Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 295 of 325
Found at i:96249987 original size:26 final size:26
Alignment explanation
Indices: 96249957--96250007 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
96249947 ACCAATGAAC
*
96249957 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
96249983 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
96250008 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:96250042 original size:104 final size:105
Alignment explanation
Indices: 96249819--96250086 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
96249809 TAACCGTTAT
* **
96249819 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
96249884 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
96249924 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
96249987 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
96250028 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
96250087 TTATATACAA
Statistics
Matches: 153, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
104 97 0.63
105 56 0.37
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:96259005 original size:44 final size:44
Alignment explanation
Indices: 96258955--96259449 Score: 180
Period size: 44 Copynumber: 11.3 Consensus size: 44
96258945 TTTGCTCTGT
96258955 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
* * * * * * **
96258999 TACTGCTTAGGGGGATAAGGCTCACCGT--CTTCGATCC--ACTCCAC
1 TACTGCTTAGGGAGATAA-GAT--CTGTAATTTCCAGCCTGTTTCC-C
*
96259043 TACTGCTTA-GGAGATAAGATCTGTAATTTCCAGCTTGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
* * ** ***
96259086 TACTGCTTAAGGG-GATAAGGCTCACCGT--TTT-C-GATTCACTCCAC
1 TACTGCTT-AGGGAGATAA-GAT--CTGTAATTTCCAGCCTGTTTCC-C
* * * *
96259130 TACTGCTTAGGGAAATAAGATCTGTAATTTTCAGTCTGTTTCCT
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
* * * * * *** * * * *
96259174 TACTGTTTAGGGGGTTAAG-GCT-CACCGTCCTCGATCTGCTTCAC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCC-AG-CCTGTTTCCC
* * *
96259218 TACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
* * * * *** * * ** *
96259262 TACTGCTTAGGGGGTTAAG-GCT-CACCGTCCTCGATCTACTTCAC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCC-AG-CCTGTTTCCC
*
96259306 TACTACTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
* * * * * * * * *
96259350 TACTGTTTAGGGGGTTAAAGCTCACCGT-CTTT-GATCC-G-CTCCAC
1 TACTGCTTAGGGAGAT-AAGAT--CTGTAATTTCCAGCCTGTTTCC-C
* *
96259394 TACCGCTTAGGGAGATAAGATCTGTAATTTCCAGCTTGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
96259438 TACTGCTTAGGG
1 TACTGCTTAGGG
96259450 GAATAAGGCT
Statistics
Matches: 307, Mismatches: 109, Indels: 70
0.63 0.22 0.14
Matches are distributed among these distances:
40 3 0.01
41 6 0.02
42 16 0.05
43 49 0.16
44 178 0.58
45 36 0.12
46 10 0.03
47 9 0.03
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (44 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
Found at i:96259178 original size:88 final size:88
Alignment explanation
Indices: 96258955--96259637 Score: 852
Period size: 88 Copynumber: 7.8 Consensus size: 88
96258945 TTTGCTCTGT
96258955 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
*
96259020 TCACCGTCTTCGATCCACTCCAC
66 TCACCGTCTTCGATCTACTCCAC
* *
96259043 TACTGCTTA-GGAGATAAGATCTGTAATTTCCAGCTTGTTTCCCTACTGCTTAAGGGGATAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
*
96259107 TCACCGTTTTCGAT-TCACTCCAC
66 TCACCGTCTTCGATCT-ACTCCAC
* * * * * *
96259130 TACTGCTTAGGGAAATAAGATCTGTAATTTTCAGTCTGTTTCCTTACTGTTTAGGGGGTTAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* * *
96259195 TCACCGTCCTCGATCTGCTTCAC
66 TCACCGTCTTCGATCTACTCCAC
* * * *
96259218 TACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* *
96259283 TCACCGTCCTCGATCTACTTCAC
66 TCACCGTCTTCGATCTACTCCAC
* * * *
96259306 TACTACTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGTTTAGGGGGTTAAAGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* **
96259371 TCACCGTCTTTGATCCGCTCCAC
66 TCACCGTCTTCGATCTACTCCAC
* * *
96259394 TACCGCTTAGGGAGATAAGATCTGTAATTTCCAGCTTGTTTCCCTACTGCTTAGGGGAATAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* * *
96259459 TCACAGTCTTCAACCTACTCCAC
66 TCACCGTCTTCGATCTACTCCAC
* * ** * * ** *
96259482 TACTGCTTAGGGAGATAGGGTGGTCTGTCGTTTTCAGCCCGTTTCCCTACTATTTAAGGGGATAA
1 TACTGCTTAGGGAGATA---AGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
* *
96259547 GGCTCACCGTCTTCGATCTGCTCCTC
63 GGCTCACCGTCTTCGATCTACTCCAC
* ** * * *
96259573 TACTGCTTAGGGAGATAAGATCTATAATTTTTAACATG--TCCTCTACTACTTAGGGGGATAAGG
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCC-CTACTGCTTAGGGGGATAAGG
96259636 CT
65 CT
96259638 AGTGAATTCT
Statistics
Matches: 515, Mismatches: 73, Indels: 15
0.85 0.12 0.02
Matches are distributed among these distances:
86 3 0.01
87 103 0.20
88 336 0.65
89 1 0.00
91 72 0.14
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
TCACCGTCTTCGATCTACTCCAC
Found at i:96264071 original size:25 final size:25
Alignment explanation
Indices: 96264037--96264088 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
96264027 TAGAGACATA
96264037 AATTTAAATGAAAATAATATTGACT
1 AATTTAAATGAAAATAATATTGACT
*
96264062 AATTTAAATGAAAATAATATTGGCT
1 AATTTAAATGAAAATAATATTGACT
96264087 AA
1 AA
96264089 CTTACTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.35
Consensus pattern (25 bp):
AATTTAAATGAAAATAATATTGACT
Found at i:96266753 original size:19 final size:19
Alignment explanation
Indices: 96266718--96266756 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
96266708 AAACTTTTAA
*
96266718 TATTTTATGTTATAAAAAT
1 TATTTTATATTATAAAAAT
96266737 TATTTTATATGTA-AAAAAT
1 TATTTTATAT-TATAAAAAT
96266756 T
1 T
96266757 TAATTCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTTATATTATAAAAAT
Found at i:96271822 original size:12 final size:11
Alignment explanation
Indices: 96271801--96271833 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
96271791 TATTGGTTGA
96271801 GCCATGATGAT
1 GCCATGATGAT
96271812 GCCATTGATGAT
1 GCCA-TGATGAT
96271824 GCCATGATGA
1 GCCATGATGA
96271834 CAAGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (11 bp):
GCCATGATGAT
Found at i:96273713 original size:19 final size:19
Alignment explanation
Indices: 96273678--96273714 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96273668 TTTTAAAAAA
* *
96273678 AATATTTTTATATATTTTC
1 AATATTTTTACAAATTTTC
96273697 AATATTTTTACAAATTTT
1 AATATTTTTACAAATTTT
96273715 AAATTATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATTTTTACAAATTTTC
Found at i:96287549 original size:257 final size:256
Alignment explanation
Indices: 96287087--96287593 Score: 746
Period size: 257 Copynumber: 2.0 Consensus size: 256
96287077 GACATAACTA
* *
96287087 GTGTAACAGCTCGATGTTGGGCCTAGTCGGAACAGTATTTCGGGACCACAAATCTGACGAGAAAA
1 GTGTAACAGCTCGATGTTGGGCCTAGTCGGAACAGTATTTCGAGACCACAAATCCGACGAG-AAA
*** * * *
96287152 AAAAATTATTTTTATTATATTTTATGGTCTACGGTTTCACGGAATGATTTCGTGGAAATTTCATT
65 AAAAATTATTTTTATTATATTTTATGGTCTAAAATTTCACGGAATAATTTCATGAAAATTTCATT
** *
96287217 CGAAAATTTTGACGTTTAGGCACTCAATTTAGTCAAAAAGACTAAATTGAAAAAAGTACAAAAGT
130 AAAAAATTTTGACGTTTAGGCACTCAATTTAGTCAAAAAGACTAAATCGAAAAAAGTACAAAAGT
* *
96287282 TGATTTCTACATGATAGAGGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTCCCTTAAAT
195 TAAGTTCTACATGATAGAGGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTCCCTTAAAT
* * * * * *
96287344 GTGTAACATCTTGATTTTGGGCCTAGTCGGAACAGTGGTTTCGAGATCACAAATCCGATGAG-AA
1 GTGTAACAGCTCGATGTTGGGCCTAGTCGGAACAGT-ATTTCGAGACCACAAATCCGACGAGAAA
* * *
96287408 AAAATTTATTTTTATTATATTTTTATGGTTTAAAATTTCACGGAATAATTTTATGAAAATTTCAT
65 AAAAATTATTTTTATTATA-TTTTATGGTCTAAAATTTCACGGAATAATTTCATGAAAATTTCAT
* * *
96287473 TAAAAAATTTTGACGTTTGGGCACTCAATTTAGTCAAAAGGACTAAATCGTAAAAAGTACAAAAG
129 TAAAAAATTTTGACGTTTAGGCACTCAATTTAGTCAAAAAGACTAAATCGAAAAAAGTACAAAAG
*
96287538 TTAAGTTCTACATGCTAGAGGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTCC
194 TTAAGTTCTACATGATAGAGGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTCC
96287594 TTATACGGTA
Statistics
Matches: 222, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
256 20 0.09
257 182 0.82
258 20 0.09
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (256 bp):
GTGTAACAGCTCGATGTTGGGCCTAGTCGGAACAGTATTTCGAGACCACAAATCCGACGAGAAAA
AAAATTATTTTTATTATATTTTATGGTCTAAAATTTCACGGAATAATTTCATGAAAATTTCATTA
AAAAATTTTGACGTTTAGGCACTCAATTTAGTCAAAAAGACTAAATCGAAAAAAGTACAAAAGTT
AAGTTCTACATGATAGAGGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTCCCTTAAAT
Found at i:96291961 original size:28 final size:28
Alignment explanation
Indices: 96291928--96292026 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
96291918 TATCTAAGAT
*
96291928 ATGACATTGTGCTAAGTGAAATAAGACC
1 ATGACATTGTGCTAAGTGAAATAAGTCC
*
96291956 ATGACA---T-CTAAGTGAAATAAGTCT
1 ATGACATTGTGCTAAGTGAAATAAGTCC
*
96291980 ATGACAATGTGCTAAGTGAAATAAGTCC
1 ATGACATTGTGCTAAGTGAAATAAGTCC
96292008 AT-AGCATTGTGCTAAGTGA
1 ATGA-CATTGTGCTAAGTGA
96292027 GAAATTTCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
24 21 0.34
25 1 0.02
27 2 0.03
28 38 0.61
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (28 bp):
ATGACATTGTGCTAAGTGAAATAAGTCC
Found at i:96292145 original size:51 final size:51
Alignment explanation
Indices: 96292050--96292303 Score: 393
Period size: 51 Copynumber: 4.9 Consensus size: 51
96292040 TGAACCTTAG
*
