Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 219 of 253
Found at i:72000191 original size:16 final size:17
Alignment explanation
Indices: 72000170--72000211 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
72000160 TTTTTTCCTT
*
72000170 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCCA
72000186 AAAACCC-AAAATTCCA
1 AAAACCCTAAAATTCCA
72000202 AAAACCCTAA
1 AAAACCCTAA
72000212 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAACCCTAAAATTCCA
Found at i:72002019 original size:18 final size:19
Alignment explanation
Indices: 72001996--72002037 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
72001986 ATAAATTTTG
*
72001996 GAATTTTATAAA-TATTAT
1 GAATTTTAAAAACTATTAT
*
72002014 GAATTTTAAAAACTATTTT
1 GAATTTTAAAAACTATTAT
72002033 GAATT
1 GAATT
72002038 ATTTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
GAATTTTAAAAACTATTAT
Found at i:72002035 original size:19 final size:18
Alignment explanation
Indices: 72001990--72002037 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
72001980 AAACATATAA
*
72001990 ATTTTGGAATTTTATAAAT
1 ATTTT-GAATTTTAAAAAT
*
72002009 ATTATGAATTTTAAAAACT
1 ATTTTGAATTTTAAAAA-T
72002028 ATTTTGAATT
1 ATTTTGAATT
72002038 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (18 bp):
ATTTTGAATTTTAAAAAT
Found at i:72002911 original size:29 final size:31
Alignment explanation
Indices: 72002877--72002945 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
72002867 TTAATGTGTT
72002877 ATTATATACAT-AAATTTTAATT-TGATGTA
1 ATTATATACATAAAATTTTAATTGTGATGTA
* *
72002906 ATTATATACGTAAAATTTTAATTGTGATTTA
1 ATTATATACATAAAATTTTAATTGTGATGTA
*
72002937 AATATATAC
1 ATTATATAC
72002946 TCGAAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 10 0.29
30 11 0.31
31 14 0.40
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (31 bp):
ATTATATACATAAAATTTTAATTGTGATGTA
Found at i:72002957 original size:31 final size:30
Alignment explanation
Indices: 72002879--72002968 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
72002869 AATGTGTTAT
* * * *
72002879 TATATACAT-AAATTTTAATTTGATGTAAT
1 TATATACGTAAAACTTTAATTTGATTTAAA
*
72002908 TATATACGTAAAATTTTAATTGTGATTTAAA
1 TATATACGTAAAACTTTAATT-TGATTTAAA
*
72002939 TATATAC-TCGAAACTTTAATATTGATTTAA
1 TATATACGT-AAAACTTTAAT-TTGATTTAA
72002969 TCATACATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
29 8 0.15
30 12 0.23
31 31 0.60
32 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (30 bp):
TATATACGTAAAACTTTAATTTGATTTAAA
Found at i:72008123 original size:17 final size:19
Alignment explanation
Indices: 72008103--72008143 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
72008093 TAATAATAGT
72008103 AAAAACGA-AA-ACGAAAA
1 AAAAACGATAAGACGAAAA
*
72008120 AAAAA-GATAAGAGGAAAA
1 AAAAACGATAAGACGAAAA
72008138 AAAAAC
1 AAAAAC
72008144 TCAAAGACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 7 0.35
18 11 0.55
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAACGATAAGACGAAAA
Found at i:72008950 original size:44 final size:44
Alignment explanation
Indices: 72008863--72009406 Score: 329
Period size: 45 Copynumber: 12.1 Consensus size: 44
72008853 GCTGGTGGCC
* ** * *
72008863 TCAATCTGCTCCATTGCTGCTT-AGGAAGATAAGATTTTCTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTATCT
* * *
72008907 TCAATCTGCTCCACTACAAATTCAAGGAGATAAGATTTGTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCT
* * * * * ** * **
72008951 TGAACCTACTCCCCTGCAACTTCAAGGAGATAAGGCTGGTGGCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCT
* * * ** * * * * *
72008995 TAAATCTGCTTCATTGCCGCTACATGGTGATAAGATTCGTCGTCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATCT
* * * * ** *
72009040 TCGATATGTTCCACTACTGCTT-AGGGAGATAAGATTTACTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-GTATCT
* ** * **
72009084 TCGATCTATTCCACTGTAACTTCAGGGAGATAAGATCTACTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGTATCT
* * **
72009129 TCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGT-TACT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT-CT
* ** * *
72009173 TCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTCTGCTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCT
* * * * * * **
72009218 TCAGTCTACTCCGCTGTAACTTTAGGGAGGTAAGACCTGCTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCT
* * ** *
72009263 TCAGTCTGCTGCACTGCAACTTCAGGGAGATAAGACCTGCTATCC
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCT
*
72009308 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTAATTTGTAGCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGAT---A--AG--ATTTGTATCT
* *
72009359 TTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCT
1 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCT
72009404 TCA
1 TCA
72009407 GCCCTCTTAT
Statistics
Matches: 386, Mismatches: 98, Indels: 31
0.75 0.19 0.06
Matches are distributed among these distances:
43 1 0.00
44 157 0.41
45 185 0.48
46 4 0.01
48 2 0.01
50 2 0.01
51 32 0.08
52 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCT
Found at i:72009219 original size:134 final size:135
Alignment explanation
Indices: 72009078--72009341 Score: 388
Period size: 134 Copynumber: 2.0 Consensus size: 135
72009068 ATAAGATTTA
* *
72009078 CTATCTTC-GATCTATTCCACTGTAACTTCAGGGAGATAAGATCTACTATCTTCAGTCTGCTCCA
1 CTATCTTCAG-TCTACTCCACTGTAACTTCAGGGAGATAAGACCTACTATCTTCAGTCTGCTCCA
* *
72009142 CTGCAACTTCAAGGAGATAAGACCTGTTA-CTTCAACCTGCTCCACTGCAACTTCAAAGAGATAA
65 CTGCAACTTCAAGGAGATAAGACCTGCTATCCTCAACCTGCTCCACTGCAACTTCAAAGAGATAA
72009206 GGTCTG
130 GGTCTG
* * * * *
72009212 CTATCTTCAGTCTACTCCGCTGTAACTTTAGGGAGGTAAGACCTGCTATCTTCAGTCTGCTGCAC
1 CTATCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGACCTACTATCTTCAGTCTGCTCCAC
* * **
72009277 TGCAACTTCAGGGAGATAAGACCTGCTATCCTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
66 TGCAACTTCAAGGAGATAAGACCTGCTATCCTCAACCTGCTCCACTGCAACTTCAAAGAGATAAG
72009342 ACTAGTAATT
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
134 82 0.71
135 33 0.29
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (135 bp):
CTATCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGACCTACTATCTTCAGTCTGCTCCAC
TGCAACTTCAAGGAGATAAGACCTGCTATCCTCAACCTGCTCCACTGCAACTTCAAAGAGATAAG
GTCTG
Found at i:72014414 original size:8 final size:8
Alignment explanation
Indices: 72014401--72014425 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
72014391 TTTTAAATGA
72014401 TATTTTAT
1 TATTTTAT
72014409 TATTTTAT
1 TATTTTAT
72014417 TATTTTAT
1 TATTTTAT
72014425 T
1 T
72014426 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:72016621 original size:46 final size:46
Alignment explanation
Indices: 72016569--72016771 Score: 370
Period size: 46 Copynumber: 4.4 Consensus size: 46
72016559 TTTCTGAAAG
*
72016569 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
72016615 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
72016661 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
* *
72016707 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
*
72016753 AAAATGTGTAAGACCATGG
1 GAAATGTGTAAGACCATGG
72016772 CAACATGATA
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 153 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATAT
Found at i:72016771 original size:30 final size:30
Alignment explanation
Indices: 72016735--72016801 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
72016725 GTTGAAAGAT
72016735 ACCATGGCAACAGGATATAAAATGTGTAAG
1 ACCATGGCAACAGGATATAAAATGTGTAAG
* *
72016765 ACCATGGCAACATGATATGAAATGTGTAAG
1 ACCATGGCAACAGGATATAAAATGTGTAAG
72016795 ACCATGG
1 ACCATGG
72016802 TTGAAAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (30 bp):
ACCATGGCAACAGGATATAAAATGTGTAAG
Found at i:72016774 original size:76 final size:76
Alignment explanation
Indices: 72016689--72016847 Score: 318
Period size: 76 Copynumber: 2.1 Consensus size: 76
72016679 GTTGAAAGAC
72016689 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
72016754 AAATGTGTAAG
66 AAATGTGTAAG
72016765 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
72016830 AAATGTGTAAG
66 AAATGTGTAAG
72016841 ACCATGG
1 ACCATGG
72016848 TTGAAAGATA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 83 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (76 bp):
ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
AAATGTGTAAG
Found at i:72016815 original size:46 final size:46
Alignment explanation
Indices: 72016765--72017007 Score: 301
Period size: 46 Copynumber: 5.3 Consensus size: 46
72016755 AATGTGTAAG
* *
72016765 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* * * *
72016811 ACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* * *
72016857 ACCATGGCAACATGAC-GGGAATGAATAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
** * **
72016902 ACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* *
72016948 ACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGAC
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGAT
* *
72016994 ACTATGGCATCATG
1 ACCATGGCAACATG
72017008 TCAAAGATAA
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 38 0.22
46 133 0.78
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
Found at i:72016815 original size:122 final size:131
Alignment explanation
Indices: 72016569--72017002 Score: 492
Period size: 122 Copynumber: 3.3 Consensus size: 131
72016559 TTTCTGAAAG
* * **
72016569 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGG
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC---A-ACGGAAT-AATAAGA-CATGG
*
