consensus size: 81
69609100 TATCATTAAA
** * *
69609110 AATGTCATCATGAAGAGAGAAACTTCGGGAGGATCAAATTATCCTCTTCACAATTCTAATCCTCC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGA-CCAA--ATCCTCTTCACAATTCTAATCCTCC
69609175 ACAGGCACCTAGTGGTTTT
63 ACAGGCACCTAGTGGTTTT
* * **
69609194 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTCCACA
69609259 GGCACCTAGTGGTTTT
66 GGCACCTAGTGGTTTT
69609275 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCT
69609319 CCACCATGAA
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
81 84 0.72
83 3 0.03
84 29 0.25
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTCCACA
GGCACCTAGTGGTTTT
Found at i:69609335 original size:33 final size:33
Alignment explanation
Indices: 69609293--69609358 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
69609283 TGTGAAGAGA
69609293 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
1 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
69609326 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
1 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
69609359 TCTAATCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.15
Consensus pattern (33 bp):
GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
Found at i:69609412 original size:114 final size:114
Alignment explanation
Indices: 69609212--69609430 Score: 384
Period size: 114 Copynumber: 1.9 Consensus size: 114
69609202 TGTGAAGAGA
* * *
69609212 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
*
69609277 TGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACCAT
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
* *
69609326 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
69609391 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
69609431 ATTCACAACC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (114 bp):
GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
Found at i:69609461 original size:81 final size:80
Alignment explanation
Indices: 69609326--69609854 Score: 799
Period size: 81 Copynumber: 6.5 Consensus size: 80
69609316 TCTCCACCAT
* * *
69609326 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCA-CAATCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
69609391 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * * *
69609407 GAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACAATC-TAATCCTCCGCAGGCACCTAGTGGTTTTAA
69609472 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * * *
69609488 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGTACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCAC-AATCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
69609553 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* *
69609569 GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCA-CAATCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
69609634 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * *
69609650 GAAACTCCGGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACAATC-TAATCCTCCGCAGGCACCTAGTGGTTTTAA
69609715 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * *
69609731 GAAACTCCAGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCAGACACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACAA-TCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
*
69609796 TGTCATTGTGAAGCG-
65 TGTCATTGTGAAGAGA
69609811 GAAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 G-AAACTCCGGGAGGACCAAATCCTCTTCACAA-TCTAATCCTC
69609855 TGCTAGCTCC
Statistics
Matches: 410, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
80 7 0.02
81 399 0.97
82 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (80 bp):
GAAACTCCGGGAGGACCAAATCCTCTTCACAATCTAATCCTCCGCAGGCACCTAGTGGTTTTAAT
GTCATTGTGAAGAGA
Found at i:69609482 original size:195 final size:195
Alignment explanation
Indices: 69609150--69609513 Score: 622
Period size: 195 Copynumber: 1.9 Consensus size: 195
69609140 GGATCAAATT
*
69609150 ATCCTCTTCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
1 ATCCTCTCCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
* ** **
69609215 ACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAATGT
66 ACTCCAGGAGGACCAAATCCTATTCACGAACCTAATCCTCCACAGGCACCTAGTGGTTTTAATGT
*
69609280 CATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACCATGAAACTCCGGGAGGACCAA
131 CATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCATGAAACTCCGGGAGGACCAA
* * *
69609345 ATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
1 ATCCTCTCCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
69609410 ACTCCAGGAGGACCAAATCCTATTCAC-AACCATAATCCTCCACAGGCACCTAGTGGTTTTAATG
66 ACTCCAGGAGGACCAAATCCTATTCACGAACC-TAATCCTCCACAGGCACCTAGTGGTTTTAATG
69609474 TCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
130 TCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
69609514 TCACGATTCT
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
194 2 0.01
195 156 0.99
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (195 bp):
ATCCTCTCCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
ACTCCAGGAGGACCAAATCCTATTCACGAACCTAATCCTCCACAGGCACCTAGTGGTTTTAATGT
CATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCATGAAACTCCGGGAGGACCAA
Found at i:69609754 original size:243 final size:242
Alignment explanation
Indices: 69609326--69609854 Score: 950
Period size: 243 Copynumber: 2.2 Consensus size: 242
69609316 TCTCCACCAT
*
69609326 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
69609391 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGG
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGG
*
69609456 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGAT
131 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACAAT
* **
69609521 TCTAATCCTCTGCAGGTACCTAGTGGTTTTAATGTCATTGTGAAGAG
196 TCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGAG
69609568 AGAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTA
1 -GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTA
*
69609633 ATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAG
65 ATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAG
*