96292050 GAATAAAATAGCTTTGGACACATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGG--AC--ACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
96292105 GAATATAATAGCTTTGGACACAAGTGTGGTTCTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
96292156 GAATATAATAGCTTTGGACACAAGTGTGGTACTATTTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
96292207 GAATATAATAGCTTTGGACATAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
96292258 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATATAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
96292304 CGCGTATCCG
Statistics
Matches: 188, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
50 1 0.01
51 169 0.90
53 2 0.01
55 16 0.09
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (51 bp):
GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:96295436 original size:32 final size:32
Alignment explanation
Indices: 96295400--96295501 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
96295390 TAAGAGTATG
96295400 AAATGAACTTGATATTCAAATGGTAAGTTATT
1 AAATGAACTTGATATTCAAATGGTAAGTTATT
* * * * *
96295432 AAATGAA--T-A-ATTGAGAAATTGAAAGAGTATG
1 AAATGAACTTGATATT--CAAATGGTAAG-TTATT
96295463 AAATGAACTTGATATTCAAATGGTAAGTTATT
1 AAATGAACTTGATATTCAAATGGTAAGTTATT
96295495 AAATGAA
1 AAATGAA
96295502 TCGTGTAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 9 0.17
31 10 0.19
32 17 0.32
33 9 0.17
34 1 0.02
35 3 0.06
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (32 bp):
AAATGAACTTGATATTCAAATGGTAAGTTATT
Found at i:96295476 original size:63 final size:63
Alignment explanation
Indices: 96295377--96295502 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
96295367 ATTTATATGA
*
96295377 AATTGAGAAATTGTAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
1 AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
96295440 AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
1 AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
96295503 CGTGTAAGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (63 bp):
AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
Found at i:96299312 original size:50 final size:50
Alignment explanation
Indices: 96299237--96299413 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
96299227 CCATGGCAAC
96299237 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
96299287 AAGTGATAAGTAATAGCTTCGGCTACATTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
96299337 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGGTCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
96299387 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
96299414 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 92 0.81
51 22 0.19
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:96299506 original size:31 final size:31
Alignment explanation
Indices: 96299389--96299498 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
96299379 ACAAATGACA
* *
96299389 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
96299420 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
96299451 AGTGAAAAATGATAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
96299482 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
96299499 TCAGCTACAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:96299676 original size:49 final size:48
Alignment explanation
Indices: 96299606--96299711 Score: 167
Period size: 49 Copynumber: 2.2 Consensus size: 48
96299596 GCATCAGTGA
*
96299606 GATATGTGATTCGTGTAAGACCATAGATAGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGATAGGCTATGGCATCGATATAT
* *
96299654 GATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGATAGGCTATGGCATCGATATAT
96299703 GAATATGTG
1 G-ATATGTG
96299712 TAAGACCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.66
50 7 0.13
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.32
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGATAGGCTATGGCATCGATATAT
Found at i:96299713 original size:42 final size:42
Alignment explanation
Indices: 96299667--96299778 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
96299657 ATGTGATTAC
*
96299667 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATATGAAGAT
* * * *
96299709 GTGTAAGACCATAGCTGGGCCATGACATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
**
96299751 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGTTGGGCTATGGCAT
96299779 TGAGAAAACG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
Found at i:96303224 original size:46 final size:46
Alignment explanation
Indices: 96303171--96303293 Score: 228
Period size: 46 Copynumber: 2.7 Consensus size: 46
96303161 CATATTTCAT
*
96303171 GGTCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTTGA
1 GGTCGATGCATGTCCCAGACATGTCTTACACAAGCTTACATCTTGA
96303217 GGTCGATGCATGTCCCAGACATGTCTTACACAAGCTTACATCTTGA
1 GGTCGATGCATGTCCCAGACATGTCTTACACAAGCTTACATCTTGA
*
96303263 GGTCGATGCATGTCCTAGACATGTCTTACAC
1 GGTCGATGCATGTCCCAGACATGTCTTACAC
96303294 TGGCACTCGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (46 bp):
GGTCGATGCATGTCCCAGACATGTCTTACACAAGCTTACATCTTGA
Found at i:96310863 original size:21 final size:21
Alignment explanation
Indices: 96310837--96310888 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
96310827 TACCGCTGCT
*
96310837 TCTAATCTCACCGCTATAGTA
1 TCTAATCTCACCGCTACAGTA
*
96310858 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
96310879 TCAAATCTCA
1 TCTAATCTCA
96310889 TTGCCACCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:96314543 original size:27 final size:27
Alignment explanation
Indices: 96314513--96314572 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
96314503 TAAAATAATT
*
96314513 TAAAAAGAAAATTTTAAATAAATGA-TA
1 TAAAAAGAAAATTTAAAATAAAT-ACTA
* * *
96314540 TAAAAAGTAAGTTTAAAATAGATACTA
1 TAAAAAGAAAATTTAAAATAAATACTA
96314567 TAAAAA
1 TAAAAA
96314573 AGCCATTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAAAAGAAAATTTAAAATAAATACTA
Found at i:96314844 original size:24 final size:25
Alignment explanation
Indices: 96314786--96314882 Score: 81
Period size: 26 Copynumber: 3.9 Consensus size: 25
96314776 ATATGAGATC
* *
96314786 TTAAAATAAATATTA-ATAAAATAG
1 TTAAAATAAATAGTATATAAAAGAG
* *
96314810 TATAAACTAAATAGCATATAAAAGA-
1 T-TAAAATAAATAGTATATAAAAGAG
* * *
96314835 TTAAAATAAACAGTATATAAAACAAC
1 TTAAAATAAATAGTATATAAAA-GAG
* *
96314861 ATAAAATAAATAATATATAAAA
1 TTAAAATAAATAGTATATAAAA
96314883 TAATTTGAAG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.33
25 13 0.22
26 26 0.45
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (25 bp):
TTAAAATAAATAGTATATAAAAGAG
Found at i:96317247 original size:22 final size:22
Alignment explanation
Indices: 96317221--96317262 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
96317211 TATTAAAATG
96317221 TATATTTT-TAATTGACATTTTA
1 TATATTTTATAATT-ACATTTTA
96317243 TATATTTTATAATTACATTT
1 TATATTTTATAATTACATTT
96317263 CAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TATATTTTATAATTACATTTTA
Found at i:96318479 original size:11 final size:11
Alignment explanation
Indices: 96318465--96318504 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
96318455 GTTTTCTCCC
96318465 TATTTTGCTAT
1 TATTTTGCTAT
*
96318476 TATTTTACTAT
1 TATTTTGCTAT
**
96318487 TACGTTGCTAT
1 TATTTTGCTAT
96318498 TATTTTG
1 TATTTTG
96318505 TTGTTATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:96318708 original size:18 final size:18
Alignment explanation
Indices: 96318687--96318726 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
96318677 GAAATATTTA
*
96318687 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
96318705 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
96318723 TTTT
1 TTTT
96318727 TAAAAGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:96318751 original size:12 final size:12
Alignment explanation
Indices: 96318734--96318761 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
96318724 TTTTAAAAGT
96318734 ATATAAAAATTA
1 ATATAAAAATTA
96318746 ATATAAAAATTA
1 ATATAAAAATTA
96318758 ATAT
1 ATAT
96318762 GGGCGGGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:96325479 original size:2 final size:2
Alignment explanation
Indices: 96325472--96325498 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96325462 TAACAACTTA
96325472 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
96325499 AGAAATTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96328360 original size:17 final size:19
Alignment explanation
Indices: 96328325--96328361 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
96328315 GAATCTTGTC
96328325 AAGAATTAAGAAAAAGTAA
1 AAGAATTAAGAAAAAGTAA
*
96328344 AAGAA-TAA-AAAAGGTAA
1 AAGAATTAAGAAAAAGTAA
96328361 A
1 A
96328362 GATTTTGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (19 bp):
AAGAATTAAGAAAAAGTAA
Found at i:96331707 original size:1 final size:1
Alignment explanation
Indices: 96331701--96331729 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
96331691 AGTTACTTCC
96331701 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
96331730 ACTTTTGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:96332038 original size:20 final size:20
Alignment explanation
Indices: 96331989--96332038 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
96331979 TTATGCTACA
96331989 TTAGTATTCTTATCTTGAATT
1 TTAGTATT-TTATCTTGAATT
* * *
96332010 TCAGGATTTTGTCTTGAATT
1 TTAGTATTTTATCTTGAATT
96332030 TTAGTATTT
1 TTAGTATTT
96332039 AAATTTGGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (20 bp):
TTAGTATTTTATCTTGAATT
Found at i:96334314 original size:11 final size:12
Alignment explanation
Indices: 96334298--96334333 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
96334288 AGAAAAAAAA
96334298 GAAGAGAG-AGG
1 GAAGAGAGAAGG
96334309 GAAGAGAGAAGG
1 GAAGAGAGAAGG
96334321 G-AGAGAGAAGG
1 GAAGAGAGAAGG
96334332 GA
1 GA
96334334 GGGGGAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:96334463 original size:18 final size:18
Alignment explanation
Indices: 96334436--96334488 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
96334426 AAGGTAAAAA
96334436 TTTATATTTTTATATTTT
1 TTTATATTTTTATATTTT
* *
96334454 TTTATTTTTTTGTATTTTCT
1 TTTATATTTTTATA-TTT-T
*
96334474 TTTATATTTTAATAT
1 TTTATATTTTTATAT
96334489 ATGTATAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 12 0.43
19 4 0.14
20 12 0.43
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTATATTTTTATATTTT
Found at i:96335341 original size:6 final size:6
Alignment explanation
Indices: 96335330--96335359 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
96335320 CCATTTAATT
96335330 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
96335360 ACAACCTAGG
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:96348335 original size:5 final size:5
Alignment explanation
Indices: 96348320--96348352 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
96348310 ATTTTGTGAA
96348320 AAAATT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAA
96348353 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:96352766 original size:5 final size:5
Alignment explanation
Indices: 96352756--96352787 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96352746 ATTTAAGAAA
96352756 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
96352788 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:96356071 original size:10 final size:11
Alignment explanation
Indices: 96356049--96356073 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96356039 AATATTTTGA
96356049 TTTTTGAATTT
1 TTTTTGAATTT
96356060 TTTTTGAATTT
1 TTTTTGAATTT
96356071 TTT
1 TTT
96356074 GTTGGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTGAATTT
Found at i:96372139 original size:72 final size:72
Alignment explanation
Indices: 96372022--96372159 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
96372012 GCCCCCCGAT
* *
96372022 GAGCCCGAGAAATTGTCATTGCCCGCAAAATCTGGATGATAAGAAGTATCAGCCGAAAGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
96372087 CAATGAC
66 CAATGAC
* * * ** *
96372094 GAGCCCGGGAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTTGAATGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
96372159 C
66 C
96372160 GATCGCTCGG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
CAATGAC
Found at i:96374247 original size:22 final size:21
Alignment explanation
Indices: 96374219--96374260 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
96374209 TAGTACATAA
96374219 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
96374241 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
96374261 TAAATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:96374311 original size:15 final size:14
Alignment explanation
Indices: 96374291--96374354 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
96374281 ACTTTATTCA
96374291 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
*
96374306 TATTTTTTAAAATATAT
1 TATTTTTT---CTATAT
* *
96374323 TA-TTTTCCTATTT
1 TATTTTTTCTATAT
96374336 TATTTTTT-TATAT
1 TATTTTTTCTATAT
96374349 TATTTT
1 TATTTT
96374355 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 8 0.21
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:96374416 original size:154 final size:148
Alignment explanation
Indices: 96374033--96374943 Score: 815
Period size: 154 Copynumber: 6.1 Consensus size: 148
96374023 ATAAGTAAAA
* * * *
96374033 TATTTTCGTATATTATTT-TTTATATTATTTTAG-CAAAAATGTTTTAAATG----TATTCTGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATATATTATGTA
* * *
96374092 AGTATTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTTCGT
66 AGTGTTTTTTATA-TATTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA-TTTTTTCGT
*
96374155 ATCTT-TTTTTT-AAATATAT
128 ATATTATTTTTTAAAATATAT
* * * * * * *
96374174 TACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATGTTT-TAA---ATATATT
1 TATTTTCGTA-T-TTTATTTCTTTATA---TTATTTTAGTAAAAAATGTTTCAAATGTATATATT
* ** * *
96374234 ATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTT
61 ATGTAAGTGTTTTTTATA-TATTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
96374299 CGTATATTATTTTTTAAAATATAT
125 CGTATATTATTTTTTAAAATATAT
* * *
96374323 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATG---TA--TATATT
* *
96374388 ATGTAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTTTTTCGTATTTTT
61 ATGTAAGTGTTTTTTATA-TATTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTT
* *
96374452 TTGTATCTTATTTTTTAAAATATAT
124 TCGTATATTATTTTTTAAAATATAT
* * * *
96374477 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTAT-TA-T-T-TC
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATATATTATGTA
* * *
96374538 AGTATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
66 AGTGTTTTTTATATATTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTCGTA
96374603 TATTATTTTTTAAAATATAT
129 TATTATTTTTTAAAATATAT
* * * ***
96374623 TATTTTCTTATTTT-CTTATTTATATTATTTTAG-AAAAAAAAATTCAAATGTAT-TA--AT-TA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATATATTATGTA
* * * *
96374682 ACTGTTTCTTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTT-GATACTTTCTTCGTAATT
66 AGTGTTT-TTTATA-T-A-----TTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A--
*
96374746 TTTTTATTTTCGTATATTATTTTTAAAAATATAT
119 ---TT-TTTTCGTATATTATTTTTTAAAATATAT
* * *
96374780 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTAT-TA-T-T-TA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATATATTATGTA
* *
96374841 GGTATTTTTTATATATTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
66 AGTGTTTTTTATATA-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTCGTA
96374906 TATTATTTTTTAAAATATAT
129 TATTATTTTTTAAAATATAT
96374926 TATTTT-GATATTTTATTT
1 TATTTTCG-TATTTTATTT
96374944 TAGCATAAAA
Statistics
Matches: 637, Mismatches: 85, Indels: 91
0.78 0.10 0.11
Matches are distributed among these distances:
141 9 0.01
142 1 0.00
143 9 0.01
144 28 0.04
145 84 0.13
146 100 0.16
147 77 0.12
148 19 0.03
149 17 0.03
150 1 0.00
151 30 0.05
152 39 0.06
153 2 0.00
154 129 0.20
156 4 0.01
157 41 0.06
158 23 0.04
159 24 0.04
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.55
Consensus pattern (148 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATATATTATGTA
AGTGTTTTTTATATATTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCGTATA
TTATTTTTTAAAATATAT
Found at i:96374694 original size:145 final size:144
Alignment explanation
Indices: 96374384--96375092 Score: 650
Period size: 146 Copynumber: 4.9 Consensus size: 144
96374374 GTATTATGTA
* * ** *
96374384 TATTATGTAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCGTATT
1 TATTATTTAAGTATTTTTTATA-TTTTTTAATAAATAACCCTGATTTTGACACTTTATTCGTATT
*
96374449 TTTTT-GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATT-TCTTCATATTATTTTAGT
65 TTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTAT-TT-ATATTATTTTAGT
* *
96374512 ACATAATGTTTCAAATG
128 AAAAAATGTTTCAAATG
* *
96374529 TATTATTTCAGTATTTTTTATATTTTTTCAATAAATATCCCTGATTTT-AGCACTTTATTCGTAT
1 TATTATTTAAGTATTTTTTATATTTTTT-AATAAATAACCCTGATTTTGA-CACTTTATTCGTAT
* *
96374593 TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCTTATTTTCTTATTTATATTATTTTAG-A
64 TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTATTTATATTATTTTAGTA
***
96374657 AAAAAAAATTCAAATG
129 AAAAATGTTTCAAATG
* * * *
96374673 TATTAATTAACTGT-TTCTTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTC
1 TATTATTTAA--GTATT-TTT-TA-T-A---TTTTTTAATAAATAACCCTGATTTTGACACTTTA
* *
96374737 TTCGTAATTTTTTTATTTTCGTATATTATTTTTAAAAATATATTATTTTCGTATTTTATTTCTTT
57 TTCGT-A----TTT-TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTA-TTATTT
* * *
96374802 ATATTATTTTAGTACATAATGCTTCAAATG
115 ATATTATTTTAGTAAAAAATGTTTCAAATG
*
96374832 TATTATTTAGGTATTTTTTATATATTTTTAATAAATAACCCTGATTTT-AGCACTTTATTCGTAT
1 TATTATTTAAGTATTTTTTATAT-TTTTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTAT
*
96374896 TTTTTTCGTATATTATTTTTTAAAATATATTATTTT-G------A-TA--T-T-TTATTTTAGCA
64 TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTATTTATATTATTTTAGTA
* *
96374949 TAAAATCTTTCAAATG
129 AAAAATGTTTCAAATG
* * * * * *
96374965 TATTATTTAAGT-TTTTTTATATTAATTTAATAAGTAA-CCTGACTTTGGCACCTTGTTCGTATT
1 TATTATTTAAGTATTTTTTATATT-TTTTAATAAATAACCCTGATTTTGACACTTTATTCGTA--
* * * * * *
96375028 TTTTTATTTTCGGATTTTATTTTTTTAATTATACTATTTTCATATTTTATT-TTTATATTATTTT
63 --TTT-TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTATTTATATTATTTT
96375092 A
125 A
96375093 ACAAAAAACT
Statistics
Matches: 465, Mismatches: 55, Indels: 86
0.77 0.09 0.14
Matches are distributed among these distances:
131 20 0.04
132 21 0.05
133 33 0.07
134 1 0.00
135 4 0.01
136 29 0.06
137 1 0.00
139 1 0.00
143 1 0.00
144 26 0.06
145 72 0.15
146 78 0.17
147 14 0.03
148 1 0.00
149 1 0.00
151 30 0.06
152 41 0.09
154 1 0.00
155 1 0.00
156 5 0.01
157 45 0.10
158 19 0.04
159 20 0.04
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (144 bp):
TATTATTTAAGTATTTTTTATATTTTTTAATAAATAACCCTGATTTTGACACTTTATTCGTATTT
TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTATTTATATTATTTTAGTAAA
AAATGTTTCAAATG
Found at i:96374834 original size:303 final size:294
Alignment explanation
Indices: 96374096--96374940 Score: 1048
Period size: 303 Copynumber: 2.8 Consensus size: 294
96374086 TCTGTAAGTA
* * *
96374096 TTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTT-TTCGTATTTTTTTCGTATCTT
1 TTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTT-GTATATT
* * * * *
96374160 -TTTTT-TAAATATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATGT
65 ATTTTTAAAAATATATTATTTTCGTA-T-TTTATTTCTTCATA---TTATTTTAGTACATAATGT
* * * **
96374222 TTTAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTA
125 TTCAAATGTATTATTT-AGTATTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTA
* * *
96374287 TTCATA-TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTA
188 TTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTACTTATTTATATTA
*** *
96374351 TTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTATGTAAGTG
253 TTTTAGCAAAAAAAAATTCAAATG--TTA-GTATA-TATGTAACTG
* *
96374397 TTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCGTATTTTTTTGTATCTTA
1 TTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTGTATATTA
*
96374462 TTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAA
66 TTTTTAAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAA
*
96374527 TGTATTATTTCAGTATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTA
131 TGTATTATTT-AGTATTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTA
*
96374592 TTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCTTATTTT-CTTATTTATATTATTTTAG
194 TTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTACTTATTTATATTATTTTAG
96374656 -AAAAAAAAATTCAAATG-TA-T-TA-AT-TAACTG
259 CAAAAAAAAATTCAAATGTTAGTATATATGTAACTG
* * *
96374686 TTTCTTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTT
1 TTT-TTTATACTAA------TTTAATAAATAACCCTGATTTTGACACTTTCTTCGT-A----TTT
*
96374751 ATTTTCGTATATTATTTTTAAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTA
54 -TTTT-GTATATTATTTTTAAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTA
*
96374816 CATAATGCTTCAAATGTATTATTTAGGTATTTTTTATATATTTTTAATAAATAACCCTGATTTTA
117 CATAATGTTTCAAATGTATTATTTA-GTATTTTTTATAT-TTTTTAATAAATAACCCTGATTTTA
**
96374881 GCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTGATATTTTA
180 GCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTA
96374941 TTTTAGCATA
Statistics
Matches: 488, Mismatches: 33, Indels: 43
0.87 0.06 0.08
Matches are distributed among these distances:
289 8 0.02
290 11 0.02
292 2 0.00
293 1 0.00
295 2 0.00
296 33 0.07
297 1 0.00
298 20 0.04
299 92 0.19
300 43 0.09
301 57 0.12
302 28 0.06
303 185 0.38
304 5 0.01
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.55
Consensus pattern (294 bp):
TTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTGTATATTA
TTTTTAAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAA
TGTATTATTTAGTATTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATT
TTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTACTTATTTATATTATTTTAGCA
AAAAAAAATTCAAATGTTAGTATATATGTAACTG
Found at i:96375550 original size:14 final size:14
Alignment explanation
Indices: 96375531--96375593 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
96375521 AAAAAATTAC
96375531 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
96375545 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
96375559 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
96375576 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
96375588 CTTTTT
1 CTTTTT
96375594 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:96375564 original size:17 final size:18
Alignment explanation
Indices: 96375542--96375588 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
96375532 TTTTTCTTTC
96375542 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
96375559 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
96375579 TTTCTTTTTC
1 CTTCTTTTTC
96375589 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:96375649 original size:3 final size:3
Alignment explanation
Indices: 96375631--96375697 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
96375621 CCTCCTCTCA
* * *
96375631 TTC TTT TTC TTTC TTC TTC TTC -TC TTC TTC -CC TTC TTC -CC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
96375674 TTC TCTC TTT TTC TTC TTC TTC TT
1 TTC T-TC TTC TTC TTC TTC TTC TT
96375698 TGCCGAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:96375658 original size:8 final size:8
Alignment explanation
Indices: 96375645--96375697 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
96375635 TTTTCTTTCT
96375645 TCTTCTTC
1 TCTTCTTC
96375653 TCTTCTTC
1 TCTTCTTC
*
96375661 CCTTCTTC
1 TCTTCTTC
*
96375669 CCTTCTTC
1 TCTTCTTC
96375677 TC-TCTT-
1 TCTTCTTC
96375683 T-TTCTTC
1 TCTTCTTC
96375690 TTCTTCTT
1 -TCTTCTT
96375698 TGCCGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 5 0.13
7 4 0.10
8 25 0.64
9 5 0.13
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (8 bp):
TCTTCTTC
Found at i:96375665 original size:16 final size:18
Alignment explanation
Indices: 96375625--96375696 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 18
96375615 CCTTCTCCTC
96375625 CTCTCATTCTT-T-TTCTT
1 CTCTC-TTCTTCTCTTCTT
96375642 -TCTTCTTCTTCTCTTCTT
1 CTC-TCTTCTTCTCTTCTT
*
96375660 C-C-CTTCTTCCCTTCTT
1 CTCTCTTCTTCTCTTCTT
*
96375676 CTCTCTTTTTCTTCTTCTT
1 CTCTCTTCTTC-TCTTCTT
96375695 CT
1 CT
96375697 TTGCCGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 21 0.47
17 4 0.09
18 12 0.27
19 8 0.18
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.62
Consensus pattern (18 bp):
CTCTCTTCTTCTCTTCTT
Found at i:96386602 original size:20 final size:20
Alignment explanation
Indices: 96386574--96386623 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
96386564 CCCAAAGGCT
* *
96386574 GGCCCCACGGCCATGTTCCA
1 GGCCACACGGCCATGTCCCA
* *
96386594 GGCCACACGGGCGTGTCCCA
1 GGCCACACGGCCATGTCCCA
96386614 GGCCACACGG
1 GGCCACACGG
96386624 GCTTGTGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.42, G:0.32, T:0.10
Consensus pattern (20 bp):
GGCCACACGGCCATGTCCCA
Found at i:96388529 original size:14 final size:13
Alignment explanation
Indices: 96388501--96388535 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
96388491 TTCACTAATC
*
96388501 CTCGATTTGCTAA
1 CTCGATTTACTAA
96388514 CTCGATTCTACTAA
1 CTCGATT-TACTAA
96388528 CTCGATTT
1 CTCGATTT
96388536 TTGAGATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (13 bp):
CTCGATTTACTAA
Found at i:96393496 original size:22 final size:21
Alignment explanation
Indices: 96393467--96393508 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
96393457 CTATACTTAT
96393467 AATTTCAAAT-AACACCATATA
1 AATTTCAAATCAACA-CATATA
96393488 AATTCTCAAATCAACACATAT
1 AATT-TCAAATCAACACATAT
96393509 CACATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (21 bp):
AATTTCAAATCAACACATATA
Found at i:96399756 original size:15 final size:16
Alignment explanation
Indices: 96399738--96399767 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96399728 AAGTAGGGGA
96399738 AGGAAAG-AAAGAAAG
1 AGGAAAGAAAAGAAAG
96399753 AGGAAAGAAAAGAAA
1 AGGAAAGAAAAGAAA
96399768 AAGGGAGAAT
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:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGGAAAGAAAAGAAAG
Found at i:96401245 original size:21 final size:21
Alignment explanation
Indices: 96401219--96401325 Score: 142
Period size: 21 Copynumber: 5.1 Consensus size: 21
96401209 GGCTTTATCG
* *
96401219 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
*
96401240 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
96401261 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
*
96401282 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* * * *
96401303 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
96401324 AT
1 AT
96401326 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:96401278 original size:42 final size:42
Alignment explanation
Indices: 96401219--96401325 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
96401209 GGCTTTATCG
96401219 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* *
96401261 ATCAGGCACCTTGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* *
96401303 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
96401326 ACTGATCAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:96414336 original size:93 final size:93
Alignment explanation
Indices: 96414224--96414395 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96414214 CGCCCATAAG
* *
96414224 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96414289 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
96414317 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96414382 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
96414396 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96414392 original size:46 final size:46
Alignment explanation
Indices: 96414217--96414392 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96414207 TGTAACCCGC
* * *
96414217 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
96414263 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96414313 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96414356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96414393 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96417525 original size:15 final size:16
Alignment explanation
Indices: 96417507--96417536 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96417497 AAGCAGGGGA
96417507 AGGAAAG-AAAGAAAG
1 AGGAAAGAAAAGAAAG
96417522 AGGAAAGAAAAGAAA
1 AGGAAAGAAAAGAAA
96417537 AAGGGAGAAT
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:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGGAAAGAAAAGAAAG
Found at i:96419013 original size:21 final size:21
Alignment explanation
Indices: 96418987--96419072 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
96418977 GGCTTTATCG
* *
96418987 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
96419008 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
96419029 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
96419050 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
96419071 AT
1 AT
96419073 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:96420017 original size:25 final size:25
Alignment explanation
Indices: 96419977--96420072 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
96419967 CCAAATAATA
* *
96419977 CGCCATAAAGGATTTCCAGAGAATT
1 CGCCACAAAGGCTTTCCAGAGAATT
* * *
96420002 CGCAACAAAGGCTTTCTAGAGAATA
1 CGCCACAAAGGCTTTCCAGAGAATT
* * *
96420027 CGCCGCAAAGGCTTTTCAGAGGATT
1 CGCCACAAAGGCTTTCCAGAGAATT
* *
96420052 TGCCACAAAGGCTTTCTAGAG
1 CGCCACAAAGGCTTTCCAGAG
96420073 TGGTGAAACA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
CGCCACAAAGGCTTTCCAGAGAATT
Found at i:96420030 original size:50 final size:50
Alignment explanation
Indices: 96419973--96420072 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
96419963 TTTCCCAAAT
*
96419973 AATACGCCATAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
1 AATACGCCACAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
* * * * * *
96420023 AATACGCCGCAAAGGCTTTTCAGAGGATTTGCCACAAAGGCTTTCTAGAG
1 AATACGCCACAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
96420073 TGGTGAAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (50 bp):
AATACGCCACAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
Found at i:96421773 original size:15 final size:16
Alignment explanation
Indices: 96421743--96421776 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
96421733 CATGCCAACA
96421743 ACAACATCTTATATCAT
1 ACAACATC-TATATCAT
96421760 ACAACATC-ATATCAT
1 ACAACATCTATATCAT
96421775 AC
1 AC
96421777 CGCACATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (16 bp):
ACAACATCTATATCAT
Found at i:96429865 original size:111 final size:114
Alignment explanation
Indices: 96429681--96429896 Score: 321
Period size: 111 Copynumber: 1.9 Consensus size: 114
96429671 TAACTTCCAT
* * *
96429681 TCATTCAAAAATTAGGATTTCTATCATATATATATATATATATATATAAAAGAACTATAAATTAT
1 TCATTCAAAAATTAGGATTTCTATCATATATACATAGATATATATAT-AAACAACTATAAATTAT
*
96429746 AGAATTGTTGGATTTAAATATTTTCATTCATCCAACAATTCATCAATTCA
65 AGAATTGTTGGATTTAAATATTTTCATTAATCCAACAATTCATCAATTCA
* * * *
96429796 TCATTCAAAAATTAGGATTTCTAT-A-ATATGCGTAGGTATATATAT-GACAACTATAAATTATA
1 TCATTCAAAAATTAGGATTTCTATCATATATACATAGATATATATATAAACAACTATAAATTATA
*
96429858 GACTTGTTGGATTTAAATATTTTCATTAATCCAACAATT
66 GAATTGTTGGATTTAAATATTTTCATTAATCCAACAATT
96429897 GATGAAATTC
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
111 52 0.57
113 15 0.16
114 1 0.01
115 24 0.26
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (114 bp):
TCATTCAAAAATTAGGATTTCTATCATATATACATAGATATATATATAAACAACTATAAATTATA
GAATTGTTGGATTTAAATATTTTCATTAATCCAACAATTCATCAATTCA
Found at i:96433273 original size:10 final size:10
Alignment explanation
Indices: 96433260--96433367 Score: 52
Period size: 9 Copynumber: 11.3 Consensus size: 10
96433250 ATCATAAAAG
96433260 AATATTTAAA
1 AATATTTAAA
*
96433270 AATATAT-AA
1 AATATTTAAA
*
96433279 AA-ATTGAAA
1 AATATTTAAA
*
96433288 AAAATATTAAA
1 AATAT-TTAAA
96433299 AATA-TT-AA
1 AATATTTAAA
*
96433307 AA-ATGTAAA
1 AATATTTAAA
96433316 ATATATTTAAA
1 A-ATATTTAAA
*
96433327 AAT-TGTAAA
1 AATATTTAAA
*
96433336 AA-AATTAAA
1 AATATTTAAA
*
96433345 TAT-TGTTAAA
1 AATAT-TTAAA
* *
96433355 AATCTTTTAA
1 AATATTTAAA
96433365 AAT
1 AAT
96433368 TGTAAAAAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
7 1 0.01
8 7 0.10
9 25 0.34
10 25 0.34
11 15 0.21
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (10 bp):
AATATTTAAA
Found at i:96433299 original size:9 final size:9
Alignment explanation
Indices: 96433260--96433344 Score: 59
Period size: 9 Copynumber: 9.0 Consensus size: 9
96433250 ATCATAAAAG
96433260 AATATTTAAA
1 AATA-TTAAA
96433270 AATATATAAA
1 AATAT-TAAA
*
96433280 AAT-TGAAAAA
1 AATAT--TAAA
96433290 AATATTAAA
1 AATATTAAA
96433299 AATATTAAA
1 AATATTAAA
*
96433308 AAT-GTAAA
1 AATATTAAA
96433316 ATATATTTAAA
1 A-ATA-TTAAA
96433327 AAT-TGTAAA
1 AATAT-TAAA
*
96433336 AAAATTAAA
1 AATATTAAA
96433345 TATTGTTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
8 6 0.10
9 29 0.47
10 21 0.34
11 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
AATATTAAA
Found at i:96433308 original size:18 final size:18
Alignment explanation
Indices: 96433260--96433398 Score: 61
Period size: 19 Copynumber: 7.3 Consensus size: 18
96433250 ATCATAAAAG
96433260 AATATTTAAAAATATATAAA
1 AATA-TTAAAAAT-TATAAA
* *
96433280 AAT-TGAAAAAAATATTAAA
1 AATAT-TAAAAATTA-TAAA
96433299 AATATTAAAAATGTA-AAA
1 AATATTAAAAAT-TATAAA
* *
96433317 TATATTTAAAAATTGTAAA
1 AATA-TTAAAAATTATAAA
* * *
96433336 AAAATTAAATATTGTTAAA
1 AATATTAAAAATT-ATAAA
* * *
96433355 AATCTTTTAAAATTGTAAAA
1 AAT-ATTAAAAATTAT-AAA
96433375 AAGTTATTAAAAA-TA-AAA
1 AA--TATTAAAAATTATAAA
96433393 AATATT
1 AATATT
96433399 TAATTTTTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 26
0.67 0.13 0.19
Matches are distributed among these distances:
16 4 0.04
18 23 0.26
19 37 0.41
20 19 0.21
21 6 0.07
22 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
AATATTAAAAATTATAAA
Found at i:96433308 original size:28 final size:29
Alignment explanation
Indices: 96433255--96433337 Score: 100
Period size: 28 Copynumber: 2.9 Consensus size: 29
96433245 AAAAGATCAT
*
96433255 AAAAGAATATTTAAAAATATATAAAAATTG
1 AAAAAAATATTTAAAAATATATAAAAA-TG
96433285 AAAAAAATA-TTAAAAATAT-TAAAAATG
1 AAAAAAATATTTAAAAATATATAAAAATG
* * *
96433312 TAAAATATATTTAAAAAT-TGTAAAAA
1 AAAAAAATATTTAAAAATATATAAAAA
96433338 AATTAAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 10 0.21
28 20 0.42
29 10 0.21
30 8 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAAAATATTTAAAAATATATAAAAATG
Found at i:96433337 original size:37 final size:36
Alignment explanation
Indices: 96433287--96433401 Score: 108
Period size: 38 Copynumber: 3.1 Consensus size: 36
96433277 AAAAATTGAA
96433287 AAAAATAT-TAAAAATATTAAAAATGTAAAATATATTT
1 AAAAAT-TGTAAAAATATTAAAAATGTAAAA-ATATTT
* * *
96433324 AAAAATTGTAAAAAAATTAAATATTGTTAAAAATCTTT
1 AAAAATTGTAAAAATATTAAA-AATG-TAAAAATATTT
* *
96433362 TAAAATTGTAAAAAAGTTATTAAAAAT-AAAAAATATTT
1 AAAAATTGT-AAAAA--TATTAAAAATGTAAAAATATTT
96433400 AA
1 AA
96433402 TTTTTTAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
36 1 0.02
37 18 0.29
38 26 0.41
39 10 0.16
40 2 0.03
41 6 0.10
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (36 bp):
AAAAATTGTAAAAATATTAAAAATGTAAAAATATTT
Found at i:96433345 original size:28 final size:28
Alignment explanation
Indices: 96433261--96433357 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 28
96433251 TCATAAAAGA
* * *
96433261 ATAT-TTAAAAATATATAAAAATTGAAAA
1 ATATATTAAAAATTTAAAAAAATT-AAAT
* ** *
96433289 AAATATTAAAAATATTAAAAATGTAAAAT
1 ATATATTAAAAAT-TTAAAAAAATTAAAT
96433318 ATAT-TTAAAAATTGTAAAAAAATTAAAT
1 ATATATTAAAAATT-TAAAAAAATTAAAT
*
96433346 AT-TGTTAAAAAT
1 ATATATTAAAAAT
96433358 CTTTTAAAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
27 2 0.04
28 32 0.59
29 14 0.26
30 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
ATATATTAAAAATTTAAAAAAATTAAAT
Found at i:96433384 original size:20 final size:19
Alignment explanation
Indices: 96433296--96433431 Score: 79
Period size: 20 Copynumber: 7.1 Consensus size: 19
96433286 AAAAAATATT
*
96433296 AAAAA-TATTAAAAATGTA
1 AAAAATTATTAAAATTGTA
*
96433314 AAATATATT-TAAAAATTGTA
1 AAA-A-ATTATTAAAATTGTA
*
96433334 AAAAA--ATTAAATATTGTT
1 AAAAATTATTAAA-ATTGTA
*
96433352 AAAAATCTTTTAAAATTGTA
1 AAAAAT-TATTAAAATTGTA
*
96433372 AAAAAGTTATTAAAA--ATA
1 AAAAA-TTATTAAAATTGTA
** *
96433390 AAAAA-TATTTAATTTTTTA
1 AAAAATTA-TTAAAATTGTA
96433409 AAAAATTTATTAAAAATTGTA
1 AAAAA-TTATT-AAAATTGTA
96433430 AA
1 AA
96433432 TATTTAACAA
Statistics
Matches: 89, Mismatches: 14, Indels: 27
0.68 0.11 0.21
Matches are distributed among these distances:
16 2 0.02
17 8 0.09
18 21 0.24
19 9 0.10
20 32 0.36
21 17 0.19
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAAATTATTAAAATTGTA
Found at i:96433456 original size:3 final size:3
Alignment explanation
Indices: 96433448--96433563 Score: 232
Period size: 3 Copynumber: 38.7 Consensus size: 3
96433438 ACAAATCAAA
96433448 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
96433496 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
96433544 TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TT
96433564 TAATAATACA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 113 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:96433763 original size:20 final size:20
Alignment explanation
Indices: 96433733--96433921 Score: 83
Period size: 20 Copynumber: 9.6 Consensus size: 20
96433723 CCACCAATTC
*
96433733 ACAATTTTTTAATCATTATTT
1 ACAA-TTTTTAATAATTATTT
96433754 ACAATTTTTAATAATTATTT
1 ACAATTTTTAATAATTATTT
* * *
96433774 GCATTTTTTAAT-ATT-TTCC
1 ACAATTTTTAATAATTATT-T
* *
96433793 CCAATTTTTTATAATT-TTT
1 ACAATTTTTAATAATTATTT
* *
96433812 ACAAGTTTTAAATAAGGT-TTT
1 ACAA-TTTTTAATAA-TTATTT
* * *
96433833 ATAATTTTTAATATTTTTTTT
1 ACAATTTTTAATA-ATTATTT
*
96433854 ACAA-TATTAA-AA-TATTTT
1 ACAATTTTTAATAATTA-TTT
* *
96433872 AAAAAATATTTAATAATTA-TT
1 --ACAATTTTTAATAATTATTT
** *
96433893 ACAATAATTAAT--TTTTTT
1 ACAATTTTTAATAATTATTT
96433911 ACAATTTTTAA
1 ACAATTTTTAA
96433922 ATTTTTTTTT
Statistics
Matches: 127, Mismatches: 28, Indels: 29
0.69 0.15 0.16
Matches are distributed among these distances:
17 3 0.02
18 16 0.13
19 26 0.20
20 55 0.43
21 23 0.18
22 2 0.02
23 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (20 bp):
ACAATTTTTAATAATTATTT
Found at i:96433914 original size:18 final size:19
Alignment explanation
Indices: 96433891--96433929 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
96433881 TTAATAATTA
96433891 TTACAATAATT-AATTTTT
1 TTACAATAATTAAATTTTT
**
96433909 TTACAATTTTTAAATTTTT
1 TTACAATAATTAAATTTTT
96433928 TT
1 TT
96433930 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTACAATAATTAAATTTTT
Found at i:96433929 original size:20 final size:20
Alignment explanation
Indices: 96433829--96433989 Score: 91
Period size: 20 Copynumber: 8.2 Consensus size: 20
96433819 TTAAATAAGG
*
96433829 TTTTATAATTTTTAATATTTT
1 TTTTACAATTTTTAA-ATTTT
* * *
96433850 TTTTACAATATTAAAATATT
1 TTTTACAATTTTTAAATTTT
** * * **
96433870 TTAAAAAATATTT-AATAAT
1 TTTTACAATTTTTAAATTTT
* **
96433889 TATTACAATAATT-AA-TTT
1 TTTTACAATTTTTAAATTTT
96433907 TTTTACAATTTTTAAATTTT
1 TTTTACAATTTTTAAATTTT
**
96433927 TTTTTTAATTTTTAACA-TTT
1 TTTTACAATTTTTAA-ATTTT
* *
96433947 TTTAATAA--TTTAAATATTT
1 TTTTACAATTTTTAAAT-TTT
*
96433966 TTTTACGATTTTTAAATTTT
1 TTTTACAATTTTTAAATTTT
96433986 TTTT
1 TTTT
96433990 TATAAAATTT
Statistics
Matches: 107, Mismatches: 26, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
17 1 0.01
18 16 0.15
19 25 0.23
20 45 0.42
21 20 0.19
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTACAATTTTTAAATTTT
Found at i:96434000 original size:21 final size:20
Alignment explanation
Indices: 96433944--96434009 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
96433934 ATTTTTAACA
*
96433944 TTTTTTAATAATTTAAATAT
1 TTTTTTAAAAATTTAAATAT
* ** *
96433964 TTTTTTACGATTTTTAAATTT
1 TTTTTTA-AAAATTTAAATAT
96433985 TTTTTTATAAAATTTACAATAT
1 TTTTTTA-AAAATTTA-AATAT
96434007 TTT
1 TTT
96434010 GGTTTGGTCA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 7 0.21
21 20 0.59
22 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTTAAAAATTTAAATAT
Found at i:96438052 original size:16 final size:16
Alignment explanation
Indices: 96438031--96438084 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
96438021 TTTGGTTCAC
*
96438031 TGTAATAGAATAGGGT
1 TGTAATAGAATAGAGT
*
96438047 TGTAATTGAATAGAGT
1 TGTAATAGAATAGAGT
* *
96438063 TGTAATGGAATAGAGC
1 TGTAATAGAATAGAGT
96438079 TGTAAT
1 TGTAAT
96438085 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:96438361 original size:12 final size:11
Alignment explanation
Indices: 96438334--96438408 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
96438324 TATTAAATAC
96438334 AATTTAATAA-
1 AATTTAATAAT
96438344 AA--TAATATAT
1 AATTTAATA-AT
96438354 AATTTAATAAT
1 AATTTAATAAT
*
96438365 ATTCTTAAT-AT
1 AAT-TTAATAAT
96438376 AATTATTAATAAT
1 AA-T-TTAATAAT
96438389 -ATTTAATAAT
1 AATTTAATAAT
96438399 AATTTTAATA
1 AA-TTTAATA
96438409 TAAAATTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 12 0.23
11 9 0.17
12 24 0.45
13 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:96438378 original size:22 final size:21
Alignment explanation
Indices: 96438350--96438408 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
96438340 ATAAAATAAT
96438350 ATATAA-TTTAATAATATTCTTA
1 ATATAATTTTAATAATA-T-TTA
96438372 ATATAATTATTAATAATATTTA
1 ATATAATT-TTAATAATATTTA
96438394 ATAATAATTTTAATA
1 AT-ATAATTTTAATA
96438409 TAAAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 17 0.50
23 8 0.24
24 9 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATAATTTTAATAATATTTA
Found at i:96438830 original size:27 final size:27
Alignment explanation
Indices: 96438756--96438844 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
96438746 ATAACAAAAT
96438756 AAAAACTCATAG-TCTTT-TGTTATTC
1 AAAAACTCATAGTTCTTTATGTTATTC
*
96438781 AAAAAC-CATAGTCCTTAATTTTATGTTATTC
1 AAAAACTCATAG---TT--CTTTATGTTATTC
96438812 AAAAACTCATAGTTCTTTATGTTATTC
1 AAAAACTCATAGTTCTTTATGTTATTC
96438839 AAAAAC
1 AAAAAC
96438845 ATGAAGAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
24 5 0.09
25 6 0.11
27 18 0.33
28 1 0.02
29 2 0.04
30 3 0.06
31 14 0.26
32 5 0.09
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAAACTCATAGTTCTTTATGTTATTC
Found at i:96440634 original size:53 final size:53
Alignment explanation
Indices: 96440570--96440703 Score: 207
Period size: 53 Copynumber: 2.5 Consensus size: 53
96440560 TCATACCAAA
* *
96440570 GCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTATACCGAT
1 GCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTACACCGAT
* *
96440623 GCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGCACCGAT
1 GCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTACACCGAT
*
96440676 GCCATAGCCCAGCTATGGTCTTAAACGG
1 GCCATAGCCCAGCTATGGTCTTATACGG
96440704 GCGCACTTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
52 1 0.01
53 74 0.99
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (53 bp):
GCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTACACCGAT
Found at i:96446562 original size:53 final size:53
Alignment explanation
Indices: 96446481--96446631 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
96446471 CTTACACGGT
* *
96446481 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
96446536 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
96446589 TCACATTGCACCGATGCCATAGCCCAGCTATGATCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
96446632 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:96453733 original size:28 final size:28
Alignment explanation
Indices: 96453701--96453759 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
96453691 TACTACAGAA
96453701 ATTCAACCAAAATTATTATATTTAAAAG
1 ATTCAACCAAAATTATTATATTTAAAAG
96453729 ATTCAACCAAAATTATTATATTTAAAAG
1 ATTCAACCAAAATTATTATATTTAAAAG
96453757 ATT
1 ATT
96453760 TATCAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (28 bp):
ATTCAACCAAAATTATTATATTTAAAAG
Found at i:96454794 original size:19 final size:19
Alignment explanation
Indices: 96454772--96454809 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96454762 ATTAATAGAA
96454772 AAAACTAATAGCCCACATT
1 AAAACTAATAGCCCACATT
*
96454791 AAAACTAATAGCTCACATT
1 AAAACTAATAGCCCACATT
96454810 CTAGTCCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAACTAATAGCCCACATT
Found at i:96457432 original size:15 final size:15
Alignment explanation
Indices: 96457412--96457443 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
96457402 GTACAAACAA
96457412 AAAGATGATAAATGC
1 AAAGATGATAAATGC
96457427 AAAGATGATAAATGC
1 AAAGATGATAAATGC
96457442 AA
1 AA
96457444 GGATACGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (15 bp):
AAAGATGATAAATGC
Found at i:96459173 original size:27 final size:26
Alignment explanation
Indices: 96459132--96459188 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
96459122 ACGAGGACAT
*
96459132 AAAATATGTTTTTTA-AGTGCAACCACGA
1 AAAATATGTTATTTATAG-GC-ACCA-GA
96459160 AAAATAT-TTATTTATAGGCACCAGA
1 AAAATATGTTATTTATAGGCACCAGA
96459185 AAAA
1 AAAA
96459189 AGCACCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 4 0.15
27 8 0.30
28 9 0.33
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (26 bp):
AAAATATGTTATTTATAGGCACCAGA
Found at i:96462087 original size:20 final size:19
Alignment explanation
Indices: 96462049--96462087 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
96462039 GGTGAACACC
*
96462049 AGAACACTCGATACAAAGA
1 AGAACACCCGATACAAAGA
*
96462068 AGAACACCCAGATTCAAAGA
1 AGAACACCC-GATACAAAGA
96462088 TGCCCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.23, G:0.15, T:0.10
Consensus pattern (19 bp):
AGAACACCCGATACAAAGA
Found at i:96475242 original size:18 final size:18
Alignment explanation
Indices: 96475219--96475256 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
96475209 GATGATAATT
96475219 TAGCCAATTCATCTGACA
1 TAGCCAATTCATCTGACA
96475237 TAGCCAATTCATCTGACA
1 TAGCCAATTCATCTGACA
96475255 TA
1 TA
96475257 CTTCTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
TAGCCAATTCATCTGACA
Found at i:96486455 original size:13 final size:13
Alignment explanation
Indices: 96486437--96486463 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96486427 GCTCGGCAGG
96486437 GACACGCCCGTGT
1 GACACGCCCGTGT
96486450 GACACGCCCGTGT
1 GACACGCCCGTGT
96486463 G
1 G
96486464 CGATTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:96506909 original size:93 final size:93
Alignment explanation
Indices: 96506797--96506968 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96506787 CGCCCATAAG
* *
96506797 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96506862 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
96506890 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96506955 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
96506969 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96506965 original size:46 final size:46
Alignment explanation
Indices: 96506790--96506965 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96506780 TGTAACCCGC
* * *
96506790 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
96506836 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96506886 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96506929 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96506966 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96514476 original size:93 final size:93
Alignment explanation
Indices: 96514364--96514535 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96514354 CGCCCATAAG
* *
96514364 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96514429 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
96514457 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96514522 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
96514536 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96514532 original size:46 final size:46
Alignment explanation
Indices: 96514357--96514532 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96514347 TGTAACCCGC
* * *
96514357 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
96514403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96514453 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96514496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96514533 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96522031 original size:5 final size:5
Alignment explanation
Indices: 96522023--96522053 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
96522013 GAGATGGAAT
96522023 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
96522054 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:96522245 original size:14 final size:14
Alignment explanation
Indices: 96522212--96522248 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
96522202 ACATCAACCC
*
96522212 AAATA-AACAACAA
1 AAATACAACAAAAA
96522225 AAA-ACAACAAAAA
1 AAATACAACAAAAA
96522238 AAATACAACAA
1 AAATACAACAA
96522249 GATTATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 13 0.62
14 7 0.33
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.05
Consensus pattern (14 bp):
AAATACAACAAAAA
Found at i:96522682 original size:219 final size:210
Alignment explanation
Indices: 96522305--96522705 Score: 561
Period size: 219 Copynumber: 1.9 Consensus size: 210
96522295 GTGGAAGTAA
* * **
96522305 ACAACGACATTATAATAAAAAAACATAAGAAAAAGTCCAAAATACAAAAGAAAGTTACACCACTC
1 ACAACAACATTATAATAAAAAAACATAAGAAAAAATCCAAAATACAAAAGAAACCTACACCACTC
* * * *
96522370 CAAACAAAAAAAAACACAACAAAAGTTCAATTAACCAACGACAGTAACAAACCAAACCAAACTAA
66 CAAAAAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACTAA
*
96522435 TAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCAAATA
131 TAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAATA
96522500 AACAACAAAAACAAT
196 AACAACAAAAACAAT
* *
96522515 ACAACAACATTGTAATTAAAAAAAACATAA-ACAAAAATCCAAAATACAATAGAAACCTACACCA
1 ACAACAACATTATAA-T-AAAAAAACATAAGA-AAAAATCCAAAATACAAAAGAAACCTACACCA
* *
96522579 GTCCAAAAAAAAAAAAGAACACAACAAAAGCTCAATTATCCAACAACAATAACAAACCAAACCAA
63 CTCC-AAAAAAAAAAA-AACACAACAAAAGCTCAATTAACCAACAACAAT----AA-CAAACCAA
* * *
96522644 ACCAAACTAATAACAATAACACATCAGTTCAGAAACCATTATAGAATAGTTTAACTTTCTTC
121 ACCAAACTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
96522706 TTGTGCTTCA
Statistics
Matches: 165, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
210 13 0.08
211 2 0.01
212 43 0.26
213 10 0.06
214 29 0.18
218 2 0.01
219 66 0.40
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.17
Consensus pattern (210 bp):
ACAACAACATTATAATAAAAAAACATAAGAAAAAATCCAAAATACAAAAGAAACCTACACCACTC
CAAAAAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACTAA
TAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAATA
AACAACAAAAACAAT
Found at i:96523795 original size:30 final size:30
Alignment explanation
Indices: 96523760--96523826 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
96523750 GTTAAATTAA
*
96523760 AAATTAATTAATATAATAGTATAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
96523790 AAATTAATTAATATAATAGTACAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
96523820 AAATTAA
1 AAATTAA
96523827 AAATAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTAATTAATATAATAGTACAATAGCAT
Found at i:96525926 original size:9 final size:9
Alignment explanation
Indices: 96525914--96525946 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
96525904 TTGAGTTGAT
*
96525914 TCGATTAAT
1 TCGATTAAC
96525923 TCGATTAAC
1 TCGATTAAC
96525932 TCGATTAAC
1 TCGATTAAC
96525941 TCGATT
1 TCGATT
96525947 CGAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (9 bp):
TCGATTAAC
Found at i:96527237 original size:11 final size:11
Alignment explanation
Indices: 96527221--96527275 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
96527211 TTCCATTTTC
*
96527221 TTTATAATTAT
1 TTTATATTTAT
96527232 TTTATATTTTAT
1 TTTATA-TTTAT
*
96527244 TTATCTATTTAT
1 TT-TATATTTAT
96527256 TTTAT-TTTAT
1 TTTATATTTAT
96527266 TATTAT-TTTA
1 T-TTATATTTA
96527276 GTCTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 6 0.16
11 16 0.42
12 13 0.34
13 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATATTTAT
Found at i:96527255 original size:30 final size:31
Alignment explanation
Indices: 96527221--96527294 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
96527211 TTCCATTTTC
*
96527221 TTTATAATTATTTTA-TATTTTATTTA-TCTA
1 TTTATAATTATTTTATTATTAT-TTTAGTCTA
*
96527251 TTTAT-TTTATTTTATTATTATTTTAGTCTA
1 TTTATAATTATTTTATTATTATTTTAGTCTA
* *
96527281 TTTTTAATTCTTTT
1 TTTATAATTATTTT
96527295 GATTCTTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.33
30 18 0.50
31 6 0.17
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (31 bp):
TTTATAATTATTTTATTATTATTTTAGTCTA
Found at i:96527258 original size:17 final size:16
Alignment explanation
Indices: 96527236--96527275 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
96527226 AATTATTTTA
96527236 TATTTTA-TTTATCTATT
1 TATTTTATTTTAT-TA-T
96527253 TATTTTATTTTATTAT
1 TATTTTATTTTATTAT
96527269 TATTTTA
1 TATTTTA
96527276 GTCTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTATTTTATTAT
Found at i:96529536 original size:47 final size:47
Alignment explanation
Indices: 96529403--96529609 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
96529393 ATAGTAAAAT
** * *
96529403 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
96529452 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
96529498 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
96529545 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
96529597 TATGGTCTTATAC
1 TATGGTCTTATAC
96529610 GGAAATCACA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 27 0.21
47 55 0.42
48 10 0.08
49 11 0.08
52 27 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:96532135 original size:6 final size:6
Alignment explanation
Indices: 96532120--96532207 Score: 81
Period size: 6 Copynumber: 14.8 Consensus size: 6
96532110 ATTGAGTCTA
* * * * *
96532120 TTTATC TTTATG TTTATG TTTATT TTTATT TTTAT- TTTCATT TTTATC
1 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TTT-ATC TTTATC
* * *
96532168 TTTATC TTTATC TTTATT TTTATG TTTAT- TTTGTC TTTAT
1 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TTTAT
96532208 ATTTTGAACT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
5 7 0.10
6 62 0.86
7 3 0.04
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (6 bp):
TTTATC
Found at i:96532141 original size:12 final size:12
Alignment explanation
Indices: 96532120--96532212 Score: 91
Period size: 12 Copynumber: 7.8 Consensus size: 12
96532110 ATTGAGTCTA
* *
96532120 TTTATCTTTATG
1 TTTATTTTTATC
* *
96532132 TTTATGTTTATT
1 TTTATTTTTATC
96532144 TTTATTTTTAT-
1 TTTATTTTTATC
96532155 TTTCATTTTTATC
1 TTT-ATTTTTATC
*
96532168 TTTATCTTTATC
1 TTTATTTTTATC
*
96532180 TTTATTTTTATG
1 TTTATTTTTATC
*
96532192 TTTA-TTTTGTC
1 TTTATTTTTATC
96532203 TTTATATTTT
1 TTTAT-TTTT
96532213 GAACTCTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
11 12 0.17
12 50 0.72
13 7 0.10
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:96532147 original size:18 final size:18
Alignment explanation
Indices: 96532120--96532199 Score: 99
Period size: 18 Copynumber: 4.4 Consensus size: 18
96532110 ATTGAGTCTA
* *
96532120 TTTATCTTTATGTTTATG
1 TTTATTTTTATTTTTATG
96532138 TTTATTTTTATTTTTAT-
1 TTTATTTTTATTTTTATG
* *
96532155 TTTCATTTTTATCTTTATC
1 TTT-ATTTTTATTTTTATG
*
96532174 TTTATCTTTATTTTTATG
1 TTTATTTTTATTTTTATG
96532192 TTTATTTT
1 TTTATTTT
96532200 GTCTTTATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
17 3 0.06
18 47 0.89
19 3 0.06
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATTTTTATG
Found at i:96533155 original size:5 final size:5
Alignment explanation
Indices: 96533147--96533178 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96533137 TATTATTAAA
96533147 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
96533179 GATATATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:96535595 original size:19 final size:20
Alignment explanation
Indices: 96535550--96535596 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
96535540 GTAGAAATTA
*
96535550 TTATTCTCAGAAAATAGAAT
1 TTATTCTAAGAAAATAGAAT
96535570 TTATTCTAAGAAAATA-AAT
1 TTATTCTAAGAAAATAGAAT
*
96535589 TTCTTCTA
1 TTATTCTA
96535597 CTTTTTGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (20 bp):
TTATTCTAAGAAAATAGAAT
Found at i:96540119 original size:51 final size:51
Alignment explanation
Indices: 96540062--96540177 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
96540052 AAAAACATAA
* * * * *
96540062 ATTCATTTCCAAGTCATTTTCATTT-TTCTTTTTCTTTTTGGAGCAAACCAC
1 ATTCATTTCCAAATCA-TTCCATTTCTTCATTTTCATTTTGGAGAAAACCAC
* *
96540113 ATTCATTTCCAAATTATTCCATTTCTTCATTTTCATTTTGGAGAAAACCAT
1 ATTCATTTCCAAATCATTCCATTTCTTCATTTTCATTTTGGAGAAAACCAC
*
96540164 AATCATTTCCAAAT
1 ATTCATTTCCAAAT
96540178 GTTTGTCATT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 7 0.12
51 49 0.88
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.46
Consensus pattern (51 bp):
ATTCATTTCCAAATCATTCCATTTCTTCATTTTCATTTTGGAGAAAACCAC
Found at i:96548124 original size:14 final size:14
Alignment explanation
Indices: 96548105--96548134 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
96548095 AAATAGCTTT
96548105 AAATATATAAACCA
1 AAATATATAAACCA
96548119 AAATATATAAACCA
1 AAATATATAAACCA
96548133 AA
1 AA
96548135 GCTTAGTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATATATAAACCA
Found at i:96549227 original size:15 final size:15
Alignment explanation
Indices: 96549207--96549236 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96549197 CATTTTATTT
96549207 ATATTAGGATAATTA
1 ATATTAGGATAATTA
96549222 ATATTAGGATAATTA
1 ATATTAGGATAATTA
96549237 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:96549301 original size:20 final size:20
Alignment explanation
Indices: 96549261--96549308 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
96549251 ATTTTAGGAT
*
96549261 TTTAT-TTTAATTATCTTTA
1 TTTATCTTTAATTATCTGTA
96549280 TTTATCTTTAATTAAT-TGTA
1 TTTATCTTTAATT-ATCTGTA
96549300 TTTATCTTT
1 TTTATCTTT
96549309 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTATCTGTA
Found at i:96553443 original size:16 final size:16
Alignment explanation
Indices: 96553424--96553472 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
96553414 CTTTATTCTT
*
96553424 TTATTCTTTTATTATA
1 TTATTATTTTATTATA
* *
96553440 TTATTATTATATTTTA
1 TTATTATTTTATTATA
96553456 TTAATTATTATTATTAT
1 TT-ATTATT-TTATTAT
96553473 TTACTTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 15 0.58
17 6 0.23
18 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTTTATTATA
Found at i:96553444 original size:3 final size:3
Alignment explanation
Indices: 96553432--96553473 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
96553422 TTTTATTCTT
96553432 TTA TTA -TA TTA TTA TTA -TA TT- TTA TTAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT
96553474 TACTTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.17
3 26 0.74
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96553464 original size:17 final size:16
Alignment explanation
Indices: 96553433--96553485 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
96553423 TTTATTCTTT
96553433 TATTATATTATTATTA
1 TATTATATTATTATTA
*
96553449 TATTTTATTAATTATTA
1 TATTATATT-ATTATTA
*
96553466 TTATTAT-TTACTTATAA
1 -TATTATATTA-TTATTA
96553483 TAT
1 TAT
96553486 AAGTAAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.39
17 14 0.45
18 5 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:96553464 original size:20 final size:22
Alignment explanation
Indices: 96553424--96553474 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
96553414 CTTTATTCTT
*
96553424 TTATTCTTTTATTATATTATTA
1 TTATTATTTTATTATATTATTA
96553446 TTA-TATTTTATTA-ATTATTA
1 TTATTATTTTATTATATTATTA
96553466 TTATTATTT
1 TTATTATTT
96553475 ACTTATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 14 0.52
22 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATTATTTTATTATATTATTA
Found at i:96553483 original size:23 final size:23
Alignment explanation
Indices: 96553430--96553472 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
96553420 TCTTTTATTC
96553430 TTTTATT-A-TATTATTATTATA
1 TTTTATTAATTATTATTATTATA
96553451 TTTTATTAATTATTATTATTAT
1 TTTTATTAATTATTATTATTAT
96553473 TTACTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 1 0.05
23 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTATTAATTATTATTATTATA
Found at i:96553687 original size:19 final size:20
Alignment explanation
Indices: 96553652--96553689 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96553642 AATCCTTACA
96553652 CTAAATTAACGTTAATTAAG
1 CTAAATTAACGTTAATTAAG
*
96553672 CTAAATTTAC-TTAATTAA
1 CTAAATTAACGTTAATTAA
96553690 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (20 bp):
CTAAATTAACGTTAATTAAG
Found at i:96559160 original size:107 final size:107
Alignment explanation
Indices: 96559027--96559240 Score: 401
Period size: 107 Copynumber: 2.0 Consensus size: 107
96559017 CTTGAAACTC
96559027 CAAAACCCCAATTTATCCCTTTATCTTTTCTCCTTTCTTTTTCTTTCCTATTTCATTCCACTTTG
1 CAAAACCCCAATTTATCCCTTTATCTTTTCTCCTTTCTTTTTCTTTCCTATTTCATTCCACTTTG
96559092 TCTGTTCTTTCTTTCTTTTTCTATTTTATTTCTTTATTCTTT
66 TCTGTTCTTTCTTTCTTTTTCTATTTTATTTCTTTATTCTTT
* * *
96559134 CAAAACCCTAATTTTTCCCTTTATCTTTTCTCCTTTCTTTTTCTTTCCTATTTCGTTCCACTTTG
1 CAAAACCCCAATTTATCCCTTTATCTTTTCTCCTTTCTTTTTCTTTCCTATTTCATTCCACTTTG
96559199 TCTGTTCTTTCTTTCTTTTTCTATTTTATTTCTTTATTCTTT
66 TCTGTTCTTTCTTTCTTTTTCTATTTTATTTCTTTATTCTTT
96559241 TATTCTTTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.12, C:0.25, G:0.02, T:0.61
Consensus pattern (107 bp):
CAAAACCCCAATTTATCCCTTTATCTTTTCTCCTTTCTTTTTCTTTCCTATTTCATTCCACTTTG
TCTGTTCTTTCTTTCTTTTTCTATTTTATTTCTTTATTCTTT
Found at i:96559259 original size:16 final size:16
Alignment explanation
Indices: 96559248--96559287 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
96559238 TTTTATTCTT
96559248 TTATTATATTATATTA
1 TTATTATATTATATTA
*
96559264 TTATTATATTTTATTAA
1 TTATTATATTATATT-A
96559281 TTATTAT
1 TTATTAT
96559288 TATTTACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:96559264 original size:10 final size:11
Alignment explanation
Indices: 96559249--96559303 Score: 64
Period size: 10 Copynumber: 5.3 Consensus size: 11
96559239 TTTATTCTTT
96559249 TATTA-TATTA
1 TATTATTATTA
96559259 TATTATTATTA
1 TATTATTATTA
96559270 TATT-TTATTA
1 TATTATTATTA
96559280 -ATTATTATTA
1 TATTATTATTA
*
96559290 T-TTACTTATAA
1 TATTA-TTATTA
96559301 TAT
1 TAT
96559304 AAGTAAACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 3 0.08
10 20 0.51
11 15 0.38
12 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Found at i:96559265 original size:3 final size:3
Alignment explanation
Indices: 96559248--96559291 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
96559238 TTTTATTCTT
96559248 TTA TTA -TA TTA -TA TTA TTA TTA -TA TT- TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
96559290 TT
1 TT
96559292 TACTTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 25 0.69
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:96559284 original size:7 final size:6
Alignment explanation
Indices: 96559248--96559291 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 6
96559238 TTTTATTCTT
96559248 TTATTA -TATTA -TATTA TTATTA -TATT- TTATTAA TTATTA TTATT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATT-A TTATTA TTATT
96559292 TACTTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 18 0.53
6 11 0.32
7 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATTA
Found at i:96559505 original size:19 final size:20
Alignment explanation
Indices: 96559470--96559507 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96559460 AATCCTTACA
96559470 CTAAATTAACGTTAATTAAG
1 CTAAATTAACGTTAATTAAG
*
96559490 CTAAATTTAC-TTAATTAA
1 CTAAATTAACGTTAATTAA
96559508 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (20 bp):
CTAAATTAACGTTAATTAAG
Found at i:96560245 original size:51 final size:51
Alignment explanation
Indices: 96560180--96560408 Score: 194
Period size: 51 Copynumber: 4.5 Consensus size: 51
96560170 GTATATTGTG
* * * *
96560180 TAAGACCATAGATGAAAGAGGCTATGCCAGTCTGGTATAAGGTATATGGCA
1 TAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAAGGTATATGACA
* * * *
96560231 TAAGACTATAGATGAAAAAGGCTATACCAGTCTAGTATAAGGTATATGACG
1 TAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAAGGTATATGACA
* *** *
96560282 TAAGA-TCATAGATGAAAGAGACTATTATAGTATGGTA-AAGGTATATGACA
1 TAAGACT-ATAGATGAAAGAGGCTATGCCAGTATAGTATAAGGTATATGACA
* * * * * * * * * **
96560332 TAAGACCATGGATGAAATACGCCATGGCGGTAAATTATAAGGTA-ATCGGTA
1 TAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAAGGTATAT-GACA
*
96560383 TAAGACTATAGATGAAAGATGCTATG
1 TAAGACTATAGATGAAAGAGGCTATG
96560409 GAAGCCATAT
Statistics
Matches: 140, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
50 38 0.27
51 102 0.73
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (51 bp):
TAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAAGGTATATGACA
Done.