72016634 TTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAA
60 TTGAAAGA-ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
72016699 CATGATAT
124 CATGATAT
*
72016707 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-A-GG-AT-ATAA-A-AT-G-TGTAA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAACGGAATAATAAGACATGGTTGAAA
*
72016764 G-ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATA
66 GAACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
72016828 T
131 T
*
72016829 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA--AC-GGAAT-AATAAGA-CATGGT
** * * ***
72016894 TGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
61 TGAAAGA-ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
72016959 ATGACA-
125 ATGATAT
* * * *
72016965 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 G-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
72017003 TCATGTCAAA
Statistics
Matches: 259, Mismatches: 21, Indels: 33
0.83 0.07 0.11
Matches are distributed among these distances:
122 100 0.39
124 5 0.02
125 2 0.01
126 2 0.01
127 2 0.01
128 3 0.01
129 3 0.01
130 4 0.02
131 3 0.01
132 1 0.00
133 3 0.01
134 1 0.00
135 5 0.02
137 86 0.33
138 39 0.15
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (131 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAACGGAATAATAAGACATGGTTGAAA
GAACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
T
Found at i:72016903 original size:91 final size:92
Alignment explanation
Indices: 72016765--72017002 Score: 293
Period size: 91 Copynumber: 2.6 Consensus size: 92
72016755 AATGTGTAAG
* ** * *
72016765 ACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAG-GATA
1 ACCATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-AGTAACA
***
72016828 TAAAATGTGTAAGACCATGGTTGAAAGAT
64 TAAAATGAACAAGACCATGGTTGAAAGAT
** * *
72016857 ACCATGGCAACATGAC-GGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATG
1 ACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAGTAACATA
72016921 AAATGAACAAGACCATGGTTGAAAGAT
66 AAATGAACAAGACCATGGTTGAAAGAT
* * * *
72016948 ACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
72017003 TCATGTCAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
90 2 0.02
91 77 0.61
92 47 0.37
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (92 bp):
ACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAGTAACATA
AAATGAACAAGACCATGGTTGAAAGAT
Found at i:72017309 original size:16 final size:17
Alignment explanation
Indices: 72017288--72017320 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72017278 ATGATAGAGC
*
72017288 ATGAAAT-ATTGATATA
1 ATGAAATGATTAATATA
72017304 ATGAAATGATTAATATA
1 ATGAAATGATTAATATA
72017321 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTAATATA
Found at i:72018112 original size:3 final size:3
Alignment explanation
Indices: 72018106--72018468 Score: 111
Period size: 3 Copynumber: 121.0 Consensus size: 3
72018096 GTAAAAAAAT
* *
72018106 ATA ATA ATA ATA ATA ATG ACA ATA AT- ATA A-A GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * * *
72018149 AGA ATA ATG ATA ATC ATT ATA GT- ATA A-A AAA AGTA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * * * * *
72018193 ATA GTA ATA ATA ATG TTA ATA AAA AGA ATA ATA ATA ATA AAA ATA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * * ** *
72018242 AT- GTG ATA GTA ACA TATA ATA ATA ATG A-A ATA ACG CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
72018286 GA-A ATA TATA A-G ATA ATA AAA ATA ACA ATA ATA ATA ATG GT- ATG
1 -ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
72018330 TTA ACA ATA ATGA TTA AAA AAA AGA A-A ATA ACA ACA TATGA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA
* * * * * *
72018377 ATA GGCTA ATA ATA ACA ATA ATA AAA ATA GAAA AAA ATA ATA ATG A-A
1 ATA --ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * *
72018424 ATA AAA ATA ATA TTA ATA ATA ATA CTA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
72018469 TTAAAATTAA
Statistics
Matches: 257, Mismatches: 80, Indels: 46
0.67 0.21 0.12
Matches are distributed among these distances:
2 15 0.06
3 221 0.86
4 18 0.07
5 3 0.01
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:72019139 original size:17 final size:19
Alignment explanation
Indices: 72019119--72019159 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
72019109 TAATAATAGT
72019119 AAAAACGA-AA-ACGAAAA
1 AAAAACGATAAGACGAAAA
*
72019136 AAAAA-GATAAGAGGAAAA
1 AAAAACGATAAGACGAAAA
72019154 AAAAAC
1 AAAAAC
72019160 TCAAAGACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 7 0.35
18 11 0.55
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAACGATAAGACGAAAA
Found at i:72024655 original size:28 final size:29
Alignment explanation
Indices: 72024606--72024661 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
72024596 ATATTATAAT
*
72024606 AAAAATCCTAATTATTTTTTAAAGTATTA
1 AAAAATCCTAATTATTTATTAAAGTATTA
* *
72024635 AAAAATCCTATTTA-TTATTAAATTATT
1 AAAAATCCTAATTATTTATTAAAGTATT
72024662 TGTACAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (29 bp):
AAAAATCCTAATTATTTATTAAAGTATTA
Found at i:72026238 original size:23 final size:23
Alignment explanation
Indices: 72026212--72026261 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
72026202 AATTTTTAGC
72026212 TATTCAAG-AGAAAATTTTTCACT
1 TATT-AAGAAGAAAATTTTTCACT
**
72026235 TATTTTGAAGAAAATTTTTCACT
1 TATTAAGAAGAAAATTTTTCACT
72026258 TATT
1 TATT
72026262 TTGAAGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (23 bp):
TATTAAGAAGAAAATTTTTCACT
Found at i:72026262 original size:23 final size:23
Alignment explanation
Indices: 72026220--72026269 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
72026210 GCTATTCAAG
72026220 AGAAAATTTTTCACTTATTTTGA
1 AGAAAATTTTTCACTTATTTTGA
72026243 AGAAAATTTTTCACTTATTTTGA
1 AGAAAATTTTTCACTTATTTTGA
72026266 AGAA
1 AGAA
72026270 GTATTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (23 bp):
AGAAAATTTTTCACTTATTTTGA
Found at i:72030480 original size:27 final size:26
Alignment explanation
Indices: 72030431--72030481 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
72030421 TTGATCACTC
* **
72030431 ATTTTATTTTTTTAATTTCTTTTATT
1 ATTTTATTTTTTGAATTAATTTTATT
72030457 ATTTTATTTTTTAGAATTAATTTTA
1 ATTTTATTTTTT-GAATTAATTTTA
72030482 ATTTTCTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
ATTTTATTTTTTGAATTAATTTTATT
Found at i:72032690 original size:28 final size:27
Alignment explanation
Indices: 72032640--72032722 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 27
72032630 ATTTTTTAAA
72032640 ATTTAAAAAT-TCAAAAAATTTATAAAAGCT
1 ATTTAAAAATAT--AAAAA-TTATAAAA-CT
* * *
72032670 ATTGTTAAAA-GTAAAAATTATTAAAATT
1 ATT-TAAAAATATAAAAATTA-TAAAACT
72032698 ATTTAAAAATATAAAAATTATAAAA
1 ATTTAAAAATATAAAAATTATAAAA
72032723 TTATAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
27 10 0.22
28 16 0.36
29 10 0.22
30 3 0.07
31 6 0.13
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (27 bp):
ATTTAAAAATATAAAAATTATAAAACT
Found at i:72032697 original size:9 final size:9
Alignment explanation
Indices: 72032683--72032731 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
72032673 GTTAAAAGTA
72032683 AAAATTATT
1 AAAATTATT
72032692 AAAATTATTT
1 AAAATTA-TT
* *
72032702 AAAAATATA
1 AAAATTATT
72032711 AAAATTA-T
1 AAAATTATT
72032719 AAAATTA-T
1 AAAATTATT
72032727 AAAAT
1 AAAAT
72032732 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 13 0.37
9 14 0.40
10 8 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATT
Found at i:72032705 original size:19 final size:19
Alignment explanation
Indices: 72032683--72032735 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
72032673 GTTAAAAGTA
72032683 AAAATTATTAAAATTATTT
1 AAAATTATTAAAATTATTT
* *
72032702 AAAAATATAAAAATTA--T
1 AAAATTATTAAAATTATTT
72032719 AAAATTA-TAAAA-TATTT
1 AAAATTATTAAAATTATTT
72032736 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 2 0.07
16 4 0.14
17 8 0.29
19 14 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATTAAAATTATTT
Found at i:72032731 original size:8 final size:8
Alignment explanation
Indices: 72032683--72032731 Score: 53
Period size: 8 Copynumber: 5.6 Consensus size: 8
72032673 GTTAAAAGTA
72032683 AAAATTATT
1 AAAATTA-T
72032692 AAAATTATTT
1 AAAATTA--T
*
72032702 AAAAATAT
1 AAAATTAT
72032710 AAAAATTAT
1 -AAAATTAT
72032719 AAAATTAT
1 AAAATTAT
72032727 AAAAT
1 AAAAT
72032732 ATTTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 14 0.39
9 14 0.39
10 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:72033549 original size:13 final size:13
Alignment explanation
Indices: 72033531--72033555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72033521 CTCTCTTCTT
72033531 CTTTTTTCTGATA
1 CTTTTTTCTGATA
72033544 CTTTTTTCTGAT
1 CTTTTTTCTGAT
72033556 TATTTGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.08, T:0.64
Consensus pattern (13 bp):
CTTTTTTCTGATA
Found at i:72038138 original size:21 final size:21
Alignment explanation
Indices: 72038106--72038155 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
72038096 ATTAATCTCT
*
72038106 TCCAATAA-AATTACAAAATAA
1 TCCAA-AATAATTACAAAAAAA
*
72038127 TCCAAAATAATTATAAAAAAA
1 TCCAAAATAATTACAAAAAAA
*
72038148 TTCAAAAT
1 TCCAAAAT
72038156 TTATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (21 bp):
TCCAAAATAATTACAAAAAAA
Found at i:72047549 original size:17 final size:18
Alignment explanation
Indices: 72047511--72047549 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
72047501 ATGAGATTAG
*
72047511 AATTGAATTGAGAAAATT
1 AATTTAATTGAGAAAATT
72047529 -ATTTAATTG-GAAAATT
1 AATTTAATTGAGAAAATT
72047545 AATTT
1 AATTT
72047550 TTATATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (18 bp):
AATTTAATTGAGAAAATT
Found at i:72053205 original size:32 final size:31
Alignment explanation
Indices: 72053168--72053229 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
72053158 AATTATAAAA
*
72053168 TAGTCATACAACTATTCAAATTTTTTCTTTTT
1 TAGTCACACAACTATTCAAATTTTTT-TTTTT
* **
72053200 TAGTCACCCAACTATTTGAATTTTTTTTTT
1 TAGTCACACAACTATTCAAATTTTTTTTTT
72053230 AGTTATCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (31 bp):
TAGTCACACAACTATTCAAATTTTTTTTTTT
Found at i:72054530 original size:28 final size:28
Alignment explanation
Indices: 72054499--72054583 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
72054489 TTAATATTTA
* *
72054499 AACTTAATTTTTAAATTTAAAAAAAAAT
1 AACTTAAATTTTAAATATAAAAAAAAAT
* *
72054527 AACTAAAATTTTAAAAATAAAAATACAAA-
1 AACTTAAATTTTAAATATAAAAA-A-AAAT
72054556 AA-TTAAATTTTAAATATATAAAAAAAAT
1 AACTTAAATTTTAAATATA-AAAAAAAAT
72054584 TAAAGTAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 3 0.06
28 34 0.72
29 7 0.15
30 3 0.06
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (28 bp):
AACTTAAATTTTAAATATAAAAAAAAAT
Found at i:72054561 original size:21 final size:22
Alignment explanation
Indices: 72054511--72054562 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
72054501 CTTAATTTTT
*
72054511 AAATTTAAAAAAAAATAACTAA
1 AAATTAAAAAAAAAATAACTAA
*
72054533 AATTTTAAAAATAAAAAT-AC-AA
1 AA-ATTAAAAA-AAAAATAACTAA
72054555 AAATTAAA
1 AAATTAAA
72054563 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 8 0.32
24 6 0.24
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATTAAAAAAAAAATAACTAA
Found at i:72056472 original size:14 final size:14
Alignment explanation
Indices: 72056453--72056479 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72056443 TAACTATACA
72056453 ATTAAGAATAATAT
1 ATTAAGAATAATAT
72056467 ATTAAGAATAATA
1 ATTAAGAATAATA
72056480 GATAAAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
ATTAAGAATAATAT
Found at i:72061882 original size:18 final size:20
Alignment explanation
Indices: 72061859--72061902 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
72061849 TACTTTAATA
72061859 TTTATGCAA-ATAATT-ATT
1 TTTATGCAATATAATTGATT
* *
72061877 TTTATGGAATATTATTGATT
1 TTTATGCAATATAATTGATT
72061897 TTTATG
1 TTTATG
72061903 AAGCAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTATGCAATATAATTGATT
Found at i:72062882 original size:36 final size:35
Alignment explanation
Indices: 72062808--72062882 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 35
72062798 TTTTTCCCAA
***
72062808 CATGCATATATATATGAAGCGTTTGTCTTATTTGTT
1 CATGCATATATATATGAA-CGTTTGTCTTATGCATT
*
72062844 CATGCATATATATATGAA-TTTTGTTCTTCATGCATT
1 CATGCATATATATATGAACGTTTG-TCTT-ATGCATT
72062880 CAT
1 CAT
72062883 TACCACTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 4 0.12
35 4 0.12
36 25 0.76
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (35 bp):
CATGCATATATATATGAACGTTTGTCTTATGCATT
Found at i:72064748 original size:25 final size:23
Alignment explanation
Indices: 72064690--72064740 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
72064680 TTGATTCTCA
*
72064690 CTTTCGCTCTCTCATCTTACATC
1 CTTTTGCTCTCTCATCTTACATC
72064713 CTTTTGCTCTCTCATCTTACATC
1 CTTTTGCTCTCTCATCTTACATC
72064736 CTTTT
1 CTTTT
72064741 TTGTTCTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.12, C:0.35, G:0.04, T:0.49
Consensus pattern (23 bp):
CTTTTGCTCTCTCATCTTACATC
Found at i:72071326 original size:29 final size:31
Alignment explanation
Indices: 72071283--72071342 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
72071273 TCAGTACCTA
*
72071283 TATTTTCATAAAATGTCCAATGCGTTACTTG
1 TATTTTCATAAAATGTCCAATGCGGTACTTG
* *
72071314 TATTTT-A-AAAATGTCTAATGTGGTACTTG
1 TATTTTCATAAAATGTCCAATGCGGTACTTG
72071343 AACTATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 19 0.73
30 1 0.04
31 6 0.23
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (31 bp):
TATTTTCATAAAATGTCCAATGCGGTACTTG
Found at i:72071400 original size:31 final size:31
Alignment explanation
Indices: 72071286--72071410 Score: 110
Period size: 31 Copynumber: 4.1 Consensus size: 31
72071276 GTACCTATAT
* * *
72071286 TTTCATAAAATGTCCAATGCGTTACTTGTA-
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
* *
72071316 TTTTA-AAAATGTCTAATGTGGTACTTGAAC
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
* **** * * * *
72071346 TATCATTTTTTGTATTATTTGGTACTGGTAC
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
72071377 TTTCATAAAATGTCTAATGTGGTACTTGTAC
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
72071408 TTT
1 TTT
72071411 GAAAATGTTC
Statistics
Matches: 68, Mismatches: 25, Indels: 3
0.71 0.26 0.03
Matches are distributed among these distances:
29 20 0.29
30 7 0.10
31 41 0.60
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (31 bp):
TTTCATAAAATGTCTAATGTGGTACTTGTAC
Found at i:72079519 original size:16 final size:15
Alignment explanation
Indices: 72079498--72079527 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
72079488 ATTGATCTCC
72079498 TTTTTTTAAATATTTA
1 TTTTTTT-AATATTTA
72079514 TTTTTTTAATATTT
1 TTTTTTTAATATTT
72079528 GCTATACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:72080627 original size:46 final size:46
Alignment explanation
Indices: 72080568--72080838 Score: 416
Period size: 46 Copynumber: 5.9 Consensus size: 46
72080558 TTTGTCATGT
** * *
72080568 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
72080614 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
72080660 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
72080706 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
72080752 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
72080798 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
72080839 TAGAGAGCAC
Statistics
Matches: 209, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 209 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:72080676 original size:92 final size:92
Alignment explanation
Indices: 72080520--72080835 Score: 425
Period size: 92 Copynumber: 3.4 Consensus size: 92
72080510 TTTGACATGA
* * * * ***
72080520 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTTGTCATGTTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA--TTTCACGTCATGTTGCCATGGTATCTTTCA
** * *
72080585 ACCATGGTCTTATTCATTTCATGTCACGC
64 ACCATGGTCTTACACATTTCATATCAGGC
*** *
72080614 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACGTCATGTTGCCATGGTATCTTTCAAC
72080679 CATGGTCTTACACATTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
* ** * *
72080706 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACGTCATGTTGCCATGGTATCTTTCAAC
*
72080771 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCAGGC
72080798 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
72080836 TATTAGAGAG
Statistics
Matches: 199, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
92 171 0.86
94 28 0.14
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:72082961 original size:18 final size:20
Alignment explanation
Indices: 72082946--72082982 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72082936 TAATAATAAA
*
72082946 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
72082966 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
72082983 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:72089532 original size:21 final size:22
Alignment explanation
Indices: 72089486--72089532 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
72089476 AAGGCAGCTA
*
72089486 AAAAGAAAGAAACAAAAAAGAG
1 AAAAGAAAGAAACAAAAAAGAC
*
72089508 AAAAGGAA-AAACAAAAACA-AC
1 AAAAGAAAGAAACAAAAA-AGAC
72089529 AAAA
1 AAAA
72089533 AAAAAGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.79, C:0.09, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAACAAAAAAGAC
Found at i:72090013 original size:8 final size:8
Alignment explanation
Indices: 72090000--72090032 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
72089990 TTGAGACCTT
72090000 AAAAAATC
1 AAAAAATC
72090008 AAAAAAT-
1 AAAAAATC
*
72090015 AATAAATC
1 AAAAAATC
72090023 AAAAAATC
1 AAAAAATC
72090031 AA
1 AA
72090033 TCAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAATC
Found at i:72090023 original size:15 final size:14
Alignment explanation
Indices: 72090003--72090059 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 14
72089993 AGACCTTAAA
72090003 AAATCAAAAAATAAT
1 AAATCAAAAAA-AAT
72090018 AAATC--AAAAAAT
1 AAATCAAAAAAAAT
*
72090030 CAATCAAAAAATAA-
1 AAATCAAAAAA-AAT
72090044 AAAT-AAAAAAAAT
1 AAATCAAAAAAAAT
72090057 AAA
1 AAA
72090060 AAAAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
12 9 0.25
13 13 0.36
14 7 0.19
15 7 0.19
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATCAAAAAAAAT
Found at i:72090036 original size:12 final size:12
Alignment explanation
Indices: 72090000--72090041 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
72089990 TTGAGACCTT
72090000 AAAAAATCAA--
1 AAAAAATCAATC
*
72090010 AAAATAATAAATC
1 AAAA-AATCAATC
72090023 AAAAAATCAATC
1 AAAAAATCAATC
72090035 AAAAAAT
1 AAAAAAT
72090042 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.15
11 5 0.19
12 14 0.52
13 4 0.15
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAATCAATC
Found at i:72090056 original size:27 final size:27
Alignment explanation
Indices: 72090004--72090054 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
72089994 GACCTTAAAA
*
72090004 AATCAAAAAATAATAAATCAAAAAATC
1 AATCAAAAAATAATAAATAAAAAAATC
72090031 AATCAAAAAATAA-AAATAAAAAAA
1 AATCAAAAAATAATAAATAAAAAAA
72090055 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (27 bp):
AATCAAAAAATAATAAATAAAAAAATC
Found at i:72091291 original size:44 final size:44
Alignment explanation
Indices: 72091263--72091692 Score: 215
Period size: 44 Copynumber: 9.8 Consensus size: 44
72091253 TTAAGCTACT
*
72091263 AGCCTTATCTCCCT-AAGGTTGCAGTGGAGCAGGCTCAAGATACA
1 AGCCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTCAAGATACA
* * *
72091307 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACT-AAAATTAC-
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA-TACA
* * * * *
72091350 AGATCTTATCT-CCTTAAGTAGTAGTGGAGCAGA-TCGAAGACAGCGA
1 AG-CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTC-AAGATA-C-A
* * * * * * * * * * *
72091396 A-TCTTATCTCCATGTA-TCGACAATGGAACAGATTTAAGCTGCC
1 AGCCTTATCTCCCTGAAGTTG-CAGTGGAGCAGACTCAAGATACA
* * * *
72091439 AGCCTTATCTCTCTGAGGTTGCAGTGGAACAGGCTCAAGATACA
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATACA
* * *
72091483 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTAC-
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA-TACA
* *** * *
72091527 AGATCTTA--TCCCT-AAACAGTAGTGGAGCAGA-TCGAAGATGGCGA
1 AG-CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTC-AAGAT-AC-A
* * * * * * * **
72091571 A-TCTTATCTCCATGTA-TCGGCAATGGAGCAGATTTAAGCCACCA
1 AGCCTTATCTCCCTGAAGT-TGCAGTGGAGCAGACTCAAGATA-CA
* *
72091615 A-CCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTCAAGATACA
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATACA
* *
72091658 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
72091693 GAAAATTACA
Statistics
Matches: 285, Mismatches: 74, Indels: 54
0.69 0.18 0.13
Matches are distributed among these distances:
41 2 0.01
42 24 0.08
43 33 0.12
44 179 0.63
45 44 0.15
46 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATACA
Found at i:72091461 original size:176 final size:177
Alignment explanation
Indices: 72091167--72091982 Score: 1280
Period size: 176 Copynumber: 4.6 Consensus size: 177
72091157 CAATACCGGT
*
72091167 AAATTACAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
* * * *
72091232 TGTATCGGCAATGGAGTAGATTTAAGCTACTAGCCTTATCTCCCTAAGGTTGCAGTGGAGCAGGC
66 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
* *
72091297 TCAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACT-A
131 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA
* * *
72091343 AAATTACAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCCA
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
* * ** * *
72091408 TGTATCGACAATGGAACAGATTTAAGCTGCCAGCCTTATCTCTCTGAGGTTGCAGTGGAACAGGC
66 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
*
72091473 TCAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
131 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA
* *
72091520 AAATTACAGATCTTA--TCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCA
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
*
72091583 TGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
66 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
72091648 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA
131 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA
* * *
72091695 AAATTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTCTA
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
* * * * *
72091760 TGTATTGGTAATAGAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAGGTTGCA-TGGAGCAGGC
66 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
* *
72091824 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGAGGAGCAAACTGA
131 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA
* *
72091871 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCA
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
* * * *
72091936 TGTATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGA
66 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGA
72091983 AGCAGCAAGA
Statistics
Matches: 586, Mismatches: 51, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
175 162 0.28
176 317 0.54
177 107 0.18
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (177 bp):
AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA
Found at i:72091827 original size:351 final size:351
Alignment explanation
Indices: 72091167--72091982 Score: 1265
Period size: 351 Copynumber: 2.3 Consensus size: 351
72091157 CAATACCGGT
* *
72091167 AAATTACAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
1 AAATTACAGATC-T-TATCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCA
* * * *
72091232 TGTATCGGCAATGGAGTAGATTTAAGCTACTAGCCTTATCTCCCTAAGGTTGCAGTGGAGCAGGC
64 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
*
72091297 TCAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAATTACAGATCTTATCTC
129 TCAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAATTACAGATCTTATCTC
* * * *
72091362 CTTAAGTAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGTATCGACAATGGAACAG
194 CCTAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGTATCGACAATAGAACAG
** * *
72091427 ATTTAAGCTGCCAGCCTTATCTCTCTGAGGTTGCAGTGGAACAGGCTCAAGATACAAGTCTTATC
259 ATTTAAGCCACCAGCCTTATCTCCCTAAGGTTGCAGTGGAACAGGCTCAAGATACAAGTCTTATC
* * *
72091492 TCCCTGAAGTTGCAGTGGAGCAGACTGA
324 TCCCTAAAGTTGCAGAGGAGCAAACTGA
*
72091520 AAATTACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATG
1 AAATTACAGATCTTATCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATG
*
72091585 TATCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTC
66 TATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTC
*
72091650 AAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTCC
131 AAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACT-AAAATTACAGATCTTATCTCC
* * * * ** *
72091715 CTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTCTATGTATTGGTAATAGAGCAGA
195 CTAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGTATCGACAATAGAACAGA
* *
72091780 TTTAAGCCACCAGTCTTATCTCCCTAAGGTTGCA-TGGAGCAGGCTCAAGATACAAGTCTTATCT
260 TTTAAGCCACCAGCCTTATCTCCCTAAGGTTGCAGTGGAACAGGCTCAAGATACAAGTCTTATCT
72091844 CCCTAAAGTTGCAGAGGAGCAAACTGA
325 CCCTAAAGTTGCAGAGGAGCAAACTGA
*
72091871 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCA
1 AAATTACAGATCTTA--TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCA
* * * *
72091936 TGTATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGA
64 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGA
72091983 AGCAGCAAGA
Statistics
Matches: 423, Mismatches: 37, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
351 218 0.52
352 105 0.25
353 100 0.24
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (351 bp):
AAATTACAGATCTTATCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATG
TATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTC
AAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAATTACAGATCTTATCTCCC
TAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGTATCGACAATAGAACAGAT
TTAAGCCACCAGCCTTATCTCCCTAAGGTTGCAGTGGAACAGGCTCAAGATACAAGTCTTATCTC
CCTAAAGTTGCAGAGGAGCAAACTGA
Found at i:72091892 original size:45 final size:43
Alignment explanation
Indices: 72091791--72091894 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
72091781 TTAAGCCACC
* * ** *
72091791 AGTCTTATCTCCCTAAGGTTGCATGGAGCAGGCTCAAGATACA
1 AGTCTTATCTCCCTAAAGTTGCAAGGAGCAAACTCAAAATACA
*
72091834 AGTCTTATCTCCCTAAAGTTGCAGAGGAGCAAACTGAAAATTAC-
1 AGTCTTATCTCCCTAAAGTTGCA-AGGAGCAAACTCAAAA-TACA
72091878 AGATCTTATCTCCCTAA
1 AG-TCTTATCTCCCTAA
72091895 GCAGTAGTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 22 0.42
44 13 0.25
45 17 0.33
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTAAAGTTGCAAGGAGCAAACTCAAAATACA
Found at i:72093306 original size:21 final size:21
Alignment explanation
Indices: 72093275--72093315 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
72093265 TCTTGATTTA
*
72093275 TTTATTTATTACTTTTTTTTGT
1 TTTATTTATTA-TTTATTTTGT
72093297 TTTA-TTATTATTTATTTTG
1 TTTATTTATTATTTATTTTG
72093316 AATCTCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTATTATTTATTTTGT
Found at i:72093619 original size:20 final size:21
Alignment explanation
Indices: 72093594--72093642 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
72093584 ATTTCAAAAT
* *
72093594 TTATTTTTTTTATTG-TTTTA
1 TTATTTTATTTATGGTTTTTA
72093614 TTA-TTTATTTATGGTTTTTA
1 TTATTTTATTTATGGTTTTTA
72093634 TTCATTTTA
1 TT-ATTTTA
72093643 AATATTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 1 0.04
22 4 0.17
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.73
Consensus pattern (21 bp):
TTATTTTATTTATGGTTTTTA
Found at i:72097322 original size:21 final size:21
Alignment explanation
Indices: 72097298--72097339 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
72097288 ACATATAAAT
72097298 ATATATTATTAGA-TATTCAAA
1 ATATATTATT-GATTATTCAAA
*
72097319 ATATTTTATTGATTATTCAAA
1 ATATATTATTGATTATTCAAA
72097340 TCTAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATATTATTGATTATTCAAA
Found at i:72097857 original size:17 final size:17
Alignment explanation
Indices: 72097835--72097873 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
72097825 AAAATATTTA
*
72097835 TTTTAATGT-TTTTAGTT
1 TTTTAATGTATTATA-TT
72097852 TTTTAATGTATTATATT
1 TTTTAATGTATTATATT
72097869 TTTTA
1 TTTTA
72097874 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (17 bp):
TTTTAATGTATTATATT
Found at i:72105854 original size:18 final size:17
Alignment explanation
Indices: 72105821--72105854 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72105811 ATATGATTAT
*
72105821 ATAAAAAAATTTAATAA
1 ATAAAAAAATTAAATAA
72105838 ATAAAAAATATTAAATA
1 ATAAAAAA-ATTAAATA
72105855 TCAAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAAAATTAAATAA
Found at i:72116158 original size:6 final size:7
Alignment explanation
Indices: 72116139--72116163 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
72116129 AGAAGATAAA
72116139 TATTTTT
1 TATTTTT
72116146 TATTTTT
1 TATTTTT
72116153 TATTTTT
1 TATTTTT
72116160 TATT
1 TATT
72116164 CTATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:72117449 original size:15 final size:15
Alignment explanation
Indices: 72117429--72117479 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
72117419 TATGACTTAA
*
72117429 TTTAATTCGTAATTT
1 TTTAATACGTAATTT
*
72117444 TTTAATACTTAATTT
1 TTTAATACGTAATTT
** *
72117459 TTTAATATTTAAATT
1 TTTAATACGTAATTT
72117474 TTTAAT
1 TTTAAT
72117480 TTAATAGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTAATACGTAATTT
Found at i:72117473 original size:16 final size:15
Alignment explanation
Indices: 72117438--72117479 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
72117428 ATTTAATTCG
72117438 TAATTTTTTAATACT
1 TAATTTTTTAATACT
*
72117453 TAATTTTTTAATATT
1 TAATTTTTTAATACT
*
72117468 TAAATTTTTAAT
1 TAATTTTTTAAT
72117480 TTAATAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTTTTTAATACT
Found at i:72119494 original size:19 final size:18
Alignment explanation
Indices: 72119465--72119512 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
72119455 GTATTATTTT
*
72119465 TATATTATTATAATTGTGAG
1 TATA-TATTAT-AGTGTGAG
*
72119485 TATATATTAT-GTGTGTG
1 TATATATTATAGTGTGAG
72119502 TATATATTATA
1 TATATATTATA
72119513 TGCATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 15 0.60
19 6 0.24
20 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
TATATATTATAGTGTGAG
Found at i:72119504 original size:17 final size:17
Alignment explanation
Indices: 72119479--72119511 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
72119469 TTATTATAAT
72119479 TGTGAGTATATATTATG
1 TGTGAGTATATATTATG
*
72119496 TGTGTGTATATATTAT
1 TGTGAGTATATATTAT
72119512 ATGCATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (17 bp):
TGTGAGTATATATTATG
Found at i:72120928 original size:3 final size:3
Alignment explanation
Indices: 72120920--72120954 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
72120910 ATACTATATA
*
72120920 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72120955 AAGTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72121106 original size:17 final size:19
Alignment explanation
Indices: 72121082--72121129 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
72121072 AATATTAGTC
72121082 TATAAATAGA-AATAGAAA
1 TATAAATAGATAATAGAAA
*
72121100 TAT-AATA-ATAGTAGAAA
1 TATAAATAGATAATAGAAA
72121117 TATAAATAGATAA
1 TATAAATAGATAA
72121130 ATAATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 14 0.56
18 7 0.28
19 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.27
Consensus pattern (19 bp):
TATAAATAGATAATAGAAA
Found at i:72121136 original size:15 final size:15
Alignment explanation
Indices: 72121091--72121151 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
72121081 CTATAAATAG
72121091 AAATAGA-AATATAAT
1 AAATAGATAA-ATAAT
*
72121106 -AATAGTAGAAAT-AT
1 AAATAG-ATAAATAAT
72121120 AAATAGATAAATAAT
1 AAATAGATAAATAAT
*
72121135 AATTAGATAAATAAT
1 AAATAGATAAATAAT
72121150 AA
1 AA
72121152 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (15 bp):
AAATAGATAAATAAT
Found at i:72121145 original size:58 final size:58
Alignment explanation
Indices: 72121083--72121195 Score: 131
Period size: 58 Copynumber: 1.9 Consensus size: 58
72121073 ATATTAGTCT
* * **
72121083 ATAAATAGA-AATAGAAATATAATAATAGTAGAAATATAAATAGATAA-ATAATAATTAG
1 ATAAATA-ATAATAGAAATAGAATAACAAAAGAAATATAAATAGA-AACATAATAATTAG
* * *
72121141 ATAAATAATAATAGTATTAGAATAACAAAATAAATATAAATAGAAACATAATAAT
1 ATAAATAATAATAGAAATAGAATAACAAAAGAAATATAAATAGAAACATAATAAT
72121196 AATAGCAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.07
58 43 0.93
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (58 bp):
ATAAATAATAATAGAAATAGAATAACAAAAGAAATATAAATAGAAACATAATAATTAG
Found at i:72121205 original size:29 final size:29
Alignment explanation
Indices: 72121085--72121205 Score: 93
Period size: 29 Copynumber: 4.2 Consensus size: 29
72121075 ATTAGTCTAT
* *
72121085 AAATAGAAATAGAAATATAATAATAGTAG
1 AAATATAAATAGAAATATAATAATAATAG
* * *
72121114 AAATATAAATAGATAA-ATAATAATTAGAT
1 AAATATAAATAGA-AATATAATAATAATAG
* * * * * *
72121143 AAATA-ATAATAGTATTAGAATAACAAAAT
1 AAATATA-AATAGAAATATAATAATAATAG
*
72121172 AAATATAAATAGAAACATAATAATAATAG
1 AAATATAAATAGAAATATAATAATAATAG
*
72121201 CAATA
1 AAATA
72121206 ATATATTAAA
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
28 2 0.03
29 64 0.93
30 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.26
Consensus pattern (29 bp):
AAATATAAATAGAAATATAATAATAATAG
Found at i:72122676 original size:95 final size:97
Alignment explanation
Indices: 72122483--72122682 Score: 361
Period size: 97 Copynumber: 2.1 Consensus size: 97
72122473 AGAGTCTATA
*
72122483 AAGCAAT-AAAAAAATAGTTTTGACATTTGACTATTGAGGAAATTTTAAATTTGAATATTGGCAT
1 AAGCAATAAAAAAAATAGTTTTGACATTTGACTATTGAGGAAATTTTAAATTTGAATATTGACAT
72122547 GTTTATATATATATTTTAAAATAACTTAATTG
66 GTTTATATATATATTTTAAAATAACTTAATTG
*
72122579 AAGCAATAAAAAAAATAGTTTTGACATTTGACTATTGAGGAAATTTTAAATTTGAATATTGATAT
1 AAGCAATAAAAAAAATAGTTTTGACATTTGACTATTGAGGAAATTTTAAATTTGAATATTGACAT
72122644 G-TT-TATATATATTTTAAAATAACTTAATTG
66 GTTTATATATATATTTTAAAATAACTTAATTG
72122674 AAGCAATAA
1 AAGCAATAA
72122683 GTCACCACAG
Statistics
Matches: 101, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
95 36 0.36
96 9 0.09
97 56 0.55
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (97 bp):
AAGCAATAAAAAAAATAGTTTTGACATTTGACTATTGAGGAAATTTTAAATTTGAATATTGACAT
GTTTATATATATATTTTAAAATAACTTAATTG
Found at i:72122835 original size:23 final size:23
Alignment explanation
Indices: 72122791--72122835 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
72122781 TAAAGGTTAA
*
72122791 TAATATAACATGTGCAACTATTG
1 TAATATAACATGGGCAACTATTG
*
72122814 TAATA-AACATGGGACAATTATT
1 TAATATAACATGGG-CAACTATT
72122836 CGATTTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (23 bp):
TAATATAACATGGGCAACTATTG
Found at i:72126698 original size:29 final size:29
Alignment explanation
Indices: 72126656--72126714 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
72126646 ATCATGGAGT
*
72126656 CAATCCACGAGAAGTACCATGATTGAAAA
1 CAATCCACAAGAAGTACCATGATTGAAAA
72126685 CAATCCACAAGAAGTACCATGATTGAAAA
1 CAATCCACAAGAAGTACCATGATTGAAAA
72126714 C
1 C
72126715 TCCTTACTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (29 bp):
CAATCCACAAGAAGTACCATGATTGAAAA
Found at i:72128827 original size:42 final size:42
Alignment explanation
Indices: 72128755--72128836 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
72128745 TTGTGGATGG
* * *
72128755 CTTTGTTTCCCATTTGGGAATTTTTGGGTATCTTAGGATTTT
1 CTTTGTTTCCCATTTGAGAATTTTTAGGTATCTTAAGATTTT
*
72128797 CTTTGTTTCCCGTTTGAG-ATATTTTAGGTATCTTAAGATT
1 CTTTGTTTCCCATTTGAGAAT-TTTTAGGTATCTTAAGATT
72128837 GCCTTTCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.51
Consensus pattern (42 bp):
CTTTGTTTCCCATTTGAGAATTTTTAGGTATCTTAAGATTTT
Found at i:72129928 original size:33 final size:33
Alignment explanation
Indices: 72129890--72129954 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
72129880 TTTTTTTATT
*
72129890 AAATTATCCTAAAATT-GATAGAAACGTTAATAC
1 AAATTA-CCTAAAATTAGATAGAAACGCTAATAC
*
72129923 AAATTACCTCAAATTAGATAGAAACGCTAATA
1 AAATTACCTAAAATTAGATAGAAACGCTAATA
72129955 TTTTTTAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (33 bp):
AAATTACCTAAAATTAGATAGAAACGCTAATAC
Found at i:72132968 original size:12 final size:12
Alignment explanation
Indices: 72132951--72132983 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
72132941 CGGCCCGCCC
72132951 ATATTAATTTTT
1 ATATTAATTTTT
72132963 ATATT-ATTTTT
1 ATATTAATTTTT
72132974 ATA-TAATTTT
1 ATATTAATTTT
72132984 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:72133142 original size:30 final size:30
Alignment explanation
Indices: 72133106--72133168 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
72133096 ACTTAACAAG
72133106 CAAATGT-TTCTAAAATAATAACAAAA-TTAA
1 CAAATGTCTT-TAAAATAATAA-AAAATTTAA
72133136 CAAATGTCTTTAAAATAATAAAAAATTTAA
1 CAAATGTCTTTAAAATAATAAAAAATTTAA
72133166 CAA
1 CAA
72133169 TAAAATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 4 0.13
30 25 0.81
31 2 0.06
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAAAAAATTTAA
Found at i:72133223 original size:22 final size:22
Alignment explanation
Indices: 72133198--72133240 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
72133188 TATCCAAACA
72133198 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
72133220 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
72133241 AATAGTGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:72133253 original size:11 final size:11
Alignment explanation
Indices: 72133205--72133246 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
72133195 ACAATAACAA
72133205 CAAAATAGTAG
1 CAAAATAGTAG
* *
72133216 CAACATAATAG
1 CAAAATAGTAG
*
72133227 TAAAATAGTAG
1 CAAAATAGTAG
72133238 CAAAATAGT
1 CAAAATAGT
72133247 GAGAAAACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:72137140 original size:3 final size:3
Alignment explanation
Indices: 72137118--72137420 Score: 139
Period size: 3 Copynumber: 100.7 Consensus size: 3
72137108 CATTTTTTAG
* * ** *
72137118 TTA TTT TTA CTA TT- TTA TTA TTA AAA TTAA TTAA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA
* * * ** *
72137164 ATA TTT TTA TTA TTA CTA TTA TTA TTA GTCC TT- TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * *
72137209 TTTA TTA TCA ATA TTA TTA TTA TTA TTA CTA TTA TTA CTA GTT- TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * ** * * * * *
72137255 TTT TTA TTA CTA TTA ACA TTA GTA TTA TTA TCA TTT TTG TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
72137303 TTA CTA TTA TT- TTT TTA CTA CTA TTA TTTA GCA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * * * * * *
72137347 CTA TTA TTA TTA CCA TCA TTA TTA TTT TTA TTT TTA CTA CTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
72137395 CTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
72137421 GTCATTTTTA
Statistics
Matches: 222, Mismatches: 68, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
2 9 0.04
3 198 0.89
4 15 0.07
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:72137419 original size:12 final size:12
Alignment explanation
Indices: 72137337--72137432 Score: 50
Period size: 12 Copynumber: 7.8 Consensus size: 12
72137327 TATTTAGCAT
72137337 ATTATTATTA-C
1 ATTATTATTATC
*
72137348 TATTATTATTACC
1 -ATTATTATTATC
* *
72137361 ATCATTATTATT
1 ATTATTATTATC
* *
72137373 TTTATTTTTACTAC
1 ATTATTATTA-T-C
* * * *
72137387 TACTACTACTATT
1 -ATTATTATTATC
72137400 ATTATTATTATC
1 ATTATTATTATC
*
72137412 ATTATTATTGTC
1 ATTATTATTATC
*
72137424 ATTTTTATT
1 ATTATTATT
72137433 TTGTCATATT
Statistics
Matches: 61, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
12 53 0.87
13 2 0.03
14 1 0.02
15 5 0.08
ACGTcount: A:0.29, C:0.11, G:0.01, T:0.58
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:72137438 original size:14 final size:16
Alignment explanation
Indices: 72137413--72137446 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
72137403 ATTATTATCA
72137413 TTATTATTGTCAT-TT
1 TTATTATTGTCATATT
72137428 TTATT-TTGTCATATT
1 TTATTATTGTCATATT
72137443 TTAT
1 TTAT
72137447 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTATTGTCATATT
Found at i:72137468 original size:12 final size:12
Alignment explanation
Indices: 72137451--72137495 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
72137441 TTTTATATTT
72137451 TTTATTTACTTA
1 TTTATTTACTTA
*
72137463 TTTATTTGCTTA
1 TTTATTTACTTA
*
72137475 TTTTATTTTTCTTA
1 -TTTA-TTTACTTA
72137489 TTTATTT
1 TTTATTT
72137496 GTTTAAGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 14 0.48
13 8 0.28
14 7 0.24
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTACTTA
Found at i:72144649 original size:81 final size:82
Alignment explanation
Indices: 72144519--72144670 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 82
72144509 ATTTTCGAGC
* * *
72144519 AAATATTCTTTATTCTTTCCATTCATAATTACACTATACAGATATTTATTTTTAGACTCTTTTGT
1 AAATATTCTTTATTCTTTCCATTCATAATCACACCATACAGATATTTATTCTTAGACTCTTTTGT
72144584 CCTTTGGGTATTCTCTT
66 CCTTTGGGTATTCTCTT
* * * *
72144601 AAATATTCTTTTATTC-TT-CATTCATGATCATACCATATAGATCA-TTATTCTTAGATTCTTTT
1 AAATATTC-TTTATTCTTTCCATTCATAATCACACCATACAGAT-ATTTATTCTTAGACTCTTTT
72144663 GTCCTTTG
64 GTCCTTTG
72144671 TATCTTTCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
81 43 0.70
82 11 0.18
83 7 0.11
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (82 bp):
AAATATTCTTTATTCTTTCCATTCATAATCACACCATACAGATATTTATTCTTAGACTCTTTTGT
CCTTTGGGTATTCTCTT
Found at i:72149210 original size:44 final size:43
Alignment explanation
Indices: 72149135--72149343 Score: 158
Period size: 44 Copynumber: 4.8 Consensus size: 43
72149125 GCAAATCAAA
* *
72149135 ACAAGCCTTATCT-CCTCGAAGTTACAGTGGAGCAGGTTGAAGTC
1 ACAAGTCTTATCTCCCT-GAAGTTGCAGTGGAGCAGGTTGAA-TC
* * * * *
72149179 ACTAGTCTTATCTCCCTGAAATTGCAATGGAGCATAG-TGAA-G
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GGTTGAATC
* * * * * *
72149221 ACAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCA-GATCAA-A
1 AC-A-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAATC
** * *
72149265 ACAAACCTTATCTCGCTGAAGTTGCAGTGGAGCAGGTTGATATT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA-ATC
*
72149309 ACAAGTCTTATCTCCCTGAATTTGCAGTGGAGCAG
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
72149344 ATTAAACAAC
Statistics
Matches: 129, Mismatches: 27, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
41 25 0.19
42 6 0.05
43 3 0.02
44 67 0.52
45 28 0.22
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAATC
Found at i:72149263 original size:130 final size:130
Alignment explanation
Indices: 72149096--72149342 Score: 374
Period size: 130 Copynumber: 1.9 Consensus size: 130
72149086 ATAAATAAAC
*
72149096 AGATCTTATCTCCTTGAAGTTACAATAGAGCAAATCAAAACAAGCCTTATCTC-CTCGAAGTTAC
1 AGATCTTATCTCCTTGAAGTTACAATAGAGCAAATCAAAACAAACCTTATCTCGCT-GAAGTTAC
*
72149160 AGTGGAGCAGGTTGA-AGTCACTAGTCTTATCTCCCTGAAATTGCAATGGAGCATAGTGAAGACA
65 AGTGGAGCAGGTTGATA-TCACAAGTCTTATCTCCCTGAAATTGCAATGGAGCATAGTGAAGACA
72149224 AT
129 AT
* * *
72149226 AGATCTTATCT-CTCTGAAGTTACAGTAGAGCAGATCAAAACAAACCTTATCTCGCTGAAGTTGC
1 AGATCTTATCTCCT-TGAAGTTACAATAGAGCAAATCAAAACAAACCTTATCTCGCTGAAGTTAC
* * *
72149290 AGTGGAGCAGGTTGATATTACAAGTCTTATCTCCCTGAATTTGCAGTGGAGCA
65 AGTGGAGCAGGTTGATATCACAAGTCTTATCTCCCTGAAATTGCAATGGAGCA
72149343 GATTAAACAA
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
129 2 0.02
130 101 0.95
131 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (130 bp):
AGATCTTATCTCCTTGAAGTTACAATAGAGCAAATCAAAACAAACCTTATCTCGCTGAAGTTACA
GTGGAGCAGGTTGATATCACAAGTCTTATCTCCCTGAAATTGCAATGGAGCATAGTGAAGACAAT
Found at i:72150952 original size:3 final size:3
Alignment explanation
Indices: 72150930--72151264 Score: 176
Period size: 3 Copynumber: 111.7 Consensus size: 3
72150920 CTTTTTAAAG
* * ** *
72150930 TTA TTT TTA CTA TT- TTA TTA TTA AAA TTAA TTAA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA
* * * * *
72150976 ATA TTT TTA TTA TTA CTA TTA TTA TTA TTA TTCC TT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * * * *
72151021 TTA TTTA TTA TCA ATA TTA TTA TTA TTA CTA TTA TTA CTA TTT TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * *
72151067 TTT TTA TTA CTA TTA ACA TTA GTA CTA TTA TCA TT- TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * * *
72151113 TTA TTA TTA TCA TTT TTG TAA TTA CTA TTA CTA TTT TTT TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * ** *
72151161 TTA TTTA GCA -TA TTA TTA TTA CTA TTA TTA TTA CCA TCA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
72151206 TTA TTA TTT TTA CTA CTA CTA CTA CTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
72151254 TCA TTA TTA TT
1 TTA TTA TTA TT
72151265 GTCATTTTTA
Statistics
Matches: 251, Mismatches: 72, Indels: 18
0.74 0.21 0.05
Matches are distributed among these distances:
2 9 0.04
3 227 0.90
4 15 0.06
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:72151048 original size:73 final size:72
Alignment explanation
Indices: 72150963--72151147 Score: 162
Period size: 73 Copynumber: 2.5 Consensus size: 72
72150953 AAATTAATTA
* * * * *
72150963 ATTACTATTATTAATATTTTTATTATTACTATTATTATTATTATT-CCTT-TTACTATTATTA-T
1 ATTATTATTATTAATATTTTTATTATTACTATTATTATTACTATTACATTAGTACTATTATCATT
72151025 TTATTATCAAT
66 TTATT-T---T
* * * ** *
72151036 ATTATTATTATTACTATTATTACTATTTTTATTTTTATTACTATTAACATTAGTACTATTATCAT
1 ATTATTATTATTAATATTTTTATTATTACTATTATTATTACTATT-ACATTAGTACTATTATCAT
72151101 TTTATTTT
65 TTTATTTT
* * *
72151109 ATTATTATTATT-ATCATTTTTGTAATTACTATTACTATT
1 ATTATTATTATTAAT-ATTTTTATTATTACTATTATTATT
72151148 TTTTTTACTA
Statistics
Matches: 87, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
72 1 0.01
73 66 0.76
75 3 0.03
76 11 0.13
77 6 0.07
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (72 bp):
ATTATTATTATTAATATTTTTATTATTACTATTATTATTACTATTACATTAGTACTATTATCATT
TTATTTT
Found at i:72151282 original size:14 final size:16
Alignment explanation
Indices: 72151257--72151290 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
72151247 ATTATTATCA
72151257 TTATTATTGTCAT-TT
1 TTATTATTGTCATATT
72151272 TTATT-TTGTCATATT
1 TTATTATTGTCATATT
72151287 TTAT
1 TTAT
72151291 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTATTGTCATATT
Found at i:72156666 original size:35 final size:35
Alignment explanation
Indices: 72156627--72156694 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
72156617 GTGTCTCCTT
*
72156627 GAAGGGCCTATAAACCGTTCACATAGTGTCACCCC
1 GAAGGACCTATAAACCGTTCACATAGTGTCACCCC
* * *
72156662 GAAGGACCTATAAATCGTTTACATGGTGTCACC
1 GAAGGACCTATAAACCGTTCACATAGTGTCACC
72156695 TTGAATGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (35 bp):
GAAGGACCTATAAACCGTTCACATAGTGTCACCCC
Found at i:72161219 original size:20 final size:20
Alignment explanation
Indices: 72161173--72161212 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
72161163 AGGGGCACAC
*
72161173 GCCCTTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
72161193 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
72161213 AGCCGTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.30, G:0.38, T:0.23
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:72164254 original size:16 final size:16
Alignment explanation
Indices: 72164233--72164268 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
72164223 TAACTCAGGA
72164233 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
72164249 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
72164265 GCTG
1 GCTG
72164269 TGATTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (16 bp):
GCTGCAGGAGTACATG
Found at i:72165095 original size:66 final size:65
Alignment explanation
Indices: 72165024--72165233 Score: 180
Period size: 66 Copynumber: 3.4 Consensus size: 65
72165014 AATATATTTA
* *
72165024 ATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 ATATTAATTATTTAAAATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
** * *
72165089 ACTATTAATTA-TTAAGAATTTTATTAAATTGTAT-AT-T-TTA--A-TT-A-T-AATAT-ATTT
1 A-TATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAAT-TCATAT
*
72165143 AAT
63 AAG
* *
72165146 A-ATT-ATTATTT-TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 ATATTAATTATTTAAAATTT-TATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
72165208 G
65 G
72165209 AATATTAATTA-TTAAGAATTTTATT
1 -ATATTAATTATTTAA-AATTTTATT
72165234 AAATTATATA
Statistics
Matches: 110, Mismatches: 15, Indels: 39
0.67 0.09 0.24
Matches are distributed among these distances:
53 5 0.05
54 13 0.12
55 7 0.06
56 1 0.01
57 12 0.11
58 2 0.02
59 2 0.02
60 4 0.04
61 2 0.02
62 2 0.02
63 11 0.10
64 2 0.02
65 11 0.10
66 31 0.28
67 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (65 bp):
ATATTAATTATTTAAAATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:72165111 original size:120 final size:120
Alignment explanation
Indices: 72164985--72165274 Score: 476
Period size: 120 Copynumber: 2.4 Consensus size: 120
72164975 AATTATTTTA
* *
72164985 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
72165049 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
72165105 AATTTTATTAAATTGTATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
72165169 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
72165225 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
72165275 GTTTAAATAT
Statistics
Matches: 157, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 7 0.04
120 147 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:72165141 original size:16 final size:16
Alignment explanation
Indices: 72165120--72165161 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
72165110 TATTAAATTG
72165120 TATATTTTAATTATAA
1 TATATTTTAATTATAA
* *
72165136 TATA-TTTAATAATTA
1 TATATTTTAATTATAA
72165151 T-TATTTTAATT
1 TATATTTTAATT
72165162 TATATTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 2 0.09
15 16 0.73
16 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTTAATTATAA
Found at i:72165254 original size:18 final size:17
Alignment explanation
Indices: 72165226--72165260 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
72165216 ATTATTAAGA
*
72165226 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
72165243 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
72165261 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:72165374 original size:147 final size:149
Alignment explanation
Indices: 72165214--72165488 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
72165204 ATAAGAATAT
*
72165214 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
72165279 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
72165342 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
72165361 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
72165426 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
72165489 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:72165401 original size:18 final size:17
Alignment explanation
Indices: 72165373--72165407 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
72165363 ATTATTAAGA
*
72165373 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
72165390 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
72165408 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:72165618 original size:44 final size:45
Alignment explanation
Indices: 72165569--72165663 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
72165559 TTACACCTCT
* * *
72165569 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
72165613 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
72165658 ATTACA
1 ATTACA
72165664 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:72165663 original size:16 final size:16
Alignment explanation
Indices: 72165644--72165695 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
72165634 GATTTGCTAT
* * *
72165644 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
72165660 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
72165676 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
72165692 TACA
1 TACA
72165696 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:72166858 original size:3 final size:3
Alignment explanation
Indices: 72166850--72166876 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
72166840 CTATCTCAAT
72166850 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
72166877 GTAAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:72174309 original size:156 final size:154
Alignment explanation
Indices: 72173927--72174387 Score: 576
Period size: 156 Copynumber: 2.9 Consensus size: 154
72173917 TATTTTTTTT
*
72173927 AAAAA-GAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATTTTAAAGGAAAATT
1 AAAAAGGAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATTTTAAAGG-AAAGT
* *
72173991 TTAAATTTTAAATTTTAAAACAAAGTTTTGATTTTTCTTCAACTATTTC-AATATAAAAGCTTTA
65 TT--A----AAATTTTAAAACAAA-TTTTGATTTTT-TTCAACTATTTCGAA-ATAAAAGTTTTG
*
72174055 ATCTTTAAGAAAAGTAGCGA-TTTTTTTAAAGAAA
121 ATCTTTAAG-AAAGTAGTGATTTTTTTTAAAGAAA
* * * *
72174089 AAAAGAGAGAAAAAGTTTAGATTTTAAAAATAAAAATATATATTTTTATTTATTTTAAAGGAAAG
1 AAAA-AG-GAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATTTTAAAGGAAAG
*
72174154 TTTAAAATTTTAAAACAATTTTTTGATTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTA
64 TTTAAAATTTTAAAACAA-ATTTTGATTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTA
72174219 AGAAAGTAGTGATTTTTTTTAAAAGAAA
128 AGAAAGTAGTGATTTTTTTT-AAAGAAA
* *
72174247 AAAAAGGAGAAAGTTTAGATTTTAAAAA-ATAAAATATGTTTTTTTAGTCATTTTAAAAGAAAGT
1 AAAAAGGAGAAAGTTTAGATTTTAAAAATA-AAAATATATTTTTTTAGTCATTTTAAAGGAAAGT
** *
72174311 TTAAAA-TTTAAAA-AAAAATTGATTTTTTTTCAATTATTTCGAAAT-AAAGTTTTGATCTTTAA
65 TTAAAATTTTAAAACAAATTTTGA-TTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTT-A
*
72174373 AAAAAGTAGTGATTT
128 AGAAAGTAGTGATTT
72174388 AAAAAAAAAC
Statistics
Matches: 269, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
153 19 0.07
154 38 0.14
155 8 0.03
156 65 0.24
157 40 0.15
158 38 0.14
162 5 0.02
163 1 0.00
164 6 0.02
165 49 0.18
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (154 bp):
AAAAAGGAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATTTTAAAGGAAAGTT
TAAAATTTTAAAACAAATTTTGATTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGA
AAGTAGTGATTTTTTTTAAAGAAA
Found at i:72178300 original size:41 final size:42
Alignment explanation
Indices: 72178255--72178349 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 42
72178245 AAACATAAAA
* **
72178255 CAAAGATAATATTATCT-AATAAAAGTTGAAAAG-TCCAAACC
1 CAAAGACAATATTATCTAAAT-AAAGTCCAAAAGCTCCAAACC
* *
72178296 CAAAGACAATTTTGTCTAAATAAAGTCCAAAAGCTCCAAACC
1 CAAAGACAATATTATCTAAATAAAGTCCAAAAGCTCCAAACC
72178338 CACAA-ACAATAT
1 CA-AAGACAATAT
72178350 GGAAACCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 24 0.53
42 19 0.42
43 2 0.04
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.22
Consensus pattern (42 bp):
CAAAGACAATATTATCTAAATAAAGTCCAAAAGCTCCAAACC
Found at i:72179537 original size:33 final size:33
Alignment explanation
Indices: 72179495--72179590 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 33
72179485 TCAAATCTAG
* *
72179495 TTCCCCCAAACCATACCTGTTAGTTTACTTCAC
1 TTCCCCCAAAGCATACCTATTAGTTTACTTCAC
* *
72179528 TTCCCCCAAAGCATTCTTATTAGTTTACTTCAC
1 TTCCCCCAAAGCATACCTATTAGTTTACTTCAC
* *
72179561 TTCCCCCAAAGAATGCCTATTAGTTTACTT
1 TTCCCCCAAAGCATACCTATTAGTTTACTT
72179591 TACTATTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.25, C:0.31, G:0.07, T:0.36
Consensus pattern (33 bp):
TTCCCCCAAAGCATACCTATTAGTTTACTTCAC
Found at i:72196915 original size:21 final size:22
Alignment explanation
Indices: 72196889--72196940 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
72196879 AAAAAATTAA
*
72196889 TATTATTTT-CTCCCTAT-TTGC
1 TATTATTTTACT-ACTATATTGC
*
72196910 TATTATTTTACTATTATATTGC
1 TATTATTTTACTACTATATTGC
72196932 TATTATTTT
1 TATTATTTT
72196941 GTTGTTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTATTTTACTACTATATTGC
Found at i:72197018 original size:30 final size:30
Alignment explanation
Indices: 72196982--72197042 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
72196972 ATTTTATTGT
*
72196982 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
72197012 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
72197042 T
1 T
72197043 TGTTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:72197200 original size:12 final size:12
Alignment explanation
Indices: 72197165--72197202 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
72197155 ATATATATAT
*
72197165 ATATTAAAATT-
1 ATATAAAAATTA
72197176 ATATAAAAA-TA
1 ATATAAAAATTA
72197187 ATATAAAAATTA
1 ATATAAAAATTA
72197199 ATAT
1 ATAT
72197203 GGGCGGGTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:72198139 original size:23 final size:25
Alignment explanation
Indices: 72198113--72198159 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
72198103 TATCATTCAT
*
72198113 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
72198136 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
72198160 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:72198472 original size:46 final size:46
Alignment explanation
Indices: 72198420--72198720 Score: 359
Period size: 46 Copynumber: 6.7 Consensus size: 46
72198410 TTTGACGTGA
* * * * ** * *
72198420 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** * * *
72198466 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
72198512 TGCCATGGTATCTTTCAACCAAT-GTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACC-ATGGTCTTACACATTTCATATCAGGT
*
72198558 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
72198604 TGCCATGGTATCTTTCAACCATAGT-TT-TACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
72198642 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
72198688 TGCCATGGAATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
72198721 CAGTGTAATA
Statistics
Matches: 226, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
38 29 0.13
39 3 0.01
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 179 0.79
47 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:72198650 original size:38 final size:38
Alignment explanation
Indices: 72198599--72198723 Score: 142
Period size: 38 Copynumber: 3.1 Consensus size: 38
72198589 CATTTCATAT
*
72198599 CAGGTTGCCATGGTATCTTTCAACCATAGTTTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
*
72198637 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATAGTCTT--ACA---C--A
* *
72198682 TCAGGTTGCCATGGAATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
72198721 CAG
1 CAG
72198724 TGTAATACCC
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
38 34 0.45
39 1 0.01
40 3 0.04
41 1 0.01
43 1 0.01
44 3 0.04
45 1 0.01
46 32 0.42
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
Found at i:72198694 original size:84 final size:84
Alignment explanation
Indices: 72198553--72198723 Score: 306
Period size: 84 Copynumber: 2.0 Consensus size: 84
72198543 CATCTCATAT
*
72198553 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGAATCTT
*
72198618 TCAACCATAGTTTTACACA
66 TCAACCATAGTCTTACACA
*
72198637 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGAATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGAATCTT
*
72198702 TCAACCATGGTCTTACACA
66 TCAACCATAGTCTTACACA
72198721 CAG
1 CAG
72198724 TGTAATACCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGAATCTT
TCAACCATAGTCTTACACA
Found at i:72215505 original size:15 final size:17
Alignment explanation
Indices: 72215476--72215507 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
72215466 AAGTTATGCA
72215476 AAAAAATAATATAATAT
1 AAAAAATAATATAATAT
72215493 AAAAAA-AAT-TAATAT
1 AAAAAATAATATAATAT
72215508 GGACGGGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATAATATAATAT
Found at i:72219166 original size:32 final size:32
Alignment explanation
Indices: 72219130--72219193 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
72219120 CTTACTTTCC
*
72219130 ATAGAAGATATATTTACCTCTTGTGCTTTTAT
1 ATAGAAGATATATTTACCTCTTGTGCTCTTAT
72219162 ATAGAAGATATATTTACCTCTTGTGCTCTTAT
1 ATAGAAGATATATTTACCTCTTGTGCTCTTAT
72219194 TGGGTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.45
Consensus pattern (32 bp):
ATAGAAGATATATTTACCTCTTGTGCTCTTAT
Found at i:72221372 original size:50 final size:49
Alignment explanation
Indices: 72221292--72221572 Score: 248
Period size: 48 Copynumber: 5.8 Consensus size: 49
72221282 AAGGGTAAAA
* *
72221292 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATC-G
* * * *
72221342 TGCCGATGCCATGTTCCAAACATGGCCTTACACTAGC-C-CACATGTCG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCG
* * * *
72221389 AAGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATATATCGG
1 -TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATC-G
* * * * * *
72221440 TGCTGATGCTATGTTCCAAACATGATCTTACACTAGC-C-CACATGTCG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCG
** * * * **
72221487 AAACTGATGCCATGTCCCAGACACGGTCTTACACTAGCTCTCATATA-AA
1 -TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCG
* * * *
72221536 TGTCGATGGCATGTTCGAAACATGGTCTTACACTAGC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
72221573 CCACATAACC
Statistics
Matches: 180, Mismatches: 44, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
47 2 0.01
48 101 0.56
49 4 0.02
50 72 0.40
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCG
Found at i:72221470 original size:98 final size:96
Alignment explanation
Indices: 72221297--72221578 Score: 406
Period size: 98 Copynumber: 2.9 Consensus size: 96
72221287 TAAAATGCCA
72221297 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTG-CGATG-CATGTTCCAAA
* *
72221362 CATGGCCTTACACTAGCCCACATGTCGAAGCCG
64 CATGGTCTTACACTAGCCCACATGTCGAAACCG
* * *
72221395 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCTATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGC-GATGC-ATGTTCCAAA
* *
72221460 CATGATCTTACACTAGCCCACATGTCGAAACTG
64 CATGGTCTTACACTAGCCCACATGTCGAAACCG
* * *
72221493 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCTCATATA--AATGTCGATGGCATGTTCGAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTG-CGAT-GCATGTTCCAAA
72221556 CATGGTCTTACACTAGCCCACAT
64 CATGGTCTTACACTAGCCCACAT
72221579 AACCCTAGTA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
96 36 0.22
97 5 0.03
98 125 0.75
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCGATGCATGTTCCAAACA
TGGTCTTACACTAGCCCACATGTCGAAACCG
Found at i:72222417 original size:3 final size:3
Alignment explanation
Indices: 72222409--72222455 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
72222399 AGATATTTAC
72222409 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
72222453 TTA
1 TTA
72222456 ATTGAGATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:72222605 original size:16 final size:16
Alignment explanation
Indices: 72222581--72222611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72222571 TAAGTAAATA
*
72222581 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
72222597 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
72222612 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:72222680 original size:17 final size:17
Alignment explanation
Indices: 72222651--72222683 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72222641 AATCAAACGA
72222651 AATAGAAAGAAAGAAAG
1 AATAGAAAGAAAGAAAG
72222668 AATA-AAAGAAAAGAAA
1 AATAGAAAG-AAAGAAA
72222684 AAGGAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
AATAGAAAGAAAGAAAG
Found at i:72223432 original size:28 final size:27
Alignment explanation
Indices: 72223378--72223432 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
72223368 GTATACATGT
*
72223378 GTGAAATTGAATTGTATAATGATTTGTG
1 GTGAAATTGAATTGTAT-ATGAATTGTG
72223406 GTGAAATTGAAATTGTGAT-TGAATTGT
1 GTGAAATTG-AATTGT-ATATGAATTGT
72223433 TATTGCGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 16 0.67
29 6 0.25
30 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (27 bp):
GTGAAATTGAATTGTATATGAATTGTG
Found at i:72230174 original size:16 final size:16
Alignment explanation
Indices: 72230150--72230180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72230140 TAAGTAAATA
*
72230150 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
72230166 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
72230181 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:72230249 original size:17 final size:17
Alignment explanation
Indices: 72230220--72230252 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72230210 AATCAAACGA
72230220 AATAGAAAGAAAGAAAT
1 AATAGAAAGAAAGAAAT
72230237 AATA-AAAGAAAAGAAA
1 AATAGAAAG-AAAGAAA
72230253 AAGGAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (17 bp):
AATAGAAAGAAAGAAAT
Found at i:72231664 original size:13 final size:13
Alignment explanation
Indices: 72231629--72231664 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
72231619 GATAGTTTGA
*
72231629 TATGAATTTATATG
1 TATG-ATTTGTATG
72231643 TATGATTTGTATG
1 TATGATTTGTATG
72231656 TATGATTTG
1 TATGATTTG
72231665 CTAATTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (13 bp):
TATGATTTGTATG
Found at i:72233508 original size:10 final size:10
Alignment explanation
Indices: 72233493--72233547 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 10
72233483 TTTGCCCGCG
72233493 TATATATATA
1 TATATATATA
*
72233503 TATATATGTA
1 TATATATATA
72233513 -ATATA-ATA
1 TATATATATA
72233521 TA-ATATA-A
1 TATATATATA
72233529 TATA-ATATA
1 TATATATATA
72233538 -ATATA-ATA
1 TATATATATA
72233546 TA
1 TA
72233548 AAAAATCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
8 17 0.46
9 11 0.30
10 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
TATATATATA
Found at i:72233521 original size:5 final size:5
Alignment explanation
Indices: 72233496--72233548 Score: 79
Period size: 5 Copynumber: 10.2 Consensus size: 5
72233486 GCCCGCGTAT
*
72233496 ATATA TATATA TATGTA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA -ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
72233548 A
1 A
72233549 AAAATCCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 35 0.78
6 10 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
ATATA
Done.