69609698 GCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAA
130 GCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACAA
*
69609763 TTCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGCG
195 TTCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGAG
* *
69609811 GAAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 G-AAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTC
69609855 TGCTAGCTCC
Statistics
Matches: 275, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
242 1 0.00
243 274 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (242 bp):
GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGG
CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACAAT
TCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGAG
Found at i:69610742 original size:5 final size:5
Alignment explanation
Indices: 69610732--69610760 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
69610722 TATGTTTGAA
69610732 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
69610761 ACATGGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:69612582 original size:80 final size:81
Alignment explanation
Indices: 69612417--69612678 Score: 235
Period size: 81 Copynumber: 3.2 Consensus size: 81
69612407 TCCAAGATGG
* *
69612417 CCAAATCCTCTTCATAACTCTAATCTTTCGCTGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
1 CCAAATCCTCTTCATAACTCCAATCTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
* *
69612482 AAAAACTCTAGGAGGG
66 AAAAACTCTAGAAGGA
* * *
69612498 CCAAATCCTCTTCATAACTCCAATCATTT-GCAGGCA-CTGGTGGTTTTAATATCATCGTGAAGA
1 CCAAATCCTCTTCATAACTCCAATC-TTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGA
* *
69612561 GACAAA-TACTAGAAGGA
65 AAAAAACT-CTAGAAGGA
* ** ** * *** * * **
69612578 CCAAATACTCTTCATAGTTTTAATCCTCTATTA-TCACCTAGTGGTCTTAATATCATCACGAAGA
1 CCAAATCCTCTTCATAACTCCAAT-CTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGA
* * *
69612642 AAGAAACTCCAGGAGGA
65 AAAAAACTCTAGAAGGA
*
69612659 CCAAATCCTTTTCATAACTC
1 CCAAATCCTCTTCATAACTC
69612679 TAATAGACAC
Statistics
Matches: 144, Mismatches: 31, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 58 0.40
81 81 0.56
82 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (81 bp):
CCAAATCCTCTTCATAACTCCAATCTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
AAAAACTCTAGAAGGA
Found at i:69612785 original size:155 final size:157
Alignment explanation
Indices: 69612417--69612774 Score: 393
Period size: 161 Copynumber: 2.3 Consensus size: 157
69612407 TCCAAGATGG
* * * **
69612417 CCAAATCCTCTTCATAACTCTAATCTTTCGCTGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
1 CCAAATCCTCTTCATAACTCTAATC-CTCGCTGACACCTAGTGGTCTTAATATCATCACGAAGAA
* *
69612482 AAAAACTCTAGGAGGGCCAAATCCTCTTCATAACTCCAATCATTTGCAGGCACTGGTGGTTTTAA
65 AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCA--TGCA-GCACTGGTGGTTTTAA
69612547 TATCATCGTGAAGAGACAAATACTAGAAGGA
127 TATCATCGTGAAGAGACAAATACTAGAAGGA
* ** * ** *
69612578 CCAAATACTCTTCATAGTTTTAATCCTCTATTATCACCTAGTGGTCTTAATATCATCACGAAGAA
1 CCAAATCCTCTTCATAACTCTAATCCTCGCTGA-CACCTAGTGGTCTTAATATCATCACGAAGAA
* * *
69612643 AGAAACTCCAGGAGGACCAAATCCTTTTCATAACTCTAAT-A-G-A-CACCTGGTGGTTTTAATA
65 AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCATGCAGCA-CTGGTGGTTTTAATA
* * * * * *
69612704 TCTTTGTTAAGAGAGACACT-CTAGGAGGA
129 TCATCGTGAAGAGACA-AATACTAGAAGGA
*
69612733 CCGAATCCTCTTCATAACTCTAATCCTCCGCTGACACCTAGT
1 CCAAATCCTCTTCATAACTCTAATCCT-CGCTGACACCTAGT
69612775 AATTTTAATA
Statistics
Matches: 162, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
154 2 0.01
155 65 0.40
156 6 0.04
157 1 0.01
160 4 0.02
161 84 0.52
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (157 bp):
CCAAATCCTCTTCATAACTCTAATCCTCGCTGACACCTAGTGGTCTTAATATCATCACGAAGAAA
AAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCATGCAGCACTGGTGGTTTTAATATC
ATCGTGAAGAGACAAATACTAGAAGGA
Found at i:69617701 original size:20 final size:20
Alignment explanation
Indices: 69617676--69617714 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
69617666 CAAATTTGAG
69617676 TGTAATAGAAGGATCAAATT
1 TGTAATAGAAGGATCAAATT
69617696 TGTAATAGAAGGATCAAAT
1 TGTAATAGAAGGATCAAAT
69617715 ATGATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TGTAATAGAAGGATCAAATT
Found at i:69621362 original size:29 final size:31
Alignment explanation
Indices: 69621330--69621387 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
69621320 TTTAATATAT
* * *
69621330 AATTTTATACGTG-AACTTTAATT-TGGTGC
1 AATTATATACATGAAACTCTAATTGTGGTGC
69621359 AATTATATACATGAAACTCTAATTGTGGT
1 AATTATATACATGAAACTCTAATTGTGGT
69621388 TCAAATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 9 0.38
31 4 0.17
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (31 bp):
AATTATATACATGAAACTCTAATTGTGGTGC
Found at i:69623719 original size:14 final size:14
Alignment explanation
Indices: 69623695--69623740 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
69623685 ACTTTACTGT
69623695 TATAT-TGTATTTG
1 TATATATGTATTTG
69623708 TATATATGTATTTG
1 TATATATGTATTTG
* * *
69623722 TAAATATTTATTCG
1 TATATATGTATTTG
69623736 TATAT
1 TATAT
69623741 GTTGCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:69625270 original size:98 final size:98
Alignment explanation
Indices: 69625092--69625286 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
69625082 TACAATAAAA
* *
69625092 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* * *
69625157 CTCTAGAATCTCAAACTCGGAATATTTCCTTTT
66 CTCTAAAATCCCAAACTCAGAATATTTCCTTTT
69625190 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* *
69625255 CTTTAAAATCCCAAACTTAGAATATTTCCTTT
66 CTCTAAAATCCCAAACTCAGAATATTTCCTTT
69625287 ATTATTTTAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCAGAATATTTCCTTTT
Found at i:69626617 original size:23 final size:22
Alignment explanation
Indices: 69626574--69626631 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
69626564 AAAGGGTATC
* *
69626574 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
69626595 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
69626618 TACATATCATATCT
1 TACAAATCATATCT
69626632 